Citrus Sinensis ID: 040295

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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-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------29
Protein Sequence
ITYLSFRSHDIVSISLLIAIDEDRLSFVRVLIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKITEPSLPVKEVMMKKD
Secondary Structure (PSIPRED)
ccEEcccccccEEEEEEEEEcccccHHHHHHHcccccccccccccccccccEEEEccccccHHHHHHHHHcccccccccccccEEEEEEEEEEccEEEEEEEEEcccccccccccccccccccEEEEEEEcccHHHHHHHHHHHHHHHcccccEEEEEEEcccccccccccHHHHHHHHHHHHcccccccccccHHHHHcccccccccccHHHHHHHHHHHcccccHHHEcccccccccccccccccHHHHHHHHHHHHHccccccEEccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEEccccEEEEEEEEEEcccccEEEEEEEEccccccccccccHccccEEEEEEcccccHHHHHHHHHcccccccccccccEEEEEEEEEcEEEEEEEEEEEEEEcccccccccccccccEEEEEEEccccHHHHHHHHHHHHHccHHcEEEEEEEccccccccccccHHHHHHHHHHcccccccccHHHcccccccccHccccccccHHHHHHHHHHHHHcccEEEEEccccccHcccccccccccHHHHHHHHHHHccccccEEccccccccccccccHcccccc
Coil and Loop (DISEMBL)
itylsfrshdIVSISLLIAIDEDRLSFVRVLIFgrqemdstdraslekrpgiliigssnvgkRTILSRLLsvnfedasdssselLVNGWTINTKYYTADVSLWMAHLHeefsirslpisdQLTALVMVFNLndlstldalkhwvpsidlqKFEILLCIGnkvdllpghpvhAEYRRRLLKreessadpdfcqsgisetegssllgdeepsweIRRSCLEWCTEHRIEYIEACasnvdfdkclsidgdsqGVERLYGALsahmwpgmvlksgdkitepslpvkevmmkkd
Flexible Loop (DISEMBL)
itylsfrshdIVSISlliaidedrLSFVRVLIFgrqemdstdraslekrpgiliigssnvgkrTILSRLLSVNfedasdsssellVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNkvdllpghpVHAEYRRRLLKreessadpdfcqsgisetegssllgdeepsWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKsgdkitepslpvkevmmkkd
Low Complexity Region (SEG)
ITYLSFRSHDIVSISLLIAIDEDRLSFVRVLIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKITEPSLPVKEVMMKKD
Disordered region (IsUnstruct)
**YLSFRSHDIVSISLLIAIDEDRLSFVRVLIFGRQ*************PGILIIGSSNVGKRTILSRLLSVNFEDA****SELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRR**********************************WEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLK********************
Disordered Region (DISOPRED)
*TYLSF*SHDIVSISLLIAIDEDRLSFV**********************GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL*********************RIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVL*********************
Disordered Region (DISEMBL)
ITYLSFRSHDIVSISLLIAIDEDRLSFVRVLIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKITEPSLPVKEVMMKKD
Disordered Region (DISPRO)
ITYLSFRSHDIVSISLLIAIDEDRLSFVRVLIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKITEPSL**********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
ITYLSFRSHDIVSISLLIAIDEDRLSFVRVLIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKITEPSLPVKEVMMKKD
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	289	2.2.26 [Sep-21-2011]
Q8R2R3	316	Alpha- and gamma-adaptin-	yes	no	0.439	0.401	0.229	2e-05
Q9R0Z7	315	Alpha- and gamma-adaptin-	yes	no	0.439	0.403	0.229	8e-05
P36862	203	GTP-binding protein yptV3	N/A	no	0.432	0.615	0.258	8e-05
Q5RET3	315	Alpha- and gamma-adaptin-	yes	no	0.439	0.403	0.224	0.0002
P90726	202	Ras-related protein Rab-1	N/A	no	0.449	0.643	0.253	0.0002
Q6PD74	315	Alpha- and gamma-adaptin-	yes	no	0.439	0.403	0.224	0.0003
P35284	243	Ras-related protein Rab-1	no	no	0.387	0.460	0.254	0.0003
Q6IQ22	244	Ras-related protein Rab-1	no	no	0.387	0.459	0.254	0.0004
P35283	243	Ras-related protein Rab-1	no	no	0.387	0.460	0.254	0.0004
Q5JT25	222	Ras-related protein Rab-4	no	no	0.480	0.626	0.256	0.0005

>sp|Q8R2R3|AAGAB_MOUSE Alpha- and gamma-adaptin-binding protein p34 OS=Mus musculus GN=Aagab PE=2 SV=2

 Score = 50.1 bits (118), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 43/187 (22%), Positives = 81/187 (43%), Gaps = 60/187 (32%)

Query: 89  WTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSID 148
           WTI+ KYY+A+++L +  +  +F + +  I++ + A V+ F+    S LD++  W+P  +
Sbjct: 47  WTIDNKYYSAEINLCV--VPSKFLV-TAEIAESVQAFVVYFDSTQKSGLDSVSSWLPLAE 103

Query: 149 LQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEE 208
               E+++ + ++V                            C  GI+            
Sbjct: 104 AWLAEVMILVCDRV----------------------------CDDGIN------------ 123

Query: 209 PSWEIRRSCLEWCTEHRIEYIEACASNV-----DFDKCLSIDGDSQGVERLYGALSAHMW 263
                R+   EWC +H  E +E     +     DF        +S GV+R+  AL+A++W
Sbjct: 124 -----RQQAQEWCIKHGFELVELNPEELPEEDDDFP-------ESTGVKRIVQALNANVW 171

Query: 264 PGMVLKS 270
             +V+KS
Sbjct: 172 SNVVMKS 178

May play a role in membrane traffic.
Mus musculus (taxid: 10090)

>sp|Q9R0Z7|AAGAB_RAT Alpha- and gamma-adaptin-binding protein p34 OS=Rattus norvegicus GN=Aagab PE=1 SV=1

 Score = 48.1 bits (113), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 43/187 (22%), Positives = 79/187 (42%), Gaps = 60/187 (32%)

Query: 89  WTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSID 148
           WTI+ KYY+A+V+L +       +     I++ + A V+ F+    S LD++  W+P  +
Sbjct: 47  WTIDNKYYSAEVNLCVVPSKCRVTAE---IAEAVQAFVVYFDSTQKSGLDSVSSWLPLAE 103

Query: 149 LQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEE 208
               E+++ + ++V                            C+ GI+            
Sbjct: 104 TWLPEVMILVCDRV----------------------------CEDGIN------------ 123

Query: 209 PSWEIRRSCLEWCTEHRIEYIEACASNV-----DFDKCLSIDGDSQGVERLYGALSAHMW 263
                R+   EWC +H  E +E C   +     DF        +S GV+R+  AL+A++W
Sbjct: 124 -----RQQAQEWCIKHGFELVELCPEELPEEDDDFP-------ESTGVKRIVQALNANVW 171

Query: 264 PGMVLKS 270
             +V+K+
Sbjct: 172 SNVVMKN 178

May play a role in membrane traffic.

Rattus norvegicus (taxid: 10116)

>sp|P36862|YPTV3_VOLCA GTP-binding protein yptV3 OS=Volvox carteri GN=YPTV3 PE=3 SV=1

 Score = 48.1 bits (113), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 36/139 (25%), Positives = 64/139 (46%), Gaps = 14/139 (10%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTAD-----VSLWMAH 106
           +L++G S VGK  IL+R  S  FE+++ S+      G     KY TAD     +++W   
Sbjct: 12  VLLVGDSGVGKSCILTRFTSGIFEESTTSTI-----GVDFKVKYLTADGKRCKLTIWDTA 66

Query: 107 LHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALK-HWVPSIDLQ---KFEILLCIGNKV 162
             E F   +         ++ V+++    T ++L+ +W+   D+    +  I + + NKV
Sbjct: 67  GQERFRTLTSSYYRGAQGIIFVYDVTRRDTFESLEANWMREFDIYSTVESAIKMVVANKV 126

Query: 163 DLLPGHPVHAEYRRRLLKR 181
           DL     V +E      +R
Sbjct: 127 DLSAQRQVSSEEGHDFARR 145

Protein transport. Probably involved in vesicular traffic.

Volvox carteri (taxid: 3067)

>sp|Q5RET3|AAGAB_PONAB Alpha- and gamma-adaptin-binding protein p34 OS=Pongo abelii GN=AAGAB PE=2 SV=1

 Score = 46.6 bits (109), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 42/187 (22%), Positives = 81/187 (43%), Gaps = 60/187 (32%)

Query: 89  WTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSID 148
           WTI+ KYY+AD++L +  +  +F + +  I++ + A V+ F+    S LD++  W+P  +
Sbjct: 47  WTIDNKYYSADINLCV--VPNKFLVTA-EIAESVQAFVVYFDGTQKSGLDSVSSWLPLAE 103

Query: 149 LQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEE 208
               E+++ + ++V                             + GI+            
Sbjct: 104 AWLPEVMILVCDRV----------------------------SEDGIN------------ 123

Query: 209 PSWEIRRSCLEWCTEHRIEYIEACASNV-----DFDKCLSIDGDSQGVERLYGALSAHMW 263
                R+   EWC +H  E +E     +     DF        +S GV+R+  AL+A++W
Sbjct: 124 -----RQKAQEWCIKHGFELVELSPEELPEEDDDFP-------ESTGVKRIVQALNANVW 171

Query: 264 PGMVLKS 270
             +V+K+
Sbjct: 172 SNVVMKN 178

May play a role in membrane traffic.

Pongo abelii (taxid: 9601)

>sp|P90726|RAB18_CAEBR Ras-related protein Rab-18 OS=Caenorhabditis briggsae GN=rab-18 PE=3 SV=1

 Score = 46.6 bits (109), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 35/138 (25%), Positives = 61/138 (44%), Gaps = 8/138 (5%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNF--EDASDSSSELLVNGWTINTKYYTADVSLWMAHLHE 109
           ILIIG S VGK +++ R +   F  E A+    +  V   TI+       +++W     E
Sbjct: 14  ILIIGESGVGKSSLMLRFVDDVFDPEQAATIGVDFRVTSMTIDGNR--VKLAIWDTAGQE 71

Query: 110 EFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSID---LQKFEILLCIGNKVDLLP 166
            F   +         ++ V+++   S+ + LKHW+  +D        I + + NK+D +P
Sbjct: 72  RFRTLTPSYYRGAQGVICVYDVTSRSSFEKLKHWMTEVDTYCTNDNVIKMMVANKID-MP 130

Query: 167 GHPVHAEYRRRLLKREES 184
              V  E   +  KR  +
Sbjct: 131 NRTVTREEGLKFAKRHRT 148

Plays a role in apical endocytosis/recycling. May be implicated in transport between the plasma membrane and early endosomes.

Caenorhabditis briggsae (taxid: 6238)

>sp|Q6PD74|AAGAB_HUMAN Alpha- and gamma-adaptin-binding protein p34 OS=Homo sapiens GN=AAGAB PE=1 SV=1

 Score = 45.8 bits (107), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 42/187 (22%), Positives = 80/187 (42%), Gaps = 60/187 (32%)

Query: 89  WTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSID 148
           WTI+ KYY+AD++L +  +  +F + +  I++ + A V+ F+    S LD++  W+P   
Sbjct: 47  WTIDNKYYSADINLCV--VPNKFLVTA-EIAESVQAFVVYFDSTQKSGLDSVSSWLPLAK 103

Query: 149 LQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEE 208
               E+++ + ++V                             + GI+            
Sbjct: 104 AWLPEVMILVCDRV----------------------------SEDGIN------------ 123

Query: 209 PSWEIRRSCLEWCTEHRIEYIEACASNV-----DFDKCLSIDGDSQGVERLYGALSAHMW 263
                R+   EWC +H  E +E     +     DF        +S GV+R+  AL+A++W
Sbjct: 124 -----RQKAQEWCIKHGFELVELSPEELPEEDDDFP-------ESTGVKRIVQALNANVW 171

Query: 264 PGMVLKS 270
             +V+K+
Sbjct: 172 SNVVMKN 178

May play a role in membrane traffic.

Homo sapiens (taxid: 9606)

>sp|P35284|RAB12_RAT Ras-related protein Rab-12 OS=Rattus norvegicus GN=Rab12 PE=1 SV=2

 Score = 45.8 bits (107), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 29/114 (25%), Positives = 52/114 (45%), Gaps = 2/114 (1%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++IIGS  VGK +++ R     F +A  S+  +     T+  +     + +W     E F
Sbjct: 44  VIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERF 103

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEI--LLCIGNKVD 163
           +  +         +++V+++    T D L  W+  ID    E   LL +GNK+D
Sbjct: 104 NSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLD 157

May be involved in vesicular trafficking and neurotransmitter release.

Rattus norvegicus (taxid: 10116)

>sp|Q6IQ22|RAB12_HUMAN Ras-related protein Rab-12 OS=Homo sapiens GN=RAB12 PE=1 SV=3

 Score = 45.8 bits (107), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 29/114 (25%), Positives = 52/114 (45%), Gaps = 2/114 (1%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++IIGS  VGK +++ R     F +A  S+  +     T+  +     + +W     E F
Sbjct: 45  VIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERF 104

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEI--LLCIGNKVD 163
           +  +         +++V+++    T D L  W+  ID    E   LL +GNK+D
Sbjct: 105 NSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLD 158

Homo sapiens (taxid: 9606)

>sp|P35283|RAB12_MOUSE Ras-related protein Rab-12 OS=Mus musculus GN=Rab12 PE=1 SV=3

 Score = 45.8 bits (107), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 29/114 (25%), Positives = 52/114 (45%), Gaps = 2/114 (1%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++IIGS  VGK +++ R     F +A  S+  +     T+  +     + +W     E F
Sbjct: 44  VIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERF 103

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEI--LLCIGNKVD 163
           +  +         +++V+++    T D L  W+  ID    E   LL +GNK+D
Sbjct: 104 NSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLD 157

Mus musculus (taxid: 10090)

>sp|Q5JT25|RAB41_HUMAN Ras-related protein Rab-41 OS=Homo sapiens GN=RAB41 PE=2 SV=2

 Score = 45.4 bits (106), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 37/144 (25%), Positives = 71/144 (49%), Gaps = 5/144 (3%)

Query: 33  FGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTIN 92
           FG +  + T+  SL K   +L +G  +VGK +I+SR +  +F  A  ++  +     T+ 
Sbjct: 16  FGLEAAERTEYQSLCKSK-LLFLGEQSVGKTSIISRFMYNSFGCACQATVGIDFLSKTMY 74

Query: 93  TKYYTADVSLWMAHLHEEF-SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQK 151
            +     + LW     E F S+    I D   A+V V+++ ++++      WV  +  ++
Sbjct: 75  LEDQIVQLQLWDTAGQERFHSLIPSYIRDSTIAVV-VYDITNINSFKETDKWVEHVRAER 133

Query: 152 FE--ILLCIGNKVDLLPGHPVHAE 173
            +  +++ +GNK+DL     V AE
Sbjct: 134 GDDVVIMLLGNKIDLDNKRQVTAE 157

Homo sapiens (taxid: 9606)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	289
164564733	401	CM0216.310.nc [Lotus japonicus]	0.840	0.605	0.738	1e-106
357517615	405	hypothetical protein MTR_8g073110 [Medic	0.830	0.592	0.731	1e-104
388495120	405	unknown [Medicago truncatula]	0.830	0.592	0.731	1e-104
255583430	400	conserved hypothetical protein [Ricinus	0.847	0.612	0.744	1e-103
225438428	403	PREDICTED: uncharacterized protein LOC10	0.858	0.615	0.704	1e-101
363807144	394	uncharacterized protein LOC100813878 [Gl	0.823	0.604	0.710	3e-98
224068092	411	predicted protein [Populus trichocarpa]	0.858	0.603	0.711	9e-98
449531342	397	PREDICTED: uncharacterized LOC101203083	0.826	0.602	0.702	1e-96
356531331	395	PREDICTED: uncharacterized protein LOC10	0.823	0.602	0.702	3e-96
326519352	419	predicted protein [Hordeum vulgare subsp	0.851	0.587	0.625	3e-87

>gi|164564733|dbj|BAF98215.1| CM0216.310.nc [Lotus japonicus]

 Score =  390 bits (1001), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 181/245 (73%), Positives = 215/245 (87%), Gaps = 2/245 (0%)

Query: 41  TDRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADV 100
           TD  SLE RPGI +IGSSNVGKRT+LSRLLSV+ EDA DS S++ V+GWTIN KYY+ADV
Sbjct: 8   TDPVSLESRPGIFVIGSSNVGKRTLLSRLLSVDCEDAFDSDSQVNVHGWTINNKYYSADV 67

Query: 101 SLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGN 160
           S+WMAHLHE+FS+R LP+  ++TALVMVF++NDLS+L AL+ WV   D+Q FEILLCIGN
Sbjct: 68  SVWMAHLHEDFSVRDLPVFQRMTALVMVFDMNDLSSLTALQGWVSHTDIQNFEILLCIGN 127

Query: 161 KVDLLPGHPVHAEYRRRLLKREESSADPD--FCQSGISETEGSSLLGDEEPSWEIRRSCL 218
           KVDL+PGHP HAEYRRRLLK E+SSA+ D  F + GISE+EG+SLLGDEEPSW+IR+SCL
Sbjct: 128 KVDLVPGHPAHAEYRRRLLKLEDSSANLDLEFSEYGISESEGTSLLGDEEPSWDIRKSCL 187

Query: 219 EWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKITEPS 278
           EWCTE+ IE++EACASN DFDKCLS+DGD QGVERLYGALSAHMWPGM+LKSGD+I++PS
Sbjct: 188 EWCTENNIEFVEACASNADFDKCLSVDGDLQGVERLYGALSAHMWPGMILKSGDRISQPS 247

Query: 279 LPVKE 283
            P KE
Sbjct: 248 FPEKE 252

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357517615|ref|XP_003629096.1| hypothetical protein MTR_8g073110 [Medicago truncatula] gi|355523118|gb|AET03572.1| hypothetical protein MTR_8g073110 [Medicago truncatula]

 Score =  382 bits (982), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 177/242 (73%), Positives = 209/242 (86%), Gaps = 2/242 (0%)

Query: 41  TDRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADV 100
           TD  SLE RPGI IIGSS VGKRT+LSRLL+V+ EDA DS+SEL V+GWTINTKYYTADV
Sbjct: 9   TDPISLETRPGIFIIGSSTVGKRTLLSRLLAVDSEDAFDSASELNVHGWTINTKYYTADV 68

Query: 101 SLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGN 160
           ++WMAHLH+EFS+ ++P   Q+TALVMVF++NDLS+L AL+ WV   D+Q FEILLCIGN
Sbjct: 69  AVWMAHLHDEFSVENVPAFQQMTALVMVFDMNDLSSLTALQGWVAHTDIQNFEILLCIGN 128

Query: 161 KVDLLPGHPVHAEYRRRLLKREESSAD--PDFCQSGISETEGSSLLGDEEPSWEIRRSCL 218
           KVDL+P HPVHAEYRRRLLK E+S+ D   +F + GISETEG+SLLG EEPSW+IR+SCL
Sbjct: 129 KVDLVPDHPVHAEYRRRLLKHEDSAVDLYSEFSEYGISETEGTSLLGSEEPSWDIRKSCL 188

Query: 219 EWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKITEPS 278
           EWC EH IE++EACASN DFDKCLS+DGD QGVER+YGALSAHMWPGMVLKSG++I +PS
Sbjct: 189 EWCAEHNIEFVEACASNADFDKCLSVDGDLQGVERIYGALSAHMWPGMVLKSGERINQPS 248

Query: 279 LP 280
            P
Sbjct: 249 FP 250

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388495120|gb|AFK35626.1| unknown [Medicago truncatula]

 Score =  382 bits (982), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 177/242 (73%), Positives = 209/242 (86%), Gaps = 2/242 (0%)

Query: 41  TDRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADV 100
           TD  SLE RPGI IIGSS VGKRT+LSRLL+V+ EDA DS+SEL V+GWTINTKYYTADV
Sbjct: 9   TDPISLETRPGIFIIGSSTVGKRTLLSRLLAVDSEDAFDSASELNVHGWTINTKYYTADV 68

Query: 101 SLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGN 160
           ++WMAHLH+EFS+ ++P   Q+TALVMVF++NDLS+L AL+ WV   D+Q FEILLCIGN
Sbjct: 69  AVWMAHLHDEFSVENVPAFQQMTALVMVFDMNDLSSLTALQGWVAHTDIQNFEILLCIGN 128

Query: 161 KVDLLPGHPVHAEYRRRLLKREESSAD--PDFCQSGISETEGSSLLGDEEPSWEIRRSCL 218
           KVDL+P HPVHAEYRRRLLK E+S+ D   +F + GISETEG+SLLG EEPSW+IR+SCL
Sbjct: 129 KVDLVPDHPVHAEYRRRLLKHEDSAVDLYSEFSEYGISETEGASLLGSEEPSWDIRKSCL 188

Query: 219 EWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKITEPS 278
           EWC EH IE++EACASN DFDKCLS+DGD QGVER+YGALSAHMWPGMVLKSG++I +PS
Sbjct: 189 EWCAEHNIEFVEACASNADFDKCLSVDGDLQGVERIYGALSAHMWPGMVLKSGERINQPS 248

Query: 279 LP 280
            P
Sbjct: 249 FP 250

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255583430|ref|XP_002532474.1| conserved hypothetical protein [Ricinus communis] gi|223527799|gb|EEF29898.1| conserved hypothetical protein [Ricinus communis]

 Score =  380 bits (976), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 184/247 (74%), Positives = 210/247 (85%), Gaps = 2/247 (0%)

Query: 45  SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWM 104
           SLE RPGIL+IGSSNVGKRT+LSRLLSV+FED+SD  +EL+  GWTINTKYYTADVS+WM
Sbjct: 5   SLENRPGILMIGSSNVGKRTLLSRLLSVDFEDSSDLPTELVARGWTINTKYYTADVSVWM 64

Query: 105 AHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDL 164
           AHLH+ FSI SLPI   LTALVMVF++NDLS+  A++ WV  ID+ KFEILLCIGNKVDL
Sbjct: 65  AHLHDGFSISSLPIYSSLTALVMVFDMNDLSSFAAIQDWVSRIDIHKFEILLCIGNKVDL 124

Query: 165 LPGHPVHAEYRRRLLKREESSAD--PDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCT 222
           +PGHPVHAEYRRRLLK EESS+D   +F   GI ETEGSSLLG EEP+WEI+RSC EWC+
Sbjct: 125 IPGHPVHAEYRRRLLKLEESSSDTYTEFSGFGILETEGSSLLGGEEPAWEIKRSCTEWCS 184

Query: 223 EHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKITEPSLPVK 282
           EH IEYIEACASN DFDKCLS DGDSQGVERL  ALSAHMWPGMVLKSG  IT+P+L  K
Sbjct: 185 EHSIEYIEACASNADFDKCLSADGDSQGVERLLVALSAHMWPGMVLKSGSSITQPTLLYK 244

Query: 283 EVMMKKD 289
           E + +++
Sbjct: 245 EDLSEEE 251

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225438428|ref|XP_002276437.1| PREDICTED: uncharacterized protein LOC100266179 [Vitis vinifera] gi|296082571|emb|CBI21576.3| unnamed protein product [Vitis vinifera]

 Score =  374 bits (960), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 176/250 (70%), Positives = 211/250 (84%), Gaps = 2/250 (0%)

Query: 42  DRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVS 101
           D  S+EK PGILI+GSS+VGKRT+LSRLLSV+FED +DSSSE+LV+GWTINTKYYTADVS
Sbjct: 2   DAKSVEKTPGILIVGSSSVGKRTLLSRLLSVDFEDGADSSSEILVHGWTINTKYYTADVS 61

Query: 102 LWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNK 161
           +WMAHLHE FSI +LP+ DQL A+VMVF++NDLS+  AL+ WV   D+Q F+ILLC+GNK
Sbjct: 62  VWMAHLHEGFSIGNLPMLDQLAAVVMVFDMNDLSSFVALQDWVSHTDIQNFDILLCVGNK 121

Query: 162 VDLLPGHPVHAEYRRRLLKREESSADP--DFCQSGISETEGSSLLGDEEPSWEIRRSCLE 219
           VDL+PGH  H EYRRRL +  + SA+P  +F + GISETEGSSLLGDEE  WEI RSCLE
Sbjct: 122 VDLVPGHSAHVEYRRRLQRLGDLSAEPYLEFSEYGISETEGSSLLGDEESPWEISRSCLE 181

Query: 220 WCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKITEPSL 279
           WC+E  IEYIEACASN DFDKCLS++GDSQGV+R+ GALSAHMWPGM LKSGDKI EPSL
Sbjct: 182 WCSERNIEYIEACASNADFDKCLSVNGDSQGVDRILGALSAHMWPGMTLKSGDKIMEPSL 241

Query: 280 PVKEVMMKKD 289
           P  + + +++
Sbjct: 242 PENQELSEEE 251

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363807144|ref|NP_001242087.1| uncharacterized protein LOC100813878 [Glycine max] gi|255641216|gb|ACU20885.1| unknown [Glycine max]

 Score =  364 bits (934), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 169/238 (71%), Positives = 204/238 (85%)

Query: 43  RASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSL 102
           +  L+ RPGI IIGSSNVGKRT+LSRL SV+ +DA DS+S++ V+GWTIN KYYTADVSL
Sbjct: 4   QTDLQNRPGIFIIGSSNVGKRTLLSRLTSVDVDDAFDSASQVNVHGWTINNKYYTADVSL 63

Query: 103 WMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKV 162
           WMAHLH++FS  ++ +S ++TALVMVF++N+ S+L AL+ WV   D+Q FEILLCIGNKV
Sbjct: 64  WMAHLHDDFSAANVTLSRRMTALVMVFDMNEPSSLAALREWVSRTDIQNFEILLCIGNKV 123

Query: 163 DLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCT 222
           DL+P HP HAEYRRRLLK E+S+AD    + GISE+EG+SLLGDEEPSW+IRRSCL+WCT
Sbjct: 124 DLVPSHPAHAEYRRRLLKLEDSAADFYSEEYGISESEGTSLLGDEEPSWDIRRSCLDWCT 183

Query: 223 EHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKITEPSLP 280
           +H IE+IEACASN DFDKCLSIDGD QGVERLYGALSAHMWPGMVLKSG++I + S P
Sbjct: 184 DHNIEFIEACASNADFDKCLSIDGDLQGVERLYGALSAHMWPGMVLKSGNRINQLSFP 241

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224068092|ref|XP_002302663.1| predicted protein [Populus trichocarpa] gi|222844389|gb|EEE81936.1| predicted protein [Populus trichocarpa]

 Score =  362 bits (930), Expect = 9e-98,   Method: Compositional matrix adjust.
 Identities = 180/253 (71%), Positives = 210/253 (83%), Gaps = 5/253 (1%)

Query: 36  QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKY 95
           +E  S+D  SLE RPGIL IGSSNVGKRT+LSRLLS++ EDA DSS+++  +GW+I+TKY
Sbjct: 3   EETKSSDFTSLETRPGILFIGSSNVGKRTLLSRLLSIDLEDAFDSSNQVFSHGWSIDTKY 62

Query: 96  YTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEIL 155
           YTADVSLW+AHLHE FSI SLPI ++L ALVMVF+L+DLS+  ALK WV   D+ KFEIL
Sbjct: 63  YTADVSLWIAHLHEGFSIGSLPIYNKLAALVMVFDLSDLSSFVALKDWVAGNDISKFEIL 122

Query: 156 LCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFC----QSGISETEGSSLLGD-EEPS 210
           LCIGNKVD +PGHPVHAEYRR+L K  ES +  D      + GISE EGSSLLGD EEPS
Sbjct: 123 LCIGNKVDRIPGHPVHAEYRRQLRKIGESGSFDDLNIELDEFGISEIEGSSLLGDEEEPS 182

Query: 211 WEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKS 270
            EI+RSC+EWCT+H IEYIEACASNVDFDKCL +DGDSQGVERLYGALSAHMWPGM+LKS
Sbjct: 183 REIKRSCIEWCTDHGIEYIEACASNVDFDKCLLVDGDSQGVERLYGALSAHMWPGMILKS 242

Query: 271 GDKITEPSLPVKE 283
            +KI +P+LP KE
Sbjct: 243 DNKIIQPTLPDKE 255

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449531342|ref|XP_004172645.1| PREDICTED: uncharacterized LOC101203083 [Cucumis sativus]

 Score =  358 bits (920), Expect = 1e-96,   Method: Compositional matrix adjust.
 Identities = 170/242 (70%), Positives = 208/242 (85%), Gaps = 3/242 (1%)

Query: 46  LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMA 105
           LE RPGIL++GSSNVGKR++LSRLL+V+FEDA +SSS++ V+GWTINT+YYTADVS+ +A
Sbjct: 12  LESRPGILLVGSSNVGKRSLLSRLLTVDFEDALNSSSQVSVHGWTINTQYYTADVSVSVA 71

Query: 106 HLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLL 165
           HLHE+FSI +LP+ +QL ALVMVF++NDLS+L  L+ W   +DLQ F++LLCIGNKVDL+
Sbjct: 72  HLHEDFSIEALPMFNQLAALVMVFDMNDLSSLVTLQDWATRVDLQNFDVLLCIGNKVDLV 131

Query: 166 PGHPVHAEYRRRLLKR--EESSAD-PDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCT 222
           PGHPVH EYR+ L K+  ++SS D  D  + GISETEGSSLLGDE+ SWE RRSCLEWC 
Sbjct: 132 PGHPVHMEYRKLLQKQRLKDSSIDYSDTAEYGISETEGSSLLGDEDSSWETRRSCLEWCI 191

Query: 223 EHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKITEPSLPVK 282
           E  IE++EACASN DFD+CLSIDGD QGV+RLYGALSAHMWPGM LKSGDKIT+PSLP +
Sbjct: 192 ERNIEFLEACASNADFDQCLSIDGDIQGVQRLYGALSAHMWPGMTLKSGDKITKPSLPKE 251

Query: 283 EV 284
           E+
Sbjct: 252 EL 253

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356531331|ref|XP_003534231.1| PREDICTED: uncharacterized protein LOC100813911 [Glycine max]

 Score =  357 bits (916), Expect = 3e-96,   Method: Compositional matrix adjust.
 Identities = 168/239 (70%), Positives = 202/239 (84%), Gaps = 1/239 (0%)

Query: 43  RASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDAS-DSSSELLVNGWTINTKYYTADVS 101
           +  L  RPGI +IGSSNVGKRT+LSRL SV+ E A+ DS+S++ V+GWTIN KYYTADVS
Sbjct: 4   QTDLLNRPGIFLIGSSNVGKRTLLSRLTSVDVEGAAFDSASQVNVHGWTINNKYYTADVS 63

Query: 102 LWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNK 161
           +WMAHL+++FS  ++P+  ++TALVMVF++N+ S+L AL+ WV   D+Q FEILLCIGNK
Sbjct: 64  IWMAHLNDDFSAANVPVFRRMTALVMVFDMNEPSSLAALREWVSHTDIQNFEILLCIGNK 123

Query: 162 VDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWC 221
           VDL+ GHP HAEYRRRLLK E+S+AD    + GISE EG+SLLGDEEPSW+IRRSCLEWC
Sbjct: 124 VDLVTGHPAHAEYRRRLLKLEDSAADLYSEEYGISELEGTSLLGDEEPSWDIRRSCLEWC 183

Query: 222 TEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKITEPSLP 280
           T+H IE+IEAC SN DFDKCLSIDGD QGVERLYGALSAHMWPGMVLKSGD+I +PS P
Sbjct: 184 TDHNIEFIEACGSNADFDKCLSIDGDLQGVERLYGALSAHMWPGMVLKSGDRINQPSFP 242

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|326519352|dbj|BAJ96675.1| predicted protein [Hordeum vulgare subsp. vulgare]

 Score =  327 bits (839), Expect = 3e-87,   Method: Compositional matrix adjust.
 Identities = 155/248 (62%), Positives = 191/248 (77%), Gaps = 2/248 (0%)

Query: 38  MDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYT 97
           M+     SLE RPG+L++G+  VGKRTILSRLL     D SD SS +L  GW I+TKYY+
Sbjct: 1   MEEGGDGSLEARPGVLLVGAPGVGKRTILSRLLGAEVPDTSDLSSGVLCQGWKIDTKYYS 60

Query: 98  ADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLC 157
           AD+S+W AHL E FS+ SLP  DQL AL+MVF++ND S+L  L++WV +ID+Q+FE+LLC
Sbjct: 61  ADISIWTAHLEEGFSLGSLPHLDQLAALIMVFDMNDESSLVTLRNWVGNIDVQRFEVLLC 120

Query: 158 IGNKVDLLPGHPVHAEYRRRLLKREESSAD--PDFCQSGISETEGSSLLGDEEPSWEIRR 215
           IGNK DL+PGH  H EYRRR+ K  ES +D  P++   GI+E EG  LL +EEP  EIR 
Sbjct: 121 IGNKADLVPGHGAHVEYRRRMQKIGESCSDPHPEYLDFGINENEGCGLLSEEEPQIEIRD 180

Query: 216 SCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKIT 275
           S L+WC +H IEYIEACASN DFDKCLS+DGDSQG+ERL+GALSAHMWPGM+LKSG+KIT
Sbjct: 181 STLKWCIDHNIEYIEACASNADFDKCLSVDGDSQGLERLFGALSAHMWPGMILKSGNKIT 240

Query: 276 EPSLPVKE 283
            PSL  K+
Sbjct: 241 APSLVEKD 248

Source: Hordeum vulgare subsp. vulgare

Species: Hordeum vulgare

Genus: Hordeum

Family: Poaceae

Order: Poales

Class: Liliopsida

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	289
TAIR|locus:2156832	393	AT5G65960 [Arabidopsis thalian	0.844	0.620	0.650	9.1e-84
MGI|MGI:1914189	316	Aagab "alpha- and gamma-adapti	0.294	0.268	0.274	1.8e-07
RGD|621601	315	Aagab "alpha- and gamma-adapti	0.294	0.269	0.274	2.4e-07
UNIPROTKB|F1SJJ1	314	AAGAB "Uncharacterized protein	0.245	0.226	0.297	3.6e-07
UNIPROTKB|A5PKE7	315	MGC152585 "Uncharacterized pro	0.228	0.209	0.323	4e-07
UNIPROTKB|Q6PD74	315	AAGAB "Alpha- and gamma-adapti	0.245	0.225	0.283	6.7e-07
UNIPROTKB|E1C7X1	314	Gga.6982 "Uncharacterized prot	0.245	0.226	0.283	1.2e-06
ZFIN|ZDB-GENE-040718-120	321	aagab "alpha- and gamma-adapti	0.380	0.342	0.243	3.6e-05
UNIPROTKB|Q5JT25	222	RAB41 "Ras-related protein Rab	0.480	0.626	0.256	7.2e-05
DICTYBASE|DDB_G0282847	214	rab5B "Rab GTPase" [Dictyostel	0.456	0.616	0.308	0.00015

TAIR|locus:2156832 AT5G65960 [Arabidopsis thaliana (taxid:3702)]

 Score = 839 (300.4 bits), Expect = 9.1e-84, P = 9.1e-84
 Identities = 160/246 (65%), Positives = 199/246 (80%)

Query:    46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMA 105
             +E RPG+L++GSS VGKRT+LSRLLSV FED+S+SSS+  V+GWTINTKYYTADVS+ ++
Sbjct:     1 MESRPGVLVVGSSGVGKRTLLSRLLSVEFEDSSESSSQTEVHGWTINTKYYTADVSVCIS 60

Query:   106 HLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLL 165
             H+ +E+S+ +LP S  L ALVMVF+L++LSTL AL+ WV   D+  F+ILLCIGNKVD +
Sbjct:    61 HICDEYSLPNLPNSHPLVALVMVFDLSELSTLVALQDWVSHTDINSFDILLCIGNKVDRV 120

Query:   166 PGHPVHAEYRRRLLKREESSAD--PDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTE 223
             P H  H EYRRRLLK  + S D   D    GISETEGSSLLG E+ S +IR +CLEWC+E
Sbjct:   121 PHHLAHDEYRRRLLKASDPSRDLYSDIDDFGISETEGSSLLGSEDASLDIRGACLEWCSE 180

Query:   224 HRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKITEPSLPVKE 283
             + IE+IEACASN DFDKCLS+DGDSQGVERL+GALSAHMWPGM+LKSGD+I EP LP  E
Sbjct:   181 NNIEFIEACASNPDFDKCLSVDGDSQGVERLFGALSAHMWPGMILKSGDRINEPVLPQGE 240

Query:   284 VMMKKD 289
              + +++
Sbjct:   241 ELSEEE 246

GO:0005525 "GTP binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

MGI|MGI:1914189 Aagab "alpha- and gamma-adaptin binding protein" [Mus musculus (taxid:10090)]

 Score = 103 (41.3 bits), Expect = 1.8e-07, Sum P(2) = 1.8e-07
 Identities = 25/91 (27%), Positives = 52/91 (57%)

Query:    75 EDA---SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNL 131
             EDA   + SS  +    WTI+ KYY+A+++L +  +  +F + +  I++ + A V+ F+ 
Sbjct:    30 EDAVVEATSSDAVRFYPWTIDNKYYSAEINLCV--VPSKFLVTA-EIAESVQAFVVYFDS 86

Query:   132 NDLSTLDALKHWVPSIDLQKFEILLCIGNKV 162
                S LD++  W+P  +    E+++ + ++V
Sbjct:    87 TQKSGLDSVSSWLPLAEAWLAEVMILVCDRV 117

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0015031 "protein transport" evidence=IEA

RGD|621601 Aagab "alpha- and gamma-adaptin binding protein" [Rattus norvegicus (taxid:10116)]

 Score = 94 (38.1 bits), Expect = 2.4e-07, Sum P(2) = 2.4e-07
 Identities = 25/91 (27%), Positives = 51/91 (56%)

Query:    75 EDA---SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNL 131
             EDA   + SS  +    WTI+ KYY+A+V+L +  +  +  + +  I++ + A V+ F+ 
Sbjct:    30 EDAVVEATSSDAVRFYPWTIDNKYYSAEVNLCV--VPSKCRVTA-EIAEAVQAFVVYFDS 86

Query:   132 NDLSTLDALKHWVPSIDLQKFEILLCIGNKV 162
                S LD++  W+P  +    E+++ + ++V
Sbjct:    87 TQKSGLDSVSSWLPLAETWLPEVMILVCDRV 117

GO:0005737 "cytoplasm" evidence=IEA;ISO

GO:0005829 "cytosol" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

UNIPROTKB|F1SJJ1 AAGAB "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 104 (41.7 bits), Expect = 3.6e-07, Sum P(2) = 3.6e-07
 Identities = 22/74 (29%), Positives = 45/74 (60%)

Query:    89 WTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSID 148
             WTI+ KYY+AD++L +  +  +F I +  I++ + A V+ F+    S LD++  W+P  +
Sbjct:    46 WTIDNKYYSADINLCV--VPNKFLITA-EIAESVQAFVVYFDSTQTSGLDSVSSWLPLAE 102

Query:   149 LQKFEILLCIGNKV 162
                 E+++ + ++V
Sbjct:   103 AWLPEVMILVCDRV 116

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|A5PKE7 MGC152585 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 101 (40.6 bits), Expect = 4.0e-07, Sum P(2) = 4.0e-07
 Identities = 23/71 (32%), Positives = 43/71 (60%)

Query:    89 WTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSID 148
             WTI+ KYY+AD++L +  +  +F + +  I++ + A V+ F+    S LD++  W+P  +
Sbjct:    47 WTIDNKYYSADINLCV--VPNKFLVTA-EIAESVQAFVVYFDSTQKSGLDSVSSWLPLAE 103

Query:   149 --LQKFEILLC 157
               L +  IL+C
Sbjct:   104 SWLPEVMILVC 114

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|Q6PD74 AAGAB "Alpha- and gamma-adaptin-binding protein p34" [Homo sapiens (taxid:9606)]

 Score = 99 (39.9 bits), Expect = 6.7e-07, Sum P(2) = 6.7e-07
 Identities = 21/74 (28%), Positives = 44/74 (59%)

Query:    89 WTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSID 148
             WTI+ KYY+AD++L +  +  +F + +  I++ + A V+ F+    S LD++  W+P   
Sbjct:    47 WTIDNKYYSADINLCV--VPNKFLVTA-EIAESVQAFVVYFDSTQKSGLDSVSSWLPLAK 103

Query:   149 LQKFEILLCIGNKV 162
                 E+++ + ++V
Sbjct:   104 AWLPEVMILVCDRV 117

GO:0015031 "protein transport" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|E1C7X1 Gga.6982 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 95 (38.5 bits), Expect = 1.2e-06, Sum P(2) = 1.2e-06
 Identities = 21/74 (28%), Positives = 42/74 (56%)

Query:    89 WTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSID 148
             WTI+ KYY+AD+ L +       ++ +  I++ + A V+ F+ +  S LD +  W+P  +
Sbjct:    47 WTIDNKYYSADIHLCVV---PNTALVTGAIAESVQAFVVYFDSSIKSGLDGVSEWLPLTE 103

Query:   149 LQKFEILLCIGNKV 162
                 E+++ + N+V
Sbjct:   104 EWLPEVMILVCNRV 117

GO:0005737 "cytoplasm" evidence=IEA

ZFIN|ZDB-GENE-040718-120 aagab "alpha- and gamma-adaptin binding protein" [Danio rerio (taxid:7955)]

 Score = 94 (38.1 bits), Expect = 3.6e-05, Sum P(2) = 3.6e-05
 Identities = 28/115 (24%), Positives = 57/115 (49%)

Query:    50 PGILIIG-SSNVGKRTILSRLLSVNFEDASDSSSELLV-NGWTINTKYYTADVSLWMAHL 107
             P IL+    SN  +  ++ ++LS       +   E +    WTIN KYYTA+VSL +  +
Sbjct:    13 PCILVTSCDSNFKEEELIRQILSSESPPQPNRIEERVSWYPWTINNKYYTANVSLCV--V 70

Query:   108 HEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKV 162
                F + +  ++  + A ++ F+     +L+ +  W+  ++    E+L+ + + V
Sbjct:    71 SSTFDMNA-EVARSMQAFIIYFDSKTKDSLNNVNSWLSVVEELAPEVLILVCDHV 124

GO:0005525 "GTP binding" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|Q5JT25 RAB41 "Ras-related protein Rab-41" [Homo sapiens (taxid:9606)]

 Score = 117 (46.2 bits), Expect = 7.2e-05, P = 7.2e-05
 Identities = 37/144 (25%), Positives = 71/144 (49%)

Query:    33 FGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTIN 92
             FG +  + T+  SL K   +L +G  +VGK +I+SR +  +F  A  ++  +     T+ 
Sbjct:    16 FGLEAAERTEYQSLCKSK-LLFLGEQSVGKTSIISRFMYNSFGCACQATVGIDFLSKTMY 74

Query:    93 TKYYTADVSLWMAHLHEEF-SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQK 151
              +     + LW     E F S+    I D  T  V+V+++ ++++      WV  +  ++
Sbjct:    75 LEDQIVQLQLWDTAGQERFHSLIPSYIRDS-TIAVVVYDITNINSFKETDKWVEHVRAER 133

Query:   152 FE--ILLCIGNKVDLLPGHPVHAE 173
              +  +++ +GNK+DL     V AE
Sbjct:   134 GDDVVIMLLGNKIDLDNKRQVTAE 157

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

DICTYBASE|DDB_G0282847 rab5B "Rab GTPase" [Dictyostelium discoideum (taxid:44689)]

 Score = 114 (45.2 bits), Expect = 0.00015, P = 0.00015
 Identities = 46/149 (30%), Positives = 71/149 (47%)

Query:    40 STD-RASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSS--SELLVNGWTINTKYY 96
             STD R   +K   ++++G  N GK  I SRL+   F   +DS+  +  LV    ++    
Sbjct:    39 STDNRNKFDKGFKLVLLGEMNTGKTCISSRLVRNEF-GPTDSTIGAAFLVKSMVVDN--I 95

Query:    97 TADVSLWMAHLHEEFSIRSL-PISDQ-LTALVMVFNLNDLSTLDALKHWVPSIDLQKFE- 153
                + +W     E +  RSL P+  +   A V+V+++   +T + LK WV   +LQK   
Sbjct:    96 NIKLEIWDTAGQERY--RSLTPMYYRGAAAAVVVYDITKKNTFETLKRWVS--ELQKHAS 151

Query:   154 ---ILLCIGNKVDLLPGHPVHAEYRRRLL 179
                IL   GNKVDL P   V  +   R +
Sbjct:   152 PNLILALAGNKVDL-PNREVQVDEVNRYI 179

GO:0015031 "protein transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0000166 "nucleotide binding" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	289
pfam00071	162	pfam00071, Ras, Ras family	7e-07
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	3e-06
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	3e-06
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	4e-06
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	3e-05
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	7e-05
pfam10199	101	pfam10199, Adaptin_binding, Alpha and gamma adapti	9e-05
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	1e-04
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	4e-04
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	0.003
pfam08477	116	pfam08477, Miro, Miro-like protein	0.004

>gnl|CDD|215692 pfam00071, Ras, Ras family

 Score = 47.9 bits (115), Expect = 7e-07
 Identities = 35/153 (22%), Positives = 57/153 (37%), Gaps = 29/153 (18%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVS---------L 102
           ++++G   VGK ++L R     F +             TI   +YT  +          +
Sbjct: 2   LVLVGDGGVGKSSLLIRFTQNKFPEEYIP---------TIGVDFYTKTIEVDGKTVKLQI 52

Query: 103 WMAHLHEEF-SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQK---FEILLCI 158
           W     E F ++R L        L+ V+++    + + +K W+  I         I+L  
Sbjct: 53  WDTAGQERFRALRPLYYRGAQGFLL-VYDITSRDSFENVKKWLEEILRHADENVPIVLV- 110

Query: 159 GNKVDLLPGHPVHAEYRRRLLKRE-----ESSA 186
           GNK DL     V  E    L K       E+SA
Sbjct: 111 GNKCDLEDQRVVSTEEGEALAKELGLPFMETSA 143

Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See pfam00009 pfam00025, pfam00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices. Length = 162

>gnl|CDD|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins [General function prediction only]

 Score = 46.9 bits (111), Expect = 3e-06
 Identities = 32/131 (24%), Positives = 53/131 (40%), Gaps = 5/131 (3%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           I+++G   VGK T+L+RL+   F +    +   L    TI        + LW     EE+
Sbjct: 8   IVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEY 67

Query: 112 -SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI---DLQKFEILLCIGNKVDLLPG 167
            S+R          L++  +    S+ +  + W+  +         ILL  GNK+DL   
Sbjct: 68  RSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLV-GNKIDLFDE 126

Query: 168 HPVHAEYRRRL 178
                E   +L
Sbjct: 127 QSSSEEILNQL 137

Length = 219

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

 Score = 45.9 bits (109), Expect = 3e-06
 Identities = 28/138 (20%), Positives = 54/138 (39%), Gaps = 8/138 (5%)

Query: 53  LIIGSSNVGKRTILSRLLSVNFEDASDSSSE-LLVNGWTINTKYYTADVSLW-MAHLHEE 110
           +++G   VGK ++L+ LL     + SD        + +          + L     L E 
Sbjct: 1   VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDVYVKELDKGKVKLVLVDTPGLDEF 60

Query: 111 FSIRSLPISDQL----TALVMVFNLNDLSTLDALKHWVPSIDLQKFEI-LLCIGNKVDLL 165
             +    ++  L      +++V +  D  + +  K  +    L+K  I ++ +GNK+DLL
Sbjct: 61  GGLGREELARLLLRGADLILLVVDSTDRESEEDAK-LLILRRLRKEGIPIILVGNKIDLL 119

Query: 166 PGHPVHAEYRRRLLKREE 183
               V    R   L +  
Sbjct: 120 EEREVEELLRLEELAKIL 137

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|206656 cd01863, Rab18, Rab GTPase family 18 (Rab18)

 Score = 45.4 bits (108), Expect = 4e-06
 Identities = 34/140 (24%), Positives = 60/140 (42%), Gaps = 18/140 (12%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTAD-----VSLWMAH 106
           IL+IG S VGK ++L R     F++   S+      G     K  T D     +++W   
Sbjct: 3   ILLIGDSGVGKSSLLLRFTDDTFDEDLSSTI-----GVDFKVKTVTVDGKKVKLAIWDTA 57

Query: 107 LHEEFSIRSLPIS--DQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFE---ILLCIGNK 161
             E F  R+L  S       +++V+++    T D L  W+  +D        + + +GNK
Sbjct: 58  GQERF--RTLTSSYYRGAQGVILVYDVTRRDTFDNLDTWLNELDTYSTNPDAVKMLVGNK 115

Query: 162 VDLLPGHPVHAEYRRRLLKR 181
           +D      V  E  ++  ++
Sbjct: 116 ID-KENREVTREEGQKFARK 134

Rab18 subfamily. 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 most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

>gnl|CDD|206640 cd00154, Rab, Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases)

 Score = 42.8 bits (102), Expect = 3e-05
 Identities = 30/139 (21%), Positives = 51/139 (36%), Gaps = 50/139 (35%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDS-------SSELLVNG-------W-------- 89
           I++IG S VGK ++L R +   F +   S       S  + V+G       W        
Sbjct: 3   IVLIGDSGVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEVDGKKVKLQIWDTAGQERF 62

Query: 90  -TINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSID 148
            +I + YY        AH                   ++V+++ +  + + L  W+  + 
Sbjct: 63  RSITSSYYRG------AH-----------------GAILVYDVTNRESFENLDKWLNELK 99

Query: 149 ---LQKFEILLCIGNKVDL 164
                   I+L  GNK DL
Sbjct: 100 EYAPPNIPIILV-GNKSDL 117

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 dissociation inhibitors (GDIs), which mask C-terminal lipid binding and promote cytosolic localization. While most unicellular organisms possess 5-20 Rab members, several have been found to possess 60 or more Rabs; for many of these Rab isoforms, homologous proteins are not found in other organisms. 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. Since crystal structures often lack C-terminal residues, the lipid modification site is not available for annotation in many of the CDs in the hierarchy, but is included where possible. Length = 159

>gnl|CDD|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score = 42.1 bits (100), Expect = 7e-05
 Identities = 33/133 (24%), Positives = 55/133 (41%), Gaps = 38/133 (28%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTI----NTKYYTAD-----VSL 102
           I++IG S VGK ++LSR     F +   S         TI     TK    D     + +
Sbjct: 3   IILIGDSGVGKSSLLSRFTDGKFSEQYKS---------TIGVDFKTKTIEVDGKRVKLQI 53

Query: 103 WMAHLHEEFSIRSLPISDQLT--------ALVMVFNLNDLSTLDALKHWVPSIDLQ---K 151
           W     E F  RS      +T          ++V+++ +  + + L++W+  +       
Sbjct: 54  WDTAGQERF--RS------ITSSYYRGAVGALLVYDITNRESFENLENWLKELREYASPN 105

Query: 152 FEILLCIGNKVDL 164
             I+L +GNK DL
Sbjct: 106 VVIML-VGNKSDL 117

Rab GTPases are implicated in vesicle trafficking. Length = 164

>gnl|CDD|220629 pfam10199, Adaptin_binding, Alpha and gamma adaptin binding protein p34

 Score = 40.5 bits (95), Expect = 9e-05
 Identities = 14/28 (50%), Positives = 17/28 (60%)

Query: 247 DSQGVERLYGALSAHMWPGMVLKSGDKI 274
           + QG+ER+  AL  H W  M LK GD I
Sbjct: 1   EKQGIERIVEALETHDWSNMELKDGDGI 28

p34 is a protein involved in membrane trafficking. It is known to interact with both alpha and gamma adaptin. It has been speculated that p34 may play a chaperone role such as preventing the soluble adaptors from co-assembling with soluble clathrin, or helping to remove the adaptors from the coated vesicle. Another possible function is in aiding the recruitment of soluble adaptors onto the membrane. Length = 101

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

 Score = 41.6 bits (98), Expect = 1e-04
 Identities = 29/119 (24%), Positives = 50/119 (42%), Gaps = 7/119 (5%)

Query: 52  ILIIGSSNVGKRTILSRLLSV-NFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEE 110
           I+I+G  NVGK T+L+RLL            +        I     T   +L      E+
Sbjct: 4   IVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQED 63

Query: 111 FS-IRSLPISDQLTALVMVFNLN--DLSTLDALKHWVPSI-DLQKFEI-LLCIGNKVDL 164
           +  IR L     + + + VF++    L   + L+     I    +  + ++ +GNK+DL
Sbjct: 64  YDAIRRLYYR-AVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESGVPIILVGNKIDL 121

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|133324 cd04124, RabL2, Rab GTPase-like family 2 (Rab-like2)

 Score = 39.8 bits (93), Expect = 4e-04
 Identities = 29/116 (25%), Positives = 48/116 (41%), Gaps = 1/116 (0%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           I+++G S VGK  ++ R L   +E    S+  L +       +  T  V  W     E F
Sbjct: 3   IILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERF 62

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEI-LLCIGNKVDLLP 166
                    +  A ++VF++    T   L  W   +   + EI  + + NK+DL P
Sbjct: 63  QTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREYRPEIPCIVVANKIDLDP 118

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-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. Length = 161

>gnl|CDD|206699 cd04120, Rab12, Rab GTPase family 12 (Rab12)

 Score = 37.7 bits (87), Expect = 0.003
 Identities = 29/114 (25%), Positives = 52/114 (45%), Gaps = 2/114 (1%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++IIGS  VGK +++ R     F +A  S+  +     T+  +     + +W     E F
Sbjct: 3   VIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERF 62

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEI--LLCIGNKVD 163
           +  +         +++V+++    T D L  W+  ID    E   LL +GNK+D
Sbjct: 63  NSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLD 116

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 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. Length = 202

>gnl|CDD|219856 pfam08477, Miro, Miro-like protein

 Score = 35.8 bits (83), Expect = 0.004
 Identities = 25/114 (21%), Positives = 52/114 (45%), Gaps = 4/114 (3%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           +++IG    GK ++LS+L+   F           +   T+     T  +++W     EE 
Sbjct: 2   VVVIGDKGSGKSSLLSQLVGGEFPPEPLEIQGDTLAVDTLEVDGDTGLLNIWDFGGREEL 61

Query: 112 SIRSLPISDQLTALVMVFNLND---LSTLDALKHWVPSIDLQKFEI-LLCIGNK 161
               +       A+++V++L D   L+ +  L  W+P++     +I ++ +GNK
Sbjct: 62  KFEHIIFMKWADAILLVYDLTDRESLNEVSRLIAWLPNLRKLGGKIPVILVGNK 115

Mitochondrial Rho proteins (Miro-1, and Miro-2), are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (pfam00036), 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. Length = 116

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	289
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	100.0
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	100.0
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	100.0
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	100.0
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	100.0
KOG0394	210	consensus Ras-related GTPase [General function pre	100.0
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	100.0
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	100.0
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	100.0
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	100.0
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	100.0
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	99.98
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.98
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.98
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	99.98
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.98
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.98
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.98
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.97
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	99.97
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.97
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.97
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.97
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.97
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.97
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.97
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.97
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	99.97
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.97
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.97
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.97
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.97
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.97
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.97
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.97
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.97
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.97
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.97
KOG4273	418	consensus Uncharacterized conserved protein [Funct	99.97
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.97
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.97
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.97
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.97
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.97
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	99.97
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.97
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.97
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.97
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.97
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.97
PLN03110	216	Rab GTPase; Provisional	99.97
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.97
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.97
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.97
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.97
PTZ00369	189	Ras-like protein; Provisional	99.97
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.96
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	99.96
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.96
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.96
PLN03108	210	Rab family protein; Provisional	99.96
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.96
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.96
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.96
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	99.96
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.96
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.96
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.96
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.96
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.96
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.96
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.96
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.96
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.96
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.96
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.96
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.96
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.96
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.95
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.95
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.95
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.95
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.95
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.95
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.95
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.95
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	99.95
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.95
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.95
PLN03118	211	Rab family protein; Provisional	99.95
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.95
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.94
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.94
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.94
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.94
KOG0395	196	consensus Ras-related GTPase [General function pre	99.94
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.94
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.94
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.94
PTZ00133	182	ADP-ribosylation factor; Provisional	99.94
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.94
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.94
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.94
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.94
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.93
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.93
PLN00223	181	ADP-ribosylation factor; Provisional	99.93
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.93
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.93
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.93
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	99.93
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.93
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.93
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.92
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.92
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.92
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.92
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.91
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.91
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.91
PLN00023	334	GTP-binding protein; Provisional	99.91
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.91
PTZ00099	176	rab6; Provisional	99.9
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.9
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.89
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.89
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.88
COG1100	219	GTPase SAR1 and related small G proteins [General	99.88
KOG3883	198	consensus Ras family small GTPase [Signal transduc	99.88
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.87
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.87
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.87
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.87
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.87
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.86
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.86
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.86
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.84
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.83
KOG1673	205	consensus Ras GTPases [General function prediction	99.83
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.83
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.82
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.82
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.81
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.8
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.8
PRK04213	201	GTP-binding protein; Provisional	99.8
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.8
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.8
PRK15494	339	era GTPase Era; Provisional	99.8
cd00881	189	GTP_translation_factor GTP translation factor fami	99.79
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.79
PRK12299	335	obgE GTPase CgtA; Reviewed	99.78
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.78
PRK03003	472	GTP-binding protein Der; Reviewed	99.78
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	99.78
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.78
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	99.78
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.77
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.77
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.77
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.76
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.76
PRK03003	472	GTP-binding protein Der; Reviewed	99.76
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.75
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.75
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.75
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.75
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.74
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.74
PRK00089	292	era GTPase Era; Reviewed	99.74
PRK11058	426	GTPase HflX; Provisional	99.73
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.72
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.72
CHL00189	742	infB translation initiation factor 2; Provisional	99.71
PRK12297	424	obgE GTPase CgtA; Reviewed	99.71
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.7
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.7
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.7
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	99.7
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.7
PRK05306	787	infB translation initiation factor IF-2; Validated	99.69
PRK00093	435	GTP-binding protein Der; Reviewed	99.69
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.69
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.68
PRK00093	435	GTP-binding protein Der; Reviewed	99.67
PRK05433	600	GTP-binding protein LepA; Provisional	99.67
PRK12298	390	obgE GTPase CgtA; Reviewed	99.67
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.66
COG2229	187	Predicted GTPase [General function prediction only	99.66
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.66
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.66
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.65
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.65
PRK12296	500	obgE GTPase CgtA; Reviewed	99.65
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.65
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.65
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.64
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.63
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.61
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.61
PRK04004	586	translation initiation factor IF-2; Validated	99.61
PRK12317	425	elongation factor 1-alpha; Reviewed	99.61
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.6
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	99.6
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.6
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.59
COG1159	298	Era GTPase [General function prediction only]	99.58
PRK10218	607	GTP-binding protein; Provisional	99.58
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.56
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.56
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	99.55
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.54
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.54
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.53
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	99.52
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.52
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.52
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.51
COG1160	444	Predicted GTPases [General function prediction onl	99.5
COG0486	454	ThdF Predicted GTPase [General function prediction	99.5
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.5
PRK12735	396	elongation factor Tu; Reviewed	99.49
PRK12736	394	elongation factor Tu; Reviewed	99.48
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.47
COG0218	200	Predicted GTPase [General function prediction only	99.46
COG1160	444	Predicted GTPases [General function prediction onl	99.44
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	99.43
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.42
PLN00043	447	elongation factor 1-alpha; Provisional	99.4
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.4
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.39
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.38
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	99.37
PRK13351	687	elongation factor G; Reviewed	99.37
CHL00071	409	tufA elongation factor Tu	99.37
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.36
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.36
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.35
PRK00049	396	elongation factor Tu; Reviewed	99.34
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.34
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.34
PLN03126	478	Elongation factor Tu; Provisional	99.33
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.33
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.29
COG1084	346	Predicted GTPase [General function prediction only	99.28
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.26
COG2262	411	HflX GTPases [General function prediction only]	99.25
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.24
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.24
KOG0462	650	consensus Elongation factor-type GTP-binding prote	99.24
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	99.22
PLN03127	447	Elongation factor Tu; Provisional	99.22
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.22
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.21
PTZ00141	446	elongation factor 1- alpha; Provisional	99.21
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	99.2
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	99.19
PRK14845	1049	translation initiation factor IF-2; Provisional	99.19
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	99.17
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.17
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.15
COG1163	365	DRG Predicted GTPase [General function prediction	99.14
PRK09602	396	translation-associated GTPase; Reviewed	99.14
COG3596	296	Predicted GTPase [General function prediction only	99.13
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.12
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	99.11
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	99.11
PRK12739	691	elongation factor G; Reviewed	99.11
KOG0090	238	consensus Signal recognition particle receptor, be	99.11
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	99.09
PRK12740	668	elongation factor G; Reviewed	99.09
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.09
KOG1145	683	consensus Mitochondrial translation initiation fac	99.06
PRK09866	741	hypothetical protein; Provisional	99.04
COG0536	369	Obg Predicted GTPase [General function prediction	99.02
PRK00007	693	elongation factor G; Reviewed	99.02
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.01
PRK13768	253	GTPase; Provisional	99.01
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	98.98
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	98.97
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	98.97
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	98.96
KOG3886	295	consensus GTP-binding protein [Signal transduction	98.94
TIGR00101	199	ureG urease accessory protein UreG. This model rep	98.93
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	98.91
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	98.9
PTZ00258	390	GTP-binding protein; Provisional	98.83
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	98.82
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	98.8
PRK09435	332	membrane ATPase/protein kinase; Provisional	98.73
PTZ00416	836	elongation factor 2; Provisional	98.71
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	98.7
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	98.69
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	98.69
COG1217	603	TypA Predicted membrane GTPase involved in stress	98.67
PLN00116	843	translation elongation factor EF-2 subunit; Provis	98.66
PRK09601	364	GTP-binding protein YchF; Reviewed	98.65
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	98.65
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	98.64
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	98.63
PRK07560	731	elongation factor EF-2; Reviewed	98.61
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	98.59
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	98.58
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	98.56
KOG0461	522	consensus Selenocysteine-specific elongation facto	98.55
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	98.53
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	98.53
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.48
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	98.47
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.44
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	98.43
KOG0082	354	consensus G-protein alpha subunit (small G protein	98.43
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	98.42
PRK12289	352	GTPase RsgA; Reviewed	98.4
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	98.4
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.39
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.35
COG5019	373	CDC3 Septin family protein [Cell division and chro	98.32
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.31
PRK00098	298	GTPase RsgA; Reviewed	98.3
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	98.24
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	98.22
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	98.22
PRK12288	347	GTPase RsgA; Reviewed	98.21
COG0012	372	Predicted GTPase, probable translation factor [Tra	98.18
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	98.16
KOG0410	410	consensus Predicted GTP binding protein [General f	98.15
COG3276	447	SelB Selenocysteine-specific translation elongatio	98.14
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	98.14
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.13
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.11
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.11
COG4598	256	HisP ABC-type histidine transport system, ATPase c	98.09
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	98.06
KOG1547	336	consensus Septin CDC10 and related P-loop GTPases	98.06
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	98.04
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	98.03
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.03
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.02
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	97.98
KOG1486	364	consensus GTP-binding protein DRG2 (ODN superfamil	97.96
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	97.95
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	97.92
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	97.92
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	97.9
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	97.89
PRK09563	287	rbgA GTPase YlqF; Reviewed	97.89
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	97.83
KOG3887	347	consensus Predicted small GTPase involved in nucle	97.82
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	97.76
COG0050	394	TufB GTPases - translation elongation factors [Tra	97.76
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.73
COG1161	322	Predicted GTPases [General function prediction onl	97.73
PRK13796	365	GTPase YqeH; Provisional	97.68
KOG2486	320	consensus Predicted GTPase [General function predi	97.64
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	97.62
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	97.59
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	97.52
COG2884	223	FtsE Predicted ATPase involved in cell division [C	97.52
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	97.5
PRK12288	347	GTPase RsgA; Reviewed	97.48
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	97.44
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	97.44
PRK12289	352	GTPase RsgA; Reviewed	97.41
KOG0467	887	consensus Translation elongation factor 2/ribosome	97.37
PRK10416	318	signal recognition particle-docking protein FtsY;	97.37
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	97.36
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	97.35
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	97.31
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	97.3
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	97.3
PRK13796	365	GTPase YqeH; Provisional	97.28
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	97.28
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	97.26
KOG0057	591	consensus Mitochondrial Fe/S cluster exporter, ABC	97.24
PRK01889	356	GTPase RsgA; Reviewed	97.24
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.19
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.18
KOG0460	449	consensus Mitochondrial translation elongation fac	97.14
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	97.12
PRK09563	287	rbgA GTPase YlqF; Reviewed	97.12
KOG1487	358	consensus GTP-binding protein DRG1 (ODN superfamil	97.11
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	97.09
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	97.09
COG1162	301	Predicted GTPases [General function prediction onl	97.08
COG3638	258	ABC-type phosphate/phosphonate transport system, A	97.07
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.07
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	97.06
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	97.06
PRK14974	336	cell division protein FtsY; Provisional	97.06
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	97.06
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	97.06
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	97.06
KOG1491	391	consensus Predicted GTP-binding protein (ODN super	97.05
PRK13695	174	putative NTPase; Provisional	97.05
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	97.05
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	97.05
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	97.04
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	97.04
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	97.04
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	97.04
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	97.02
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	97.01
cd03269	210	ABC_putative_ATPase This subfamily is involved in	97.01
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	97.0
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	96.99
PRK00098	298	GTPase RsgA; Reviewed	96.99
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.99
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	96.99
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	96.99
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	96.98
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	96.98
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	96.98
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	96.96
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	96.96
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	96.95
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	96.95
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	96.95
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	96.95
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	96.94
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	96.92
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	96.92
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	96.92
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	96.92
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	96.92
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	96.92
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	96.91
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	96.91
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	96.91
COG4525	259	TauB ABC-type taurine transport system, ATPase com	96.91
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	96.91
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	96.9
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	96.9
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	96.9
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	96.89
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	96.89
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	96.89
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	96.89
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	96.88
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	96.88
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	96.87
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	96.87
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	96.87
TIGR01288	303	nodI ATP-binding ABC transporter family nodulation	96.87
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.87
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	96.86
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	96.85
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	96.85
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	96.85
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	96.85
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	96.84
PRK14239	252	phosphate transporter ATP-binding protein; Provisi	96.84
cd03112	158	CobW_like The function of this protein family is u	96.84
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	96.84
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	96.84
KOG1143	591	consensus Predicted translation elongation factor	96.83
PF00005	137	ABC_tran: ABC transporter This structure is on hol	96.83
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	96.82
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.81
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	96.81
PRK09580	248	sufC cysteine desulfurase ATPase component; Review	96.81
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.8
PRK10908	222	cell division protein FtsE; Provisional	96.8
PRK14259	269	phosphate ABC transporter ATP-binding protein; Pro	96.8
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	96.79
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	96.79
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	96.79
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	96.79
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	96.78
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.78
PRK14240	250	phosphate transporter ATP-binding protein; Provisi	96.77
PRK14251	251	phosphate ABC transporter ATP-binding protein; Pro	96.77
PRK14235	267	phosphate transporter ATP-binding protein; Provisi	96.77
PRK13548	258	hmuV hemin importer ATP-binding subunit; Provision	96.77
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	96.76
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	96.76
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	96.75
PRK14262	250	phosphate ABC transporter ATP-binding protein; Pro	96.75
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	96.75
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	96.74
PRK14248	268	phosphate ABC transporter ATP-binding protein; Pro	96.74
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	96.74
PRK14269	246	phosphate ABC transporter ATP-binding protein; Pro	96.74
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	96.73
KOG0466	466	consensus Translation initiation factor 2, gamma s	96.73
PRK10253	265	iron-enterobactin transporter ATP-binding protein;	96.73
PRK14256	252	phosphate ABC transporter ATP-binding protein; Pro	96.73
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	96.72
COG5258	527	GTPBP1 GTPase [General function prediction only]	96.72
PRK11614	237	livF leucine/isoleucine/valine transporter ATP-bin	96.71
PRK11231	255	fecE iron-dicitrate transporter ATP-binding subuni	96.71
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	96.71
PRK14243	264	phosphate transporter ATP-binding protein; Provisi	96.71
cd03114	148	ArgK-like The function of this protein family is u	96.7
PRK14265	274	phosphate ABC transporter ATP-binding protein; Pro	96.7
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	96.7
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	96.7
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.69
PRK14260	259	phosphate ABC transporter ATP-binding protein; Pro	96.69

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

Probab=100.00  E-value=8e-38  Score=267.41  Aligned_cols=174  Identities=23%  Similarity=0.341  Sum_probs=158.1

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCc
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQL  122 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~a  122 (289)
                      .....+.+||+++|++|||||+|+.||..+.|.+.+..|+|+++...++..+++.++++||||+|||+|+++..+||++|
T Consensus         3 ~~~~dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~a   82 (205)
T KOG0084|consen    3 NPEYDYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRGA   82 (205)
T ss_pred             CcccceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccCC
Confidence            34567789999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHhhhcCCC--eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          123 TALVMVFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       123 d~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~--~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      ||+|||||+|+.+||+.+..|+.+++++...  |.++||||+|+.        ..+.+                      
T Consensus        83 hGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~--------~~~~v----------------------  132 (205)
T KOG0084|consen   83 HGIIFVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLT--------EKRVV----------------------  132 (205)
T ss_pred             CeEEEEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccH--------hheec----------------------
Confidence            9999999999999999999999999988654  899999999995        34555                      


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCCe-EEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCccccc
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRIE-YIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKS  270 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~  270 (289)
                          +.++        ++.++..++++ |+|+|||++            .||++.|..|...+...+.+..
T Consensus       133 ----~~~~--------a~~fa~~~~~~~f~ETSAK~~------------~NVe~~F~~la~~lk~~~~~~~  179 (205)
T KOG0084|consen  133 ----STEE--------AQEFADELGIPIFLETSAKDS------------TNVEDAFLTLAKELKQRKGLHV  179 (205)
T ss_pred             ----CHHH--------HHHHHHhcCCcceeecccCCc------------cCHHHHHHHHHHHHHHhcccCC
Confidence                4444        89999999998 999999999            9999999999998877665443

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

Probab=100.00  E-value=1.5e-35  Score=252.64  Aligned_cols=167  Identities=19%  Similarity=0.347  Sum_probs=152.5

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||++||+++||||||+.||..+.|.+...+|+|.-|...++.....++++.||||+|||+|+++.+.|+++|+++|
T Consensus         3 ~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapMYyRgA~AAi   82 (200)
T KOG0092|consen    3 TREFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPMYYRGANAAI   82 (200)
T ss_pred             cceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccceecCCcEEE
Confidence            34689999999999999999999999999888999999999999988888999999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcCCC--eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~~~--~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      +|||+++.+||..+++|+.++++..++  .+.|||||+||..        .|++                          
T Consensus        83 vvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~~--------~R~V--------------------------  128 (200)
T KOG0092|consen   83 VVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLLE--------RREV--------------------------  128 (200)
T ss_pred             EEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhhh--------cccc--------------------------
Confidence            999999999999999999999998777  5566999999953        4556                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMV  267 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~  267 (289)
                      +.++        +..++.+.|..|+|+|||++            .||+++|..|.+.+.+...
T Consensus       129 ~~~e--------a~~yAe~~gll~~ETSAKTg------------~Nv~~if~~Ia~~lp~~~~  171 (200)
T KOG0092|consen  129 EFEE--------AQAYAESQGLLFFETSAKTG------------ENVNEIFQAIAEKLPCSDP  171 (200)
T ss_pred             cHHH--------HHHHHHhcCCEEEEEecccc------------cCHHHHHHHHHHhccCccc
Confidence            4444        89999999999999999999            9999999999998876653

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

Probab=100.00  E-value=4.9e-35  Score=249.82  Aligned_cols=171  Identities=21%  Similarity=0.350  Sum_probs=153.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +.+|++++|+.+|||||||+||..+.|...|..|+|.+|...++...+.++.+++|||+|||+|+++.+.|++++.++|+
T Consensus        21 k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrslipsY~Rds~vavi  100 (221)
T KOG0094|consen   21 KKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVI  100 (221)
T ss_pred             eEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhhhhhccCCeEEEE
Confidence            34999999999999999999999999999999999999999988888889999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcCCC---eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQKFE---ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~~~---~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |||+++..||+....|++.++..+..   .|++||||.||..        .|++                          
T Consensus       101 VyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~d--------krqv--------------------------  146 (221)
T KOG0094|consen  101 VYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSD--------KRQV--------------------------  146 (221)
T ss_pred             EEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccc--------hhhh--------------------------
Confidence            99999999999999999999887654   6778999999964        5666                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcccccCC
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGD  272 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~~~  272 (289)
                      ..++        +...+++++..|+|+||+.|            .||.++|..+.+.+......+...
T Consensus       147 s~eE--------g~~kAkel~a~f~etsak~g------------~NVk~lFrrIaa~l~~~~~~~~~~  194 (221)
T KOG0094|consen  147 SIEE--------GERKAKELNAEFIETSAKAG------------ENVKQLFRRIAAALPGMEVLEILS  194 (221)
T ss_pred             hHHH--------HHHHHHHhCcEEEEecccCC------------CCHHHHHHHHHHhccCcccccccc
Confidence            4444        78889999999999999999            999999999888776665544333

>KOG0098 consensus GTPase Rab2, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.6e-35  Score=251.12  Aligned_cols=172  Identities=20%  Similarity=0.343  Sum_probs=157.5

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      ...+.+|++++|+.|||||+|+.||....|.+.+..|+|++|....+..+++.++++||||+|||+|+++..+||+.|.+
T Consensus         2 ~~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~G   81 (216)
T KOG0098|consen    2 SYAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAG   81 (216)
T ss_pred             CccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcc
Confidence            34567999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcCCC--eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~--~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      ++||||+++.+||..+..|+.+++.+..+  .++|+|||+||        +..|.|                        
T Consensus        82 alLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL--------~~rR~V------------------------  129 (216)
T KOG0098|consen   82 ALLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDL--------EARREV------------------------  129 (216)
T ss_pred             eEEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhh--------hccccc------------------------
Confidence            99999999999999999999999988543  78889999999        446666                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCccccc
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKS  270 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~  270 (289)
                        +.+|        ++.||++||+.|+|+||+++            .||+++|......|++..+..-
T Consensus       130 --s~EE--------GeaFA~ehgLifmETSakt~------------~~VEEaF~nta~~Iy~~~q~g~  175 (216)
T KOG0098|consen  130 --SKEE--------GEAFAREHGLIFMETSAKTA------------ENVEEAFINTAKEIYRKIQDGV  175 (216)
T ss_pred             --cHHH--------HHHHHHHcCceeehhhhhhh------------hhHHHHHHHHHHHHHHHHHhcc
Confidence              5555        99999999999999999999            9999999999999887665544

>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=100.00  E-value=4.8e-35  Score=253.16  Aligned_cols=172  Identities=19%  Similarity=0.311  Sum_probs=158.4

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      .+...+||+++|+++||||+|+.||..+.|...+.+|+|++|...++..++..+.+++|||+||++|+.+...|+++|++
T Consensus         8 ~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYyrgA~g   87 (207)
T KOG0078|consen    8 DYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMG   87 (207)
T ss_pred             CcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHHhhcCe
Confidence            56677999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcCCC--eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~--~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      +++|||+++..||+.+..|+..|+.+.+.  +++|||||+|+.        ..|++                        
T Consensus        88 i~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~--------~~R~V------------------------  135 (207)
T KOG0078|consen   88 ILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLE--------EKRQV------------------------  135 (207)
T ss_pred             eEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeecccccc--------ccccc------------------------
Confidence            99999999999999999999999988764  899999999994        45666                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCccccc
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKS  270 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~  270 (289)
                        +.        ++++.+|.++|+.|+|||||+|            .||++.|..|.+.++..+...+
T Consensus       136 --~~--------e~ge~lA~e~G~~F~EtSAk~~------------~NI~eaF~~La~~i~~k~~~~~  181 (207)
T KOG0078|consen  136 --SK--------ERGEALAREYGIKFFETSAKTN------------FNIEEAFLSLARDILQKLEDAE  181 (207)
T ss_pred             --cH--------HHHHHHHHHhCCeEEEccccCC------------CCHHHHHHHHHHHHHhhcchhh
Confidence              22        3399999999999999999999            9999999999999987666544

>KOG0394 consensus Ras-related GTPase [General function prediction only]

Probab=100.00  E-value=2.3e-35  Score=249.60  Aligned_cols=168  Identities=17%  Similarity=0.383  Sum_probs=150.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..+||+|+|++|||||||+++|.+.+|..++..|+|.+|.+..+..++..+.++||||+|||+|.++...+++++|++++
T Consensus         8 ~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg~aFYRgaDcCvl   87 (210)
T KOG0394|consen    8 TLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLGVAFYRGADCCVL   87 (210)
T ss_pred             cceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccHHHhhhcccceecCCceEEE
Confidence            34899999999999999999999999999999999999999999889999999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcCCC------eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQKFE------ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~~~------~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      |||++++.||+.+.+|..++-.+..+      |+||+|||+|+..+.      .|++                       
T Consensus        88 vydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~------~r~V-----------------------  138 (210)
T KOG0394|consen   88 VYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGK------SRQV-----------------------  138 (210)
T ss_pred             EeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCc------ccee-----------------------
Confidence            99999999999999999998655432      999999999996532      2444                       


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcc
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMV  267 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~  267 (289)
                         +.+        +|+.||...| ++|||+|||..            .||++.|..+.++.+.+..
T Consensus       139 ---S~~--------~Aq~WC~s~gnipyfEtSAK~~------------~NV~~AFe~ia~~aL~~E~  182 (210)
T KOG0394|consen  139 ---SEK--------KAQTWCKSKGNIPYFETSAKEA------------TNVDEAFEEIARRALANED  182 (210)
T ss_pred             ---eHH--------HHHHHHHhcCCceeEEeccccc------------ccHHHHHHHHHHHHHhccc
Confidence               333        3999999887 79999999999            9999999999999887753

>KOG0080 consensus GTPase Rab18, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=2.3e-34  Score=238.81  Aligned_cols=173  Identities=23%  Similarity=0.375  Sum_probs=156.5

Q ss_pred             cccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCcc
Q 040295           44 ASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLT  123 (289)
Q Consensus        44 ~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad  123 (289)
                      ..+...+||+++|.+|||||||+-+|..+.|.+....|+|.+|....+..++..+++-||||+|||+|+.+.++|+++|.
T Consensus         6 s~~~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRgaq   85 (209)
T KOG0080|consen    6 SGYDTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGAQ   85 (209)
T ss_pred             cCcceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhccCc
Confidence            34556699999999999999999999999999999999999999888999999999999999999999999999999999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHhhhcCCC---eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          124 ALVMVFNLNDLSTLDALKHWVPSIDLQKFE---ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       124 ~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~---~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      ++|+|||++.+++|..+..|+.++..+..+   ..++||||+|.        +.+|.+                      
T Consensus        86 GiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDk--------es~R~V----------------------  135 (209)
T KOG0080|consen   86 GIILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDK--------ESERVV----------------------  135 (209)
T ss_pred             eeEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccc--------hhcccc----------------------
Confidence            999999999999999999999999888544   66789999997        556777                      


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCccccc
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKS  270 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~  270 (289)
                          +.++        +..|+++|++-|+|||||+.            +||+..|++|+..|+....+-+
T Consensus       136 ----~reE--------G~kfAr~h~~LFiE~SAkt~------------~~V~~~FeelveKIi~tp~l~~  181 (209)
T KOG0080|consen  136 ----DREE--------GLKFARKHRCLFIECSAKTR------------ENVQCCFEELVEKIIETPSLWE  181 (209)
T ss_pred             ----cHHH--------HHHHHHhhCcEEEEcchhhh------------ccHHHHHHHHHHHHhcCcchhh
Confidence                5555        89999999999999999999            9999999999988876654443

>cd04121 Rab40 Rab40 subfamily

Probab=100.00  E-value=8.4e-33  Score=240.38  Aligned_cols=165  Identities=17%  Similarity=0.272  Sum_probs=144.7

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||+|+|+.|||||||+++|..+.|...+.++.+.++....+..++..+.+++|||+|+++|+.++..+++++|++|
T Consensus         4 ~~~~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~il   83 (189)
T cd04121           4 DYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGII   83 (189)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhcCCCEEE
Confidence            45689999999999999999999999998888888888887777777777899999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcCCC-eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQKFE-ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~~~-~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      ||||++++.||+.+..|++.+....+. |+||||||+|+..        .+.+                          +
T Consensus        84 lVfD~t~~~Sf~~~~~w~~~i~~~~~~~piilVGNK~DL~~--------~~~v--------------------------~  129 (189)
T cd04121          84 LVYDITNRWSFDGIDRWIKEIDEHAPGVPKILVGNRLHLAF--------KRQV--------------------------A  129 (189)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccchh--------ccCC--------------------------C
Confidence            999999999999999999999766433 9999999999943        2223                          2


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                      .+        .++.|++.++++|+||||++|            .||+++|.+|++.+...
T Consensus       130 ~~--------~~~~~a~~~~~~~~e~SAk~g------------~~V~~~F~~l~~~i~~~  169 (189)
T cd04121         130 TE--------QAQAYAERNGMTFFEVSPLCN------------FNITESFTELARIVLMR  169 (189)
T ss_pred             HH--------HHHHHHHHcCCEEEEecCCCC------------CCHHHHHHHHHHHHHHh
Confidence            22        288999999999999999999            99999999999877644

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

>cd04120 Rab12 Rab12 subfamily

Probab=100.00  E-value=1e-32  Score=242.32  Aligned_cols=163  Identities=21%  Similarity=0.355  Sum_probs=141.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +.|+++|++|||||||+++|..+.|...+.+|.+..+....+..++..+.+.+|||+|+++|+.++..|+++++++|+||
T Consensus         1 ~~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVf   80 (202)
T cd04120           1 LQVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVY   80 (202)
T ss_pred             CEEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEE
Confidence            36999999999999999999999998889999998887777777777899999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |+++++||+.+..|+..+.....  .|+++||||+|+..        .+++                          .. 
T Consensus        81 Dvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~~--------~~~v--------------------------~~-  125 (202)
T cd04120          81 DITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCET--------DREI--------------------------SR-  125 (202)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECccccc--------cccc--------------------------CH-
Confidence            99999999999999998876543  39999999999953        2222                          11 


Q ss_pred             CCcHHHHHHHHHHHHHc-CCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          208 EPSWEIRRSCLEWCTEH-RIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~-~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                             ..+.++++.+ ++.|+||||++|            .||+++|.+|++.+...+
T Consensus       126 -------~~~~~~a~~~~~~~~~etSAktg------------~gV~e~F~~l~~~~~~~~  166 (202)
T cd04120         126 -------QQGEKFAQQITGMRFCEASAKDN------------FNVDEIFLKLVDDILKKM  166 (202)
T ss_pred             -------HHHHHHHHhcCCCEEEEecCCCC------------CCHHHHHHHHHHHHHHhC
Confidence                   2267888775 789999999999            999999999998886544

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

>KOG0087 consensus GTPase Rab11/YPT3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=6.4e-33  Score=239.50  Aligned_cols=173  Identities=19%  Similarity=0.319  Sum_probs=158.8

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCc
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQL  122 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~a  122 (289)
                      ....++.+||+++|+|+||||-|+.||..++|..+..+|+|+++.+..+..+++.++.+||||+|||+|+++...|+++|
T Consensus         8 ~~~~dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAitSaYYrgA   87 (222)
T KOG0087|consen    8 SEEYDYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAITSAYYRGA   87 (222)
T ss_pred             ccccceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhccccchhhccc
Confidence            45678889999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHhhhcCCC--eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          123 TALVMVFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       123 d~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~--~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      .|+++|||++...+|+.+..|+.+++.+..+  +++|||||+||.        ..|.+                      
T Consensus        88 vGAllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~--------~lraV----------------------  137 (222)
T KOG0087|consen   88 VGALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLN--------HLRAV----------------------  137 (222)
T ss_pred             ceeEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhh--------hcccc----------------------
Confidence            9999999999999999999999999988755  899999999994        46666                      


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcccc
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLK  269 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~  269 (289)
                          +.++        +..++...+..++|+||.+.            .||+..|..++..|+.....+
T Consensus       138 ----~te~--------~k~~Ae~~~l~f~EtSAl~~------------tNVe~aF~~~l~~I~~~vs~k  182 (222)
T KOG0087|consen  138 ----PTED--------GKAFAEKEGLFFLETSALDA------------TNVEKAFERVLTEIYKIVSKK  182 (222)
T ss_pred             ----chhh--------hHhHHHhcCceEEEeccccc------------ccHHHHHHHHHHHHHHHHHHH
Confidence                5555        89999999999999999999            999999999998886554433

>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=3.2e-33  Score=230.42  Aligned_cols=174  Identities=18%  Similarity=0.290  Sum_probs=160.3

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCc
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQL  122 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~a  122 (289)
                      +.++.+.+|++++|+.|.|||+|+++|+.++|.++...|+|++|.+..++..++.++++||||+|||+|+++...|+++|
T Consensus         3 sEtYDyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRGA   82 (214)
T KOG0086|consen    3 SETYDYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGA   82 (214)
T ss_pred             chhhhhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhccc
Confidence            34566779999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHhhhcCCC--eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          123 TALVMVFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       123 d~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~--~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      .++++|||++++++|+.+.+|+.+++...++  .||++|||.||.        ..|++                      
T Consensus        83 AGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL~--------~~R~V----------------------  132 (214)
T KOG0086|consen   83 AGALLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNKKDLD--------PEREV----------------------  132 (214)
T ss_pred             cceEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhcC--------hhhhh----------------------
Confidence            9999999999999999999999999998776  678899999994        46767                      


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCccccc
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKS  270 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~  270 (289)
                          +..+        +..||.++.+-+.|+||++|            +||++.|-...+.++...+..+
T Consensus       133 ----tflE--------As~FaqEnel~flETSa~TG------------eNVEEaFl~c~~tIl~kIE~GE  178 (214)
T KOG0086|consen  133 ----TFLE--------ASRFAQENELMFLETSALTG------------ENVEEAFLKCARTILNKIESGE  178 (214)
T ss_pred             ----hHHH--------HHhhhcccceeeeeeccccc------------ccHHHHHHHHHHHHHHHHhhcC
Confidence                4444        89999999999999999999            9999999999999988887766

>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]

Probab=99.98  E-value=5.1e-33  Score=227.98  Aligned_cols=166  Identities=19%  Similarity=0.304  Sum_probs=151.6

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+|.+|+|++|||||||+.+|..+.|...|..|+|.++...++..++..++++||||+|+|+|+.+...|+++.+++|
T Consensus         6 dhLfkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgthgv~   85 (198)
T KOG0079|consen    6 DHLFKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHGVI   85 (198)
T ss_pred             HHHHHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCceEE
Confidence            34578999999999999999999999999999999999999889888999999999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcCCC-eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQKFE-ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~~~-~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      +|||+++.+||..++.|+.+++...+. |-++||||.|+.        .+|.+                          .
T Consensus        86 vVYDVTn~ESF~Nv~rWLeei~~ncdsv~~vLVGNK~d~~--------~RrvV--------------------------~  131 (198)
T KOG0079|consen   86 VVYDVTNGESFNNVKRWLEEIRNNCDSVPKVLVGNKNDDP--------ERRVV--------------------------D  131 (198)
T ss_pred             EEEECcchhhhHhHHHHHHHHHhcCccccceecccCCCCc--------cceee--------------------------e
Confidence            999999999999999999999987665 888899999994        34444                          3


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                      .++        |+.|+...|+++||+|||.+            +|++.+|..|.+..+...
T Consensus       132 t~d--------Ar~~A~~mgie~FETSaKe~------------~NvE~mF~cit~qvl~~k  172 (198)
T KOG0079|consen  132 TED--------ARAFALQMGIELFETSAKEN------------ENVEAMFHCITKQVLQAK  172 (198)
T ss_pred             hHH--------HHHHHHhcCchheehhhhhc------------ccchHHHHHHHHHHHHHH
Confidence            344        99999999999999999999            999999999999887665

>cd04122 Rab14 Rab14 subfamily

Probab=99.98  E-value=3.2e-31  Score=223.33  Aligned_cols=162  Identities=19%  Similarity=0.302  Sum_probs=140.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||+++|.++.|...+.+|.+.++....+..++..+.+.+|||+|+++|..++..++++++++|+|
T Consensus         2 ~~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   81 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMV   81 (166)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEE
Confidence            47999999999999999999999999888888988888766666677788999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      ||++++++|+.+..|+..+.....  .|+++||||+|+...        +.+                          + 
T Consensus        82 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~--------~~~--------------------------~-  126 (166)
T cd04122          82 YDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQ--------RDV--------------------------T-  126 (166)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccc--------cCc--------------------------C-
Confidence            999999999999999998866543  389999999999532        111                          1 


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                             .+.+.+++..++++|+||||++|            .|+.++|..|++.++.
T Consensus       127 -------~~~~~~~~~~~~~~~~e~Sa~~~------------~~i~e~f~~l~~~~~~  165 (166)
T cd04122         127 -------YEEAKQFADENGLLFLECSAKTG------------ENVEDAFLETAKKIYQ  165 (166)
T ss_pred             -------HHHHHHHHHHcCCEEEEEECCCC------------CCHHHHHHHHHHHHhh
Confidence                   12277888889999999999999            9999999999987754

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

>cd04133 Rop_like Rop subfamily

Probab=99.98  E-value=2.3e-31  Score=228.85  Aligned_cols=168  Identities=18%  Similarity=0.224  Sum_probs=138.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||+.+|..+.|...+.+|++..+. ..+..++..+++.||||+|+++|+.+...++++++++|+||
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~-~~~~~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvy   80 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVSVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   80 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeeeE-EEEEECCEEEEEEEEECCCCccccccchhhcCCCcEEEEEE
Confidence            69999999999999999999999998889999987664 34455677899999999999999999999999999999999


Q ss_pred             eCCCHhhHHHH-HHHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDAL-KHWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l-~~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |+++++||+.+ ..|+..++.... .|++|||||+||.+....      ..                  .+.+.      
T Consensus        81 d~~~~~Sf~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~~~~~------~~------------------~~~~~------  130 (176)
T cd04133          81 SLISRASYENVLKKWVPELRHYAPNVPIVLVGTKLDLRDDKQY------LA------------------DHPGA------  130 (176)
T ss_pred             EcCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhccChhh------hh------------------hccCC------
Confidence            99999999998 689999976543 389999999999542110      00                  00000      


Q ss_pred             CCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          208 EPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                        .....+++..|+..+++ .|+||||++|            .||+++|..+++.+
T Consensus       131 --~~v~~~~~~~~a~~~~~~~~~E~SAk~~------------~nV~~~F~~~~~~~  172 (176)
T cd04133         131 --SPITTAQGEELRKQIGAAAYIECSSKTQ------------QNVKAVFDAAIKVV  172 (176)
T ss_pred             --CCCCHHHHHHHHHHcCCCEEEECCCCcc------------cCHHHHHHHHHHHH
Confidence              01113348899999998 6999999999            99999999999865

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,

>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]

Probab=99.98  E-value=1.5e-32  Score=227.48  Aligned_cols=183  Identities=21%  Similarity=0.329  Sum_probs=163.5

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ....|||+++|..=||||||+-||.-++|...+.+|+...|.+..++..+....+.||||+|||+|..+.+.||++.+++
T Consensus        10 ~s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQErfHALGPIYYRgSnGa   89 (218)
T KOG0088|consen   10 KSFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQERFHALGPIYYRGSNGA   89 (218)
T ss_pred             CceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccchHhhhccCceEEeCCCce
Confidence            44569999999999999999999999999999999999888888888888899999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcCCC--eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~~~--~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      ++|||++|++||+.+++|+..++....+  -+++||||+||        +.+|++                         
T Consensus        90 lLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDL--------EeeR~V-------------------------  136 (218)
T KOG0088|consen   90 LLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDL--------EEERQV-------------------------  136 (218)
T ss_pred             EEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccH--------HHhhhh-------------------------
Confidence            9999999999999999999999887655  67789999999        677888                         


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcccccCCCCCCCCCCcc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKITEPSLPVK  282 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~~~~~~~~~~~~~  282 (289)
                       +..+        +..++...|..|+|+||+.+            .||.++|..|.+.|+++.......+.+.++.|..
T Consensus       137 -t~qe--------Ae~YAesvGA~y~eTSAk~N------------~Gi~elFe~Lt~~MiE~~s~~qr~~~~~s~qpp~  194 (218)
T KOG0088|consen  137 -TRQE--------AEAYAESVGALYMETSAKDN------------VGISELFESLTAKMIEHSSQRQRTRSPLSTQPPS  194 (218)
T ss_pred             -hHHH--------HHHHHHhhchhheecccccc------------cCHHHHHHHHHHHHHHHhhhcccccCCcCCCCCC
Confidence             5544        89999999999999999999            9999999999999999887666555444444443

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.98  E-value=2.8e-31  Score=229.36  Aligned_cols=173  Identities=17%  Similarity=0.174  Sum_probs=139.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..+||+++|++|||||||+++|..+.|...+.+|.+..+. ..+..++..+.+.||||+|++.|..+...+++++|++|+
T Consensus         4 ~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~~-~~~~~~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~il   82 (182)
T cd04172           4 VKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLI   82 (182)
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeeeE-EEEEECCEEEEEEEEECCCchhhHhhhhhhcCCCCEEEE
Confidence            4589999999999999999999999998889999987663 455566778999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHH-HHHHHHhhhcCCC-eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          128 VFNLNDLSTLDAL-KHWVPSIDLQKFE-ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       128 V~Dv~~~~S~~~l-~~~~~~i~~~~~~-~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      |||++++.||+.+ ..|+..++...+. |++|||||+||.....    ....+.                  .+.     
T Consensus        83 vyDit~~~Sf~~~~~~w~~~i~~~~~~~piilVgNK~DL~~~~~----~~~~~~------------------~~~-----  135 (182)
T cd04172          83 CFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDLT----TLVELS------------------NHR-----  135 (182)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEeEChhhhcChh----hHHHHH------------------hcC-----
Confidence            9999999999997 7999999776543 9999999999953211    001110                  000     


Q ss_pred             CCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchh-HHHHHHHHHHhcc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQG-VERLYGALSAHMW  263 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~-i~~l~~~L~~~~~  263 (289)
                         ......+++.++++.+++ +|+||||+++            .| |+++|..+++.++
T Consensus       136 ---~~~v~~~~~~~~a~~~~~~~~~E~SAk~~------------~n~v~~~F~~~~~~~~  180 (182)
T cd04172         136 ---QTPVSYDQGANMAKQIGAATYIECSALQS------------ENSVRDIFHVATLACV  180 (182)
T ss_pred             ---CCCCCHHHHHHHHHHcCCCEEEECCcCCC------------CCCHHHHHHHHHHHHh
Confidence               000112348999999996 8999999999            98 9999999988543

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

>cd01875 RhoG RhoG subfamily

Probab=99.98  E-value=5.5e-31  Score=228.45  Aligned_cols=174  Identities=16%  Similarity=0.211  Sum_probs=138.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||+++|..+.|...+.+|.+..+. ..+..++..+.+.+|||+|+++|+.++..|++++|++|+|
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilv   81 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYS-AQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIIC   81 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeeeE-EEEEECCEEEEEEEEECCCchhhhhhhhhhccCCCEEEEE
Confidence            489999999999999999999999998889999987654 3344466789999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHH-HHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          129 FNLNDLSTLDALK-HWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       129 ~Dv~~~~S~~~l~-~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      ||++++.||+.+. .|+..+..... .|+++||||+||......    ...+.                         . 
T Consensus        82 ydit~~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~~~~~----~~~~~-------------------------~-  131 (191)
T cd01875          82 FSIASPSSYENVRHKWHPEVCHHCPNVPILLVGTKKDLRNDADT----LKKLK-------------------------E-  131 (191)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEeChhhhcChhh----HHHHh-------------------------h-
Confidence            9999999999997 69988865433 499999999999542110    00110                         0 


Q ss_pred             CCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          207 EEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                      ........+++..|+..++ ++|+||||++|            .||+++|..|++.+...
T Consensus       132 ~~~~~v~~~~~~~~a~~~~~~~~~e~SAk~g------------~~v~e~f~~l~~~~~~~  179 (191)
T cd01875         132 QGQAPITPQQGGALAKQIHAVKYLECSALNQ------------DGVKEVFAEAVRAVLNP  179 (191)
T ss_pred             ccCCCCCHHHHHHHHHHcCCcEEEEeCCCCC------------CCHHHHHHHHHHHHhcc
Confidence            0000011234889999998 58999999999            99999999999887654

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

>cd04131 Rnd Rnd subfamily

Probab=99.98  E-value=5.1e-31  Score=226.69  Aligned_cols=172  Identities=16%  Similarity=0.175  Sum_probs=138.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      ++||+++|++|||||||+++|..+.|...+.+|.+..+. ..+..++..+.+.+|||+|++.|..+...++++++++|+|
T Consensus         1 ~~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilv   79 (178)
T cd04131           1 RCKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENYT-ASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLIC   79 (178)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEEE-EEEEECCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEE
Confidence            379999999999999999999999998888899887663 4555567789999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHH-HHHHHHhhhcCCC-eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          129 FNLNDLSTLDAL-KHWVPSIDLQKFE-ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       129 ~Dv~~~~S~~~l-~~~~~~i~~~~~~-~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      ||+++++||+.+ ..|+..++...+. |+++||||+||.....    ....+                          ..
T Consensus        80 fdit~~~Sf~~~~~~w~~~i~~~~~~~~iilVgnK~DL~~~~~----~~~~~--------------------------~~  129 (178)
T cd04131          80 FDISRPETLDSVLKKWRGEIQEFCPNTKVLLVGCKTDLRTDLS----TLMEL--------------------------SH  129 (178)
T ss_pred             EECCChhhHHHHHHHHHHHHHHHCCCCCEEEEEEChhhhcChh----HHHHH--------------------------Hh
Confidence            999999999996 7999999876544 8999999999954211    00111                          00


Q ss_pred             CCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchh-HHHHHHHHHHhcc
Q 040295          207 EEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQG-VERLYGALSAHMW  263 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~-i~~l~~~L~~~~~  263 (289)
                      ........+++.++++.+++ +|+||||++|            ++ |+++|..+++..+
T Consensus       130 ~~~~~v~~~e~~~~a~~~~~~~~~E~SA~~~------------~~~v~~~F~~~~~~~~  176 (178)
T cd04131         130 QRQAPVSYEQGCAIAKQLGAEIYLECSAFTS------------EKSVRDIFHVATMACL  176 (178)
T ss_pred             cCCCCCCHHHHHHHHHHhCCCEEEECccCcC------------CcCHHHHHHHHHHHHh
Confidence            00000112348999999997 7999999999            95 9999999998544

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.

>cd04127 Rab27A Rab27a subfamily

Probab=99.97  E-value=9.1e-31  Score=222.84  Aligned_cols=164  Identities=17%  Similarity=0.254  Sum_probs=139.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecC----------cceEEEEEEEcCCchhhhccccc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTK----------YYTADVSLWMAHLHEEFSIRSLP  117 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~----------~~~~~l~I~Dt~G~e~~~~~~~~  117 (289)
                      +.+||+++|++|||||||+++|.++.|...+.+|.+.++....+...          +..+.+.+|||+|++.|..++..
T Consensus         3 ~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~   82 (180)
T cd04127           3 YLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTTA   82 (180)
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHHH
Confidence            45899999999999999999999999988889999887765544322          45688999999999999999999


Q ss_pred             cccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCC
Q 040295          118 ISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSG  194 (289)
Q Consensus       118 ~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~  194 (289)
                      +++++|++|+|||+++++||..+..|+..+....   .+|+++||||+|+...        +.+                
T Consensus        83 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~--------~~v----------------  138 (180)
T cd04127          83 FFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQ--------RQV----------------  138 (180)
T ss_pred             HhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhc--------Ccc----------------
Confidence            9999999999999999999999999999987653   4489999999999532        111                


Q ss_pred             CCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          195 ISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                +.        ..+.+++...+++|+++||++|            .|++++|+.|++.++.+
T Consensus       139 ----------~~--------~~~~~~~~~~~~~~~e~Sak~~------------~~v~~l~~~l~~~~~~~  179 (180)
T cd04127         139 ----------SE--------EQAKALADKYGIPYFETSAATG------------TNVEKAVERLLDLVMKR  179 (180)
T ss_pred             ----------CH--------HHHHHHHHHcCCeEEEEeCCCC------------CCHHHHHHHHHHHHHhh
Confidence                      11        1278899999999999999999            99999999999877654

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

>KOG0093 consensus GTPase Rab3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.97  E-value=1.1e-31  Score=219.99  Aligned_cols=169  Identities=18%  Similarity=0.322  Sum_probs=150.3

Q ss_pred             cccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCcc
Q 040295           44 ASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLT  123 (289)
Q Consensus        44 ~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad  123 (289)
                      ......+|++|+|++.||||||+.|+.+..|...+-+|.|.++...++-...+.++++||||+|+|+|+.+...|+++++
T Consensus        16 qnFDymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiTTayyRgam   95 (193)
T KOG0093|consen   16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTITTAYYRGAM   95 (193)
T ss_pred             ccccceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccchhhhHHHHHHhhccc
Confidence            34555679999999999999999999999999999999999998888877778899999999999999999999999999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          124 ALVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       124 ~vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      |+|++||+++.+||..++.|.-.|+...  +-+||+||||||+        +.+|.+                       
T Consensus        96 gfiLmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDm--------d~eRvi-----------------------  144 (193)
T KOG0093|consen   96 GFILMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDM--------DSERVI-----------------------  144 (193)
T ss_pred             eEEEEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCC--------ccceee-----------------------
Confidence            9999999999999999999999998763  3399999999999        445655                       


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                         +.+.        +..++...|++|||+|||.+            .||+++|.+|...+-..|
T Consensus       145 ---s~e~--------g~~l~~~LGfefFEtSaK~N------------inVk~~Fe~lv~~Ic~km  186 (193)
T KOG0093|consen  145 ---SHER--------GRQLADQLGFEFFETSAKEN------------INVKQVFERLVDIICDKM  186 (193)
T ss_pred             ---eHHH--------HHHHHHHhChHHhhhccccc------------ccHHHHHHHHHHHHHHHh
Confidence               3333        88999999999999999999            999999999988765544

>cd04117 Rab15 Rab15 subfamily

Probab=99.97  E-value=2.9e-30  Score=217.23  Aligned_cols=158  Identities=20%  Similarity=0.325  Sum_probs=137.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||+++|.++.|...+.+|.+.++....+...+..+.+.+|||+|+++|..+...+++.+|++++||
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVY   80 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEE
Confidence            58999999999999999999999998888899998877666666777789999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |+++++||+.+..|+..+.....  .|+++||||.|+...        +.+                          .. 
T Consensus        81 d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~--------~~v--------------------------~~-  125 (161)
T cd04117          81 DISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQK--------RQV--------------------------GD-  125 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccc--------cCC--------------------------CH-
Confidence            99999999999999999876543  389999999999532        222                          11 


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                             ..+..+++..+++|+||||++|            .||+++|.+|++.
T Consensus       126 -------~~~~~~~~~~~~~~~e~Sa~~~------------~~v~~~f~~l~~~  160 (161)
T cd04117         126 -------EQGNKLAKEYGMDFFETSACTN------------SNIKESFTRLTEL  160 (161)
T ss_pred             -------HHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHhh
Confidence                   2277888888999999999999            9999999999875

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.97  E-value=2.6e-30  Score=218.21  Aligned_cols=163  Identities=19%  Similarity=0.283  Sum_probs=140.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..+||+++|++|||||||+++|.+..|...+.+|.+.++....+...+..+.+.+|||+|++.+..+...+++++|++|+
T Consensus         2 ~~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~   81 (167)
T cd01867           2 YLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGIIL   81 (167)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEEE
Confidence            45899999999999999999999999998899999988766666667777899999999999999988899999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      |||++++++|+.+..|+..+....  ..|+++||||+|+.....        +                          .
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~--------~--------------------------~  127 (167)
T cd01867          82 VYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDMEEKRV--------V--------------------------S  127 (167)
T ss_pred             EEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccC--------C--------------------------C
Confidence            999999999999999999997764  338999999999964211        1                          1


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                      .        +.+..++..++++|+++||+++            .|++++|.+|+++++.
T Consensus       128 ~--------~~~~~~~~~~~~~~~~~Sa~~~------------~~v~~~~~~i~~~~~~  166 (167)
T cd01867         128 K--------EEGEALADEYGIKFLETSAKAN------------INVEEAFFTLAKDIKK  166 (167)
T ss_pred             H--------HHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHHHh
Confidence            1        1256777888899999999999            9999999999988753

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

>cd04128 Spg1 Spg1p

Probab=99.97  E-value=2.6e-30  Score=222.95  Aligned_cols=165  Identities=18%  Similarity=0.289  Sum_probs=139.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||+++|..+.|...+.+|.+.++....+..++..+.+.+|||+|++.|..++..++++++++++||
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~   80 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCNDAVAILFMF   80 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEE
Confidence            58999999999999999999999998889999998887667777777899999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |++++.+|+.+..|+..+.....  .| |+||||+|+.....   ...+                               
T Consensus        81 D~t~~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~---~~~~-------------------------------  125 (182)
T cd04128          81 DLTRKSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLFADLP---PEEQ-------------------------------  125 (182)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhcccccc---chhh-------------------------------
Confidence            99999999999999999876533  36 57899999953210   0000                               


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                         ....+.+.+++...+++|++|||++|            .|++++|.+|.+.++.
T Consensus       126 ---~~~~~~~~~~a~~~~~~~~e~SAk~g------------~~v~~lf~~l~~~l~~  167 (182)
T cd04128         126 ---EEITKQARKYAKAMKAPLIFCSTSHS------------INVQKIFKIVLAKAFD  167 (182)
T ss_pred             ---hhhHHHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHHHh
Confidence               11123478899999999999999999            9999999999988864

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.97  E-value=2.3e-30  Score=225.76  Aligned_cols=164  Identities=20%  Similarity=0.259  Sum_probs=140.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecC-cceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTK-YYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~-~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      +||+|+|++|||||||+++|+++.+...+.+|.+.++....+... +..+.+.+|||+|+++|..++..++++++++|+|
T Consensus         1 ~KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv   80 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIV   80 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEE
Confidence            589999999999999999999999988889999988766666555 6788999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhc------CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQ------KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~------~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      ||++++++|+.+..|+..+...      ...|+|+||||+|+...        +.+                        
T Consensus        81 ~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~--------~~~------------------------  128 (201)
T cd04107          81 FDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKR--------LAK------------------------  128 (201)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccc--------ccc------------------------
Confidence            9999999999999999888643      22399999999999531        111                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcc
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMV  267 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~  267 (289)
                        ..        ..+.+++..++ ++|++|||++|            .||+++|++|++.+.....
T Consensus       129 --~~--------~~~~~~~~~~~~~~~~e~Sak~~------------~~v~e~f~~l~~~l~~~~~  172 (201)
T cd04107         129 --DG--------EQMDQFCKENGFIGWFETSAKEG------------INIEEAMRFLVKNILANDK  172 (201)
T ss_pred             --CH--------HHHHHHHHHcCCceEEEEeCCCC------------CCHHHHHHHHHHHHHHhch
Confidence              11        22788999999 58999999999            9999999999999877654

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.

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.97  E-value=8.4e-31  Score=218.89  Aligned_cols=159  Identities=22%  Similarity=0.394  Sum_probs=143.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEe
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFN  130 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~D  130 (289)
                      ||+++|+++||||||+++|.++.|...+.+|.+.+.....+..++..+.+.+||++|++.|..+...+++++|++|+|||
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd   80 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFD   80 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHhhcccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            89999999999999999999999999999999888888888888899999999999999999888889999999999999


Q ss_pred             CCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCC
Q 040295          131 LNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEE  208 (289)
Q Consensus       131 v~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  208 (289)
                      +++++||+.+..|+..+.....  .|++|||||.|+..        .+.+                          +.  
T Consensus        81 ~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~--------~~~v--------------------------~~--  124 (162)
T PF00071_consen   81 VTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLSD--------EREV--------------------------SV--  124 (162)
T ss_dssp             TTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGG--------GSSS--------------------------CH--
T ss_pred             ccccccccccccccccccccccccccceeeeccccccc--------cccc--------------------------hh--
Confidence            9999999999999999987765  49999999999953        2222                          11  


Q ss_pred             CcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          209 PSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       209 ~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                            +.++.++..++++|+||||+++            .||.++|..+++.++
T Consensus       125 ------~~~~~~~~~~~~~~~e~Sa~~~------------~~v~~~f~~~i~~i~  161 (162)
T PF00071_consen  125 ------EEAQEFAKELGVPYFEVSAKNG------------ENVKEIFQELIRKIL  161 (162)
T ss_dssp             ------HHHHHHHHHTTSEEEEEBTTTT------------TTHHHHHHHHHHHHH
T ss_pred             ------hHHHHHHHHhCCEEEEEECCCC------------CCHHHHHHHHHHHHh
Confidence                  2388999999999999999999            999999999998764

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 ....

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.97  E-value=9.7e-31  Score=223.13  Aligned_cols=162  Identities=17%  Similarity=0.213  Sum_probs=137.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+|+|++|||||||+++|..+.|...+.+|.+..+. ..+..++..+.+.+|||+|++.|+.++..+++++|++|+|
T Consensus         2 ~~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv   80 (172)
T cd04141           2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAYK-QQARIDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIIC   80 (172)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccceEE-EEEEECCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEE
Confidence            379999999999999999999999998888888886553 3345566778899999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      ||++++.||+.+..|+..+...   ...|+++||||+|+...        +++                          +
T Consensus        81 ~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~--------~~v--------------------------~  126 (172)
T cd04141          81 YSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQ--------RQV--------------------------T  126 (172)
T ss_pred             EECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhc--------Ccc--------------------------C
Confidence            9999999999999998877654   23499999999999532        222                          1


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                      .+        .+..+++.++++|+||||++|            .||+++|++|++.+...
T Consensus       127 ~~--------~~~~~a~~~~~~~~e~Sa~~~------------~~v~~~f~~l~~~~~~~  166 (172)
T cd04141         127 TE--------EGRNLAREFNCPFFETSAALR------------HYIDDAFHGLVREIRRK  166 (172)
T ss_pred             HH--------HHHHHHHHhCCEEEEEecCCC------------CCHHHHHHHHHHHHHHh
Confidence            11        267888889999999999999            99999999999887754

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

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.97  E-value=5e-30  Score=229.77  Aligned_cols=174  Identities=16%  Similarity=0.173  Sum_probs=139.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..+||+++|++|||||||+++|..+.|...+.+|++..+. ..+..++..+.+.||||+|++.|..+...|+++++++|+
T Consensus        12 ~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~-~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~vIl   90 (232)
T cd04174          12 MRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYT-AGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLL   90 (232)
T ss_pred             eeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeeeE-EEEEECCEEEEEEEEeCCCchhhHHHHHHHcCCCcEEEE
Confidence            3589999999999999999999999999899999987764 345667778999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHH-HHHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          128 VFNLNDLSTLDAL-KHWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       128 V~Dv~~~~S~~~l-~~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      |||+++++||+.+ ..|+..+....+ .|+||||||+||......    ...+                  ....     
T Consensus        91 VyDit~~~Sf~~~~~~w~~~i~~~~~~~piilVgNK~DL~~~~~~----~~~l------------------~~~~-----  143 (232)
T cd04174          91 CFDISRPETVDSALKKWKAEIMDYCPSTRILLIGCKTDLRTDLST----LMEL------------------SNQK-----  143 (232)
T ss_pred             EEECCChHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccccccch----hhhh------------------cccc-----
Confidence            9999999999985 799999986543 389999999999532110    0000                  0000     


Q ss_pred             CCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCch-hHHHHHHHHHHhccc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQ-GVERLYGALSAHMWP  264 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~-~i~~l~~~L~~~~~~  264 (289)
                         ......+++++||+.+++ .|+||||++|            + ||+++|..+++.++.
T Consensus       144 ---~~~Vs~~e~~~~a~~~~~~~~~EtSAktg------------~~~V~e~F~~~~~~~~~  189 (232)
T cd04174         144 ---QAPISYEQGCALAKQLGAEVYLECSAFTS------------EKSIHSIFRSASLLCLN  189 (232)
T ss_pred             ---CCcCCHHHHHHHHHHcCCCEEEEccCCcC------------CcCHHHHHHHHHHHHHH
Confidence               001112348999999999 6999999999            8 799999999987654

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.

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

Probab=99.97  E-value=4.5e-31  Score=216.99  Aligned_cols=171  Identities=19%  Similarity=0.312  Sum_probs=151.9

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||+++|..|||||+|++||..+-|++....|+|++|...++..++..++++||||+|||+|+++..+|++.||++|
T Consensus         5 kflfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtagqerfrsitqsyyrsahali   84 (213)
T KOG0095|consen    5 KFLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSAHALI   84 (213)
T ss_pred             ceeEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHHHHHhhhcceEE
Confidence            44589999999999999999999999999999999999998888888999999999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcCCC--eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~~~--~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      +|||++...||+.+.+|+.+|..+.+.  .-|+||||+|+.        ++|++|                         
T Consensus        85 lvydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~--------drrevp-------------------------  131 (213)
T KOG0095|consen   85 LVYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLA--------DRREVP-------------------------  131 (213)
T ss_pred             EEEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchh--------hhhhhh-------------------------
Confidence            999999999999999999999888655  667899999994        455552                         


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcccccC
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSG  271 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~~  271 (289)
                               .+.+++|...+..-|.|+||+..            .||+++|..+..++...+.+...
T Consensus       132 ---------~qigeefs~~qdmyfletsakea------------~nve~lf~~~a~rli~~ar~~d~  177 (213)
T KOG0095|consen  132 ---------QQIGEEFSEAQDMYFLETSAKEA------------DNVEKLFLDLACRLISEARQNDL  177 (213)
T ss_pred             ---------HHHHHHHHHhhhhhhhhhcccch------------hhHHHHHHHHHHHHHHHHHhccc
Confidence                     12277888877777899999998            99999999999998877766554

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.97  E-value=3.3e-30  Score=228.66  Aligned_cols=165  Identities=17%  Similarity=0.201  Sum_probs=142.7

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||+++|++|||||||+++|+.+.|...+.+|.+.++....+..++..+.+.+|||+|+++|..++..|+++++++|
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i   90 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGYYIHGQCAI   90 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHcccccEEE
Confidence            56699999999999999999999999998889999998887777766666789999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      +|||++++.+|+.+..|+..+..... .|+++||||+|+..         +.+                          .
T Consensus        91 lvfD~~~~~s~~~i~~w~~~i~~~~~~~piilvgNK~Dl~~---------~~v--------------------------~  135 (219)
T PLN03071         91 IMFDVTARLTYKNVPTWHRDLCRVCENIPIVLCGNKVDVKN---------RQV--------------------------K  135 (219)
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHHhCCCCcEEEEEEchhhhh---------ccC--------------------------C
Confidence            99999999999999999999976543 39999999999942         111                          0


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMV  267 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~  267 (289)
                      .        ..+ .++...+++|+||||++|            .||.++|.+|++.+.....
T Consensus       136 ~--------~~~-~~~~~~~~~~~e~SAk~~------------~~i~~~f~~l~~~~~~~~~  176 (219)
T PLN03071        136 A--------KQV-TFHRKKNLQYYEISAKSN------------YNFEKPFLYLARKLAGDPN  176 (219)
T ss_pred             H--------HHH-HHHHhcCCEEEEcCCCCC------------CCHHHHHHHHHHHHHcCcc
Confidence            0        013 677778899999999999            9999999999999977654

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.97  E-value=9.5e-30  Score=213.84  Aligned_cols=161  Identities=22%  Similarity=0.342  Sum_probs=139.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+|+|++|||||||+++|.++.+...+.+|.+.++....+...+..+.+.+|||||+++|..++..+++.+|++|+|
T Consensus         2 ~~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v   81 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIIV   81 (166)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEEE
Confidence            47999999999999999999999999888888888887767776677788999999999999999888999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      ||++++++|+.+..|+..+....  ..|+++||||+|+.....        +                          + 
T Consensus        82 ~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~--------~--------------------------~-  126 (166)
T cd01869          82 YDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKRV--------V--------------------------D-  126 (166)
T ss_pred             EECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhcccccC--------C--------------------------C-
Confidence            99999999999999999987764  248999999999853211        1                          1 


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                             .+.+..++..++++|+++||++|            .|++++|..|++.+.
T Consensus       127 -------~~~~~~~~~~~~~~~~~~Sa~~~------------~~v~~~~~~i~~~~~  164 (166)
T cd01869         127 -------YSEAQEFADELGIPFLETSAKNA------------TNVEQAFMTMAREIK  164 (166)
T ss_pred             -------HHHHHHHHHHcCCeEEEEECCCC------------cCHHHHHHHHHHHHH
Confidence                   11267888888999999999999            999999999998764

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

>cd01865 Rab3 Rab3 subfamily

Probab=99.97  E-value=1.1e-29  Score=214.04  Aligned_cols=159  Identities=18%  Similarity=0.316  Sum_probs=136.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+|+|++|||||||+++|.++.|...+.+|.+.++....+..++..+.+.+|||+|++++..++..++++++++++||
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~   81 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY   81 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHccCCcEEEEEE
Confidence            69999999999999999999999998888888887776666655666789999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |++++++|+.+..|+..+.....  .|+++||||+|+.+...        +                          .  
T Consensus        82 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~--------~--------------------------~--  125 (165)
T cd01865          82 DITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERV--------V--------------------------S--  125 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccCcccc--------c--------------------------C--
Confidence            99999999999999999976643  48999999999964321        1                          0  


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                            .+.+..++...+++|+++||+++            .|+.++|++|.+.+
T Consensus       126 ------~~~~~~~~~~~~~~~~~~Sa~~~------------~gv~~l~~~l~~~~  162 (165)
T cd01865         126 ------SERGRQLADQLGFEFFEASAKEN------------INVKQVFERLVDII  162 (165)
T ss_pred             ------HHHHHHHHHHcCCEEEEEECCCC------------CCHHHHHHHHHHHH
Confidence                  11256777788899999999999            99999999998764

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

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.97  E-value=6.4e-30  Score=218.83  Aligned_cols=170  Identities=15%  Similarity=0.215  Sum_probs=135.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+|+|++|||||||+++|..+.|...+.+|.+..+. ..+..++..+.+.||||+|+++|..++..+++++|++|+||
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~   80 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYA-VTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCF   80 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeE-EEEEECCEEEEEEEEECCCccchhhhhhhhcccCCEEEEEE
Confidence            79999999999999999999999998888899887664 34445666789999999999999998988999999999999


Q ss_pred             eCCCHhhHHHHH-HHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALK-HWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~-~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |++++++|+.+. .|+..+..... .|+|+||||+|+.....    ....+                          ...
T Consensus        81 d~~~~~s~~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~~~~----~~~~l--------------------------~~~  130 (175)
T cd01874          81 SVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPS----TIEKL--------------------------AKN  130 (175)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEECHhhhhChh----hHHHh--------------------------hhc
Confidence            999999999997 59988876543 39999999999954211    01111                          000


Q ss_pred             CCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          208 EPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                      .......+.+..+++..+ +.|+||||++|            .|++++|+.++...
T Consensus       131 ~~~~v~~~~~~~~a~~~~~~~~~e~SA~tg------------~~v~~~f~~~~~~~  174 (175)
T cd01874         131 KQKPITPETGEKLARDLKAVKYVECSALTQ------------KGLKNVFDEAILAA  174 (175)
T ss_pred             cCCCcCHHHHHHHHHHhCCcEEEEecCCCC------------CCHHHHHHHHHHHh
Confidence            001112234888998887 68999999999            99999999998754

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

>cd04110 Rab35 Rab35 subfamily

Probab=99.97  E-value=1.3e-29  Score=220.97  Aligned_cols=169  Identities=17%  Similarity=0.254  Sum_probs=144.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..+||+|+|++|||||||+++|.+..|...+.+|.+.++....+...+..+.+.+|||||++.|..++..++++++++|+
T Consensus         5 ~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~iil   84 (199)
T cd04110           5 HLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGVIV   84 (199)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHHHHHhCCCcEEEE
Confidence            46899999999999999999999999988888999888776777667777889999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcCCC-eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQKFE-ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~~~-~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      |||++++++|+.+..|+..+...... |++|||||+|+.+....                                  . 
T Consensus        85 v~D~~~~~s~~~~~~~~~~i~~~~~~~piivVgNK~Dl~~~~~~----------------------------------~-  129 (199)
T cd04110          85 VYDVTNGESFVNVKRWLQEIEQNCDDVCKVLVGNKNDDPERKVV----------------------------------E-  129 (199)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccccccccc----------------------------------C-
Confidence            99999999999999999998775443 89999999999642211                                  1 


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCccccc
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKS  270 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~  270 (289)
                             ...+..++...+++|+++||++|            .||+++|++|.+.++.......
T Consensus       130 -------~~~~~~~~~~~~~~~~e~Sa~~~------------~gi~~lf~~l~~~~~~~~~~~~  174 (199)
T cd04110         130 -------TEDAYKFAGQMGISLFETSAKEN------------INVEEMFNCITELVLRAKKDNL  174 (199)
T ss_pred             -------HHHHHHHHHHcCCEEEEEECCCC------------cCHHHHHHHHHHHHHHhhhccC
Confidence                   11266778888899999999999            9999999999998876554433

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

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

Probab=99.97  E-value=8.1e-30  Score=215.93  Aligned_cols=159  Identities=16%  Similarity=0.234  Sum_probs=138.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||+++++.+.+...+.+|.+.++....+..++..+.+.+|||+|++.+..+...+++.+|++|+||
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMF   80 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCChhhccccHHHhcCCCEEEEEE
Confidence            58999999999999999999999988888899998887777777777899999999999999998889999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEE  208 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  208 (289)
                      |++++++|+.+..|+..+.... ..|+++||||+|+...         .+                              
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~piiiv~nK~Dl~~~---------~~------------------------------  121 (166)
T cd00877          81 DVTSRVTYKNVPNWHRDLVRVCGNIPIVLCGNKVDIKDR---------KV------------------------------  121 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCcEEEEEEchhcccc---------cC------------------------------
Confidence            9999999999999999997765 3499999999999521         01                              


Q ss_pred             CcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          209 PSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       209 ~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                           ......++...+++|+|+||++|            .|++++|.+|++.++.
T Consensus       122 -----~~~~~~~~~~~~~~~~e~Sa~~~------------~~v~~~f~~l~~~~~~  160 (166)
T cd00877         122 -----KAKQITFHRKKNLQYYEISAKSN------------YNFEKPFLWLARKLLG  160 (166)
T ss_pred             -----CHHHHHHHHHcCCEEEEEeCCCC------------CChHHHHHHHHHHHHh
Confidence                 01144677778889999999999            9999999999988764

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.97  E-value=1.6e-29  Score=210.96  Aligned_cols=160  Identities=17%  Similarity=0.310  Sum_probs=138.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||+++|.++.+...+.+|.+.++....+...+..+.+.+|||+|++.|..++..+++.++++|+||
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVY   80 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHHHHHHhccCCEEEEEE
Confidence            58999999999999999999999998889999998887667776777899999999999999988889999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcC-------CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQK-------FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~-------~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      |++++.+|+.+..|+..+....       ..|+++||||+|+.+..        .+                        
T Consensus        81 D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--------~~------------------------  128 (168)
T cd04119          81 DVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHR--------AV------------------------  128 (168)
T ss_pred             ECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhccccc--------cc------------------------
Confidence            9999999999999999886653       24999999999995311        11                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                        +.        ..+..++...+++|+++||+++            .|+.++|++|.+.++
T Consensus       129 --~~--------~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~l~  167 (168)
T cd04119         129 --SE--------DEGRLWAESKGFKYFETSACTG------------EGVNEMFQTLFSSIV  167 (168)
T ss_pred             --CH--------HHHHHHHHHcCCeEEEEECCCC------------CCHHHHHHHHHHHHh
Confidence              11        1256788888899999999999            999999999998764

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.

>cd04136 Rap_like Rap-like subfamily

Probab=99.97  E-value=1.1e-29  Score=211.83  Aligned_cols=158  Identities=17%  Similarity=0.214  Sum_probs=131.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+|+|++|||||||++++..+.|...+.+|.+..+ ...+..++..+.+.+|||+|+++|..++..++++++++|+||
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   80 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQIEVDGQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVY   80 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCchhhhE-EEEEEECCEEEEEEEEECCCccccchHHHHHhhcCCEEEEEE
Confidence            7999999999999999999999998877878876433 344555666788999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      |++++.+|+.+..|+..+....   ..|+++||||+|+.....        +                          . 
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~--------~--------------------------~-  125 (163)
T cd04136          81 SITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDERV--------V--------------------------S-  125 (163)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccce--------e--------------------------c-
Confidence            9999999999999998886543   349999999999954211        1                          0 


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                             ...+..++..++++|+++||+++            .|+.++|++|++.+
T Consensus       126 -------~~~~~~~~~~~~~~~~~~Sa~~~------------~~v~~l~~~l~~~~  162 (163)
T cd04136         126 -------REEGQALARQWGCPFYETSAKSK------------INVDEVFADLVRQI  162 (163)
T ss_pred             -------HHHHHHHHHHcCCeEEEecCCCC------------CCHHHHHHHHHHhc
Confidence                   11256677778899999999999            99999999998865

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.

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.97  E-value=1.8e-29  Score=214.99  Aligned_cols=161  Identities=17%  Similarity=0.304  Sum_probs=137.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEe
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFN  130 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~D  130 (289)
                      ||+++|++|||||||+++|+++.|...+.+|.+..+....+...+..+.+++|||+|+++|..++..+++++|++|+|||
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   81 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFD   81 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEE
Confidence            89999999999999999999999998899999988866666666777899999999999999999999999999999999


Q ss_pred             CCCHhhHHHHHHHHHHhhhcC-C--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          131 LNDLSTLDALKHWVPSIDLQK-F--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       131 v~~~~S~~~l~~~~~~i~~~~-~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      ++++++|+.+..|+..+.... +  .|+++||||+|+.+...        +                             
T Consensus        82 ~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~--------~-----------------------------  124 (170)
T cd04108          82 LTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQ--------Y-----------------------------  124 (170)
T ss_pred             CcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCcccc--------c-----------------------------
Confidence            999999999999999885543 2  37899999999954211        0                             


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                         ......+..++...+++|++|||++|            .|++++|..|++.+.
T Consensus       125 ---~~~~~~~~~~~~~~~~~~~e~Sa~~g------------~~v~~lf~~l~~~~~  165 (170)
T cd04108         125 ---ALMEQDAIKLAAEMQAEYWSVSALSG------------ENVREFFFRVAALTF  165 (170)
T ss_pred             ---cccHHHHHHHHHHcCCeEEEEECCCC------------CCHHHHHHHHHHHHH
Confidence               00112267788888899999999999            999999999998763

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.97  E-value=2e-29  Score=215.58  Aligned_cols=169  Identities=15%  Similarity=0.225  Sum_probs=134.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+|+|++|||||||+.+|..+.|...+.+|.+..+ ...+..++..+.+.+|||+|++.|..++..+++++|++|+||
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICF   80 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCcCCCcceeee-EEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEEE
Confidence            6999999999999999999999999888888886544 334445667789999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHH-HHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALK-HWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~-~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |+++++||+.+. .|+..+..... .|+++||||+|+.....    ....+.                          ..
T Consensus        81 d~~~~~sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~----~~~~~~--------------------------~~  130 (174)
T cd01871          81 SLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKD----TIEKLK--------------------------EK  130 (174)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhccChh----hHHHHh--------------------------hc
Confidence            999999999996 69888766543 39999999999954211    001110                          00


Q ss_pred             CCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          208 EPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                      .......+++.++++.++. +|+||||++|            +|++++|+.|++.
T Consensus       131 ~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~------------~~i~~~f~~l~~~  173 (174)
T cd01871         131 KLTPITYPQGLAMAKEIGAVKYLECSALTQ------------KGLKTVFDEAIRA  173 (174)
T ss_pred             cCCCCCHHHHHHHHHHcCCcEEEEeccccc------------CCHHHHHHHHHHh
Confidence            0001123348899999985 8999999999            9999999999864

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

>KOG4273 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.97  E-value=8.4e-30  Score=225.80  Aligned_cols=236  Identities=56%  Similarity=0.976  Sum_probs=206.8

Q ss_pred             CceEEEEcCCCC--CHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           49 RPGILIIGSSNV--GKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        49 ~iKI~ilG~~gv--GKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      +.-++++|.+||  ||-+|+.|+...+|.....+.....+++|+|++++|...+.+.-.+--..+.-..........++|
T Consensus         4 rp~~lv~g~sgvfsg~~~ll~rl~s~dfed~ses~~~te~hgwtid~kyysadi~lcishicde~~lpn~~~a~pl~a~v   83 (418)
T KOG4273|consen    4 RPCALVTGCSGVFSGDQLLLHRLGSEDFEDESESNDATEFHGWTIDNKYYSADINLCISHICDEKFLPNAEIAEPLQAFV   83 (418)
T ss_pred             CceEEEecccccccchHHHHHHhcchhheeeccccCceeeeceEecceeeecceeEEeecccchhccCCcccccceeeEE
Confidence            467899999999  999999999999999888888899999999999999888777654433322222223344567999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCC--cccCCCCCcccCCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADP--DFCQSGISETEGSSLL  204 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~--~~~~~~~~~~~~~~~~  204 (289)
                      +|||.+....+..++.|++.........+++||||.|..+.+..+.+++|++.|-.-++-+-  ++|++||+.+||++++
T Consensus        84 mvfdlse~s~l~alqdwl~htdinsfdillcignkvdrvphhlahdeyrrrl~kasdpsrdl~~di~dfgisetegssll  163 (418)
T KOG4273|consen   84 MVFDLSEKSGLDALQDWLPHTDINSFDILLCIGNKVDRVPHHLAHDEYRRRLAKASDPSRDLMIDICDFGISETEGSSLL  163 (418)
T ss_pred             EEEeccchhhhHHHHhhccccccccchhheecccccccccchhhhhHHHHHHHhhcCcchhHhhhhhhcccccccccccc
Confidence            99999999999999999998777777789999999999999999999999997655444332  6699999999999999


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcccccCCCCCCCCCCcccc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKITEPSLPVKEV  284 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~  284 (289)
                      ..++..-.+|..+.+||.+++++++|.||.+.+|++|.++|+|+.||+++|.+|.++||++|.+|.++++.+|-+|+.|+
T Consensus       164 gsedasldirga~lewc~e~~~efieacasn~dfd~c~~~dgdsqgverifgal~ahmwpgmilk~gdrinepvlpqgee  243 (418)
T KOG4273|consen  164 GSEDASLDIRGAALEWCLEHGFEFIEACASNEDFDECDDDDGDSQGVERIFGALNAHMWPGMILKNGDRINEPVLPQGEE  243 (418)
T ss_pred             ccccchhhHHHHHHHHHHhcCceeeeecCCccccchhhccCcchhhHHHHHHHhhhccCccceeccccccCCccCCCcce
Confidence            88888889999999999999999999999999999999999999999999999999999999999999999999999876

>cd01868 Rab11_like Rab11-like

Probab=99.97  E-value=3.8e-29  Score=209.74  Aligned_cols=161  Identities=20%  Similarity=0.322  Sum_probs=138.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..+||+++|++|||||||+++|.++.+...+.++.+.++....+...+..+.+.+||++|++++..+...+++.++++|+
T Consensus         2 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~   81 (165)
T cd01868           2 YLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALL   81 (165)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEE
Confidence            34799999999999999999999999988888999888877777777777899999999999999999899999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      |||++++.+|+.+..|+..+.....  .|+++||||+|+...        +.+                          .
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~~--------~~~--------------------------~  127 (165)
T cd01868          82 VYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDLRHL--------RAV--------------------------P  127 (165)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccc--------ccC--------------------------C
Confidence            9999999999999999999876543  499999999999532        111                          1


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                              .+....++...+++|+|+||++|            .|++++|+.|+..+
T Consensus       128 --------~~~~~~~~~~~~~~~~~~Sa~~~------------~~v~~l~~~l~~~i  164 (165)
T cd01868         128 --------TEEAKAFAEKNGLSFIETSALDG------------TNVEEAFKQLLTEI  164 (165)
T ss_pred             --------HHHHHHHHHHcCCEEEEEECCCC------------CCHHHHHHHHHHHh
Confidence                    11256777778899999999999            99999999998865

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

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.97  E-value=2.9e-29  Score=223.49  Aligned_cols=174  Identities=11%  Similarity=0.144  Sum_probs=139.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+|+|++|||||||+++|..+.|...+.+|.+..+. ..+..++..+.+.||||+|++.|..++..+++++|++|+||
T Consensus         2 ~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~-~~~~~~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illvf   80 (222)
T cd04173           2 CKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENYT-ASFEIDKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICF   80 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccceE-EEEEECCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEEE
Confidence            79999999999999999999999999889999987663 45556777899999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHH-HHHHHhhhcCCC-eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALK-HWVPSIDLQKFE-ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~-~~~~~i~~~~~~-~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |++++++|+.+. .|...++..... |+||||||+||.....    ..+.+.                          ..
T Consensus        81 dis~~~Sf~~i~~~w~~~~~~~~~~~piiLVgnK~DL~~~~~----~~~~~~--------------------------~~  130 (222)
T cd04173          81 DISRPETLDSVLKKWQGETQEFCPNAKVVLVGCKLDMRTDLA----TLRELS--------------------------KQ  130 (222)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEECcccccchh----hhhhhh--------------------------hc
Confidence            999999999995 788777665443 9999999999965321    111110                          00


Q ss_pred             CCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchh-HHHHHHHHHHhcccCc
Q 040295          208 EPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQG-VERLYGALSAHMWPGM  266 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~-i~~l~~~L~~~~~~~~  266 (289)
                      .......+++..+++..++ .|+||||+++            .+ |.++|..++...+...
T Consensus       131 ~~~pIs~e~g~~~ak~~~~~~y~E~SAk~~------------~~~V~~~F~~~~~~~~~~~  179 (222)
T cd04173         131 RLIPVTHEQGTVLAKQVGAVSYVECSSRSS------------ERSVRDVFHVATVASLGRG  179 (222)
T ss_pred             cCCccCHHHHHHHHHHcCCCEEEEcCCCcC------------CcCHHHHHHHHHHHHHhcc
Confidence            0001122348999999996 8999999998            85 9999999998776644

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

>cd04126 Rab20 Rab20 subfamily

Probab=99.97  E-value=6.1e-30  Score=227.55  Aligned_cols=182  Identities=17%  Similarity=0.248  Sum_probs=135.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+|+|.+|||||||+++|+.++|.. +.+|.+..+....+    ..+.+.||||+|++.|..+...++++++++|+||
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~~~----~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~   75 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQW----GPYNISIWDTAGREQFHGLGSMYCRGAAAVILTY   75 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCC-CCCccceEEEEEEe----eEEEEEEEeCCCcccchhhHHHHhccCCEEEEEE
Confidence            589999999999999999999999864 56777766544332    3567999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |+++++||+.+..|+..+.....  .|+||||||+|+........+.   -        +        .   .. ....+
T Consensus        76 Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~---~--------~--------~---~~-~~~~~  132 (220)
T cd04126          76 DVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQE---K--------D--------A---GD-RVSPE  132 (220)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccccccccccc---c--------c--------c---cc-ccccc
Confidence            99999999999988877765432  3899999999996421000000   0        0        0   00 00000


Q ss_pred             CCcHHHHHHHHHHHHHcC--------------CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcccccC
Q 040295          208 EPSWEIRRSCLEWCTEHR--------------IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSG  271 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~--------------~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~~  271 (289)
                      .......+++..|+++.+              ++|+||||++|            .||+++|..+++.+++-+..+..
T Consensus       133 ~~r~v~~~e~~~~a~~~~~~~~~~~~~~~~~~~~~~E~SA~tg------------~~V~elf~~i~~~~~~~~~~~~~  198 (220)
T cd04126         133 DQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCFETSAKTG------------YNVDELFEYLFNLVLPLILAQRA  198 (220)
T ss_pred             ccccCCHHHHHHHHHHhCccccccccccccccceEEEeeCCCC------------CCHHHHHHHHHHHHHHHHHhhhh
Confidence            011122334888998876              68999999999            99999999999988765544443

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

>cd04125 RabA_like RabA-like subfamily

Probab=99.97  E-value=4.2e-29  Score=215.10  Aligned_cols=164  Identities=20%  Similarity=0.329  Sum_probs=139.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+|+|++|||||||+++|.++.|...+.+|.+.++....+..++..+.+.+|||+|++.|..++..+++++|++|+||
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~   80 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVY   80 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEE
Confidence            58999999999999999999999998778888887776555665666788999999999999988999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |++++++|+.+..|+..+.....  .|+++||||+|+.....        +                          +. 
T Consensus        81 d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~~--------v--------------------------~~-  125 (188)
T cd04125          81 DVTDQESFENLKFWINEINRYARENVIKVIVANKSDLVNNKV--------V--------------------------DS-  125 (188)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCccccc--------C--------------------------CH-
Confidence            99999999999999999877543  48999999999964221        1                          11 


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcc
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMV  267 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~  267 (289)
                             ..+..++...+++|+++||+++            .|++++|.+|++.+..+.+
T Consensus       126 -------~~~~~~~~~~~~~~~evSa~~~------------~~i~~~f~~l~~~~~~~~~  166 (188)
T cd04125         126 -------NIAKSFCDSLNIPFFETSAKQS------------INVEEAFILLVKLIIKRLE  166 (188)
T ss_pred             -------HHHHHHHHHcCCeEEEEeCCCC------------CCHHHHHHHHHHHHHHHhh
Confidence                   1156778888999999999999            9999999999999876543

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.

>cd01866 Rab2 Rab2 subfamily

Probab=99.97  E-value=4.1e-29  Score=211.26  Aligned_cols=164  Identities=18%  Similarity=0.297  Sum_probs=140.5

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      +..+||+|+|++|||||||++++.+..+...+.++.+.++....+..++....+.+|||+|+++|..+...+++.+|++|
T Consensus         2 ~~~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il   81 (168)
T cd01866           2 AYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGAL   81 (168)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEE
Confidence            45689999999999999999999999988888888888877777777777789999999999999998888999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      +|||++++.+|+.+..|+..++...  ..|+++||||+|+.....        +                          
T Consensus        82 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~~--------~--------------------------  127 (168)
T cd01866          82 LVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRRE--------V--------------------------  127 (168)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccC--------C--------------------------
Confidence            9999999999999999999997764  348999999999964211        1                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                      +.        ..+..++..++++|+|+||+++            .|++++|..+++++++
T Consensus       128 ~~--------~~~~~~~~~~~~~~~e~Sa~~~------------~~i~~~~~~~~~~~~~  167 (168)
T cd01866         128 SY--------EEGEAFAKEHGLIFMETSAKTA------------SNVEEAFINTAKEIYE  167 (168)
T ss_pred             CH--------HHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHHHh
Confidence            11        1256777788999999999999            9999999999987754

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

>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]

Probab=99.97  E-value=8.8e-31  Score=218.00  Aligned_cols=168  Identities=20%  Similarity=0.391  Sum_probs=148.4

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEee-cCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTIN-TKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~-~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      .+.++++++|++-||||||++.|..++|.+-..||.|+++....+. ..++.+++++|||+|||+|+++.++|+++.-++
T Consensus         6 ~yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvgv   85 (213)
T KOG0091|consen    6 HYQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVGV   85 (213)
T ss_pred             EEEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccce
Confidence            3458999999999999999999999999999999999998766543 467889999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcCC-C---eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQKF-E---ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~~-~---~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      ++|||+++++||+.+.+|+.+....-. |   .+++||+|+||.        ..|++                       
T Consensus        86 llvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~--------SqRqV-----------------------  134 (213)
T KOG0091|consen   86 LLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQ--------SQRQV-----------------------  134 (213)
T ss_pred             EEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchh--------hhccc-----------------------
Confidence            999999999999999999988765532 3   677899999994        46767                       


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCccc
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVL  268 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~  268 (289)
                         +.+|        ++.++..+|+.|+|+||++|            .||++.|+-|.+.+...+..
T Consensus       135 ---t~EE--------aEklAa~hgM~FVETSak~g------------~NVeEAF~mlaqeIf~~i~q  178 (213)
T KOG0091|consen  135 ---TAEE--------AEKLAASHGMAFVETSAKNG------------CNVEEAFDMLAQEIFQAIQQ  178 (213)
T ss_pred             ---cHHH--------HHHHHHhcCceEEEecccCC------------CcHHHHHHHHHHHHHHHHhc
Confidence               4444        99999999999999999999            99999999999888766654

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.97  E-value=5e-29  Score=207.91  Aligned_cols=158  Identities=16%  Similarity=0.275  Sum_probs=134.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecC--cceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTK--YYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~--~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +||+++|++|||||||+++|.++.+...+.+|.+.++....+...  +..+++++|||||++.|..++..++++++++++
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~   80 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACIL   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEE
Confidence            589999999999999999999999988888898888755544444  667899999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      |||++++++|+.+..|+..+..... .|+++||||+|+....        .+                          +.
T Consensus        81 v~d~~~~~s~~~l~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~--------~v--------------------------~~  126 (162)
T cd04106          81 VFSTTDRESFEAIESWKEKVEAECGDIPMVLVQTKIDLLDQA--------VI--------------------------TN  126 (162)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhccccc--------CC--------------------------CH
Confidence            9999999999999999998876433 3899999999996421        11                          11


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                              .++..++...+++|+++||+++            .|++++|++|...
T Consensus       127 --------~~~~~~~~~~~~~~~~~Sa~~~------------~~v~~l~~~l~~~  161 (162)
T cd04106         127 --------EEAEALAKRLQLPLFRTSVKDD------------FNVTELFEYLAEK  161 (162)
T ss_pred             --------HHHHHHHHHcCCeEEEEECCCC------------CCHHHHHHHHHHh
Confidence                    1267888889999999999999            9999999999764

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

>cd01864 Rab19 Rab19 subfamily

Probab=99.97  E-value=7.3e-29  Score=208.50  Aligned_cols=160  Identities=19%  Similarity=0.317  Sum_probs=136.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +.+||+|+|++|||||||++++..+.+...+.++.+.++....+..++..+.+.+|||||++.|..+...+++.+|++++
T Consensus         2 ~~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~ll   81 (165)
T cd01864           2 FLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGAII   81 (165)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEE
Confidence            45899999999999999999999999888888888877766666667777889999999999999988899999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      |||++++.+|+.+..|+..+.....  .|+++||||+|+.....        +                          .
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~--------~--------------------------~  127 (165)
T cd01864          82 AYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQRE--------V--------------------------L  127 (165)
T ss_pred             EEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccc--------c--------------------------C
Confidence            9999999999999999999976543  38999999999954211        1                          1


Q ss_pred             CCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          206 DEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                              ...+..+++.+++ .++|+||++|            .|++++|..+++.
T Consensus       128 --------~~~~~~~~~~~~~~~~~e~Sa~~~------------~~v~~~~~~l~~~  164 (165)
T cd01864         128 --------FEEACTLAEKNGMLAVLETSAKES------------QNVEEAFLLMATE  164 (165)
T ss_pred             --------HHHHHHHHHHcCCcEEEEEECCCC------------CCHHHHHHHHHHh
Confidence                    1126788888886 6999999999            9999999999875

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.

>cd04109 Rab28 Rab28 subfamily

Probab=99.97  E-value=5.2e-29  Score=219.84  Aligned_cols=162  Identities=15%  Similarity=0.217  Sum_probs=138.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecC-cceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTK-YYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~-~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      +||+|+|++|||||||+++|.++.|...+.+|.+.+++...+... +..+.+.||||+|++.|..+...+++++|++|+|
T Consensus         1 ~Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV   80 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLV   80 (215)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEE
Confidence            589999999999999999999999988899999988766655543 3568999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcC-----CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQK-----FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~-----~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      ||++++++|+.+..|+..+....     .+|+++||||+|+...        +.+                         
T Consensus        81 ~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~--------~~v-------------------------  127 (215)
T cd04109          81 YDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHN--------RTV-------------------------  127 (215)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccc--------ccc-------------------------
Confidence            99999999999999999987653     2379999999999532        111                         


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                       +        ...+..++..++++++++||++|            .||+++|++|++.+...
T Consensus       128 -~--------~~~~~~~~~~~~~~~~~iSAktg------------~gv~~lf~~l~~~l~~~  168 (215)
T cd04109         128 -K--------DDKHARFAQANGMESCLVSAKTG------------DRVNLLFQQLAAELLGV  168 (215)
T ss_pred             -C--------HHHHHHHHHHcCCEEEEEECCCC------------CCHHHHHHHHHHHHHhc
Confidence             1        11267888889999999999999            99999999999987643

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

>cd04124 RabL2 RabL2 subfamily

Probab=99.97  E-value=8.2e-29  Score=208.24  Aligned_cols=159  Identities=19%  Similarity=0.277  Sum_probs=136.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||+++|..+.|.+.+.++.+..++...+..++..+.+.+|||+|++.|..++..+++.+|++|+||
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVF   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEE
Confidence            58999999999999999999999998877777777766666666677889999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEE  208 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  208 (289)
                      |++++.+|+.+..|+..++.... .|+++||||+|+.+.      . .                                
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~p~ivv~nK~Dl~~~------~-~--------------------------------  121 (161)
T cd04124          81 DVTRKITYKNLSKWYEELREYRPEIPCIVVANKIDLDPS------V-T--------------------------------  121 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCcEEEEEECccCchh------H-H--------------------------------
Confidence            99999999999999999976533 499999999998421      0 0                                


Q ss_pred             CcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          209 PSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       209 ~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                            ..+..++..++++++++||++|            .|++++|+.+++.++.+
T Consensus       122 ------~~~~~~~~~~~~~~~~~Sa~~~------------~gv~~l~~~l~~~~~~~  160 (161)
T cd04124         122 ------QKKFNFAEKHNLPLYYVSAADG------------TNVVKLFQDAIKLAVSY  160 (161)
T ss_pred             ------HHHHHHHHHcCCeEEEEeCCCC------------CCHHHHHHHHHHHHHhc
Confidence                  1145667777899999999999            99999999999877654

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

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.97  E-value=4.4e-29  Score=214.15  Aligned_cols=169  Identities=15%  Similarity=0.231  Sum_probs=137.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+|+|++|||||||+++|.++.+...+.+|.+..+.......++..+.+.+|||+|++.|..++..+++++|++|+||
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v~   80 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYVTNIQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLICY   80 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeEEEEEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEEE
Confidence            58999999999999999999999998888888877764433222366789999999999999998888999999999999


Q ss_pred             eCCCHhhHHHHH-HHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALK-HWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~-~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |+++++||+.+. .|+..+..... .|+|+||||+|+.+...    ..+.+                             
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----~~~~v-----------------------------  127 (187)
T cd04132          81 AVDNPTSLDNVEDKWFPEVNHFCPGTPIMLVGLKTDLRKDKN----LDRKV-----------------------------  127 (187)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhhhCcc----ccCCc-----------------------------
Confidence            999999999996 59888765443 39999999999954210    00111                             


Q ss_pred             CCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCccc
Q 040295          208 EPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVL  268 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~  268 (289)
                           ....+.+++..+++ +|++|||++|            .||.++|..|++.++..+..
T Consensus       128 -----~~~~~~~~~~~~~~~~~~e~Sa~~~------------~~v~~~f~~l~~~~~~~~~~  172 (187)
T cd04132         128 -----TPAQAESVAKKQGAFAYLECSAKTM------------ENVEEVFDTAIEEALKKEGK  172 (187)
T ss_pred             -----CHHHHHHHHHHcCCcEEEEccCCCC------------CCHHHHHHHHHHHHHhhhhh
Confidence                 12237889999998 8999999999            99999999999988776543

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.

>PLN03110 Rab GTPase; Provisional

Probab=99.97  E-value=7.8e-29  Score=219.25  Aligned_cols=167  Identities=19%  Similarity=0.310  Sum_probs=143.7

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      .+.+.+||+|+|++|||||||+++|.+..+...+.+|.+.++....+..++..+.+.||||+|+++|..++..+++.+++
T Consensus         8 ~~~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~   87 (216)
T PLN03110          8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (216)
T ss_pred             ccCceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhCCCCE
Confidence            35567999999999999999999999999887888999988877777777778899999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      +|+|||++++.+|+.+..|+..+....  ..|+++||||+|+...        +.+                        
T Consensus        88 ~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~--------~~~------------------------  135 (216)
T PLN03110         88 ALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHL--------RSV------------------------  135 (216)
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcccc--------cCC------------------------
Confidence            999999999999999999999987764  3499999999999532        111                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                        ..        +.+..++..++++|+++||+++            .|++++|+.|+..+...
T Consensus       136 --~~--------~~~~~l~~~~~~~~~e~SA~~g------------~~v~~lf~~l~~~i~~~  176 (216)
T PLN03110        136 --AE--------EDGQALAEKEGLSFLETSALEA------------TNVEKAFQTILLEIYHI  176 (216)
T ss_pred             --CH--------HHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHHHHH
Confidence              11        1266777888999999999999            99999999999888653

>cd04111 Rab39 Rab39 subfamily

Probab=99.97  E-value=4.3e-29  Score=220.24  Aligned_cols=165  Identities=18%  Similarity=0.353  Sum_probs=140.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeec-CcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINT-KYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~-~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      .+||+|+|++|||||||+++|+++.+...+.+|.+.++....+.. .+..+.+++|||+|++.|..+...+++++|++|+
T Consensus         2 ~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iil   81 (211)
T cd04111           2 QFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVLL   81 (211)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEEE
Confidence            489999999999999999999999998888889888877666654 4667899999999999999998899999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |||+++++||+.+..|+..+....   ..|++|||||+|+....        .+                          
T Consensus        82 v~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~--------~v--------------------------  127 (211)
T cd04111          82 VFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQR--------QV--------------------------  127 (211)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEcccccccc--------cc--------------------------
Confidence            999999999999999999986542   34789999999995421        11                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMV  267 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~  267 (289)
                      ..        ..+..+++.++++|+|+||++|            .|++++|+.|++.+...+.
T Consensus       128 ~~--------~~~~~~~~~~~~~~~e~Sak~g------------~~v~e~f~~l~~~~~~~~~  170 (211)
T cd04111         128 TR--------EEAEKLAKDLGMKYIETSARTG------------DNVEEAFELLTQEIYERIK  170 (211)
T ss_pred             CH--------HHHHHHHHHhCCEEEEEeCCCC------------CCHHHHHHHHHHHHHHHhh
Confidence            11        1267888888999999999999            9999999999998876653

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.

>cd04113 Rab4 Rab4 subfamily

Probab=99.97  E-value=7.4e-29  Score=207.16  Aligned_cols=159  Identities=18%  Similarity=0.314  Sum_probs=137.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+|+|++|||||||+++|.++++...+.++.+.++....+..++..+.+.+||++|++.|...+..+++.+|++|+||
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~   80 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEE
Confidence            58999999999999999999999998888888888877776766777789999999999999998889999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |++++++|+.+..|+..++....  .|+++||||+|+....        .+                          +. 
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~--------~~--------------------------~~-  125 (161)
T cd04113          81 DITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLADQR--------EV--------------------------TF-  125 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcchhc--------cC--------------------------CH-
Confidence            99999999999999998876543  3999999999995321        11                          11 


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                             ..+..++..++++|+++||+++            .|+.++|+++++.+
T Consensus       126 -------~~~~~~~~~~~~~~~~~Sa~~~------------~~i~~~~~~~~~~~  161 (161)
T cd04113         126 -------LEASRFAQENGLLFLETSALTG------------ENVEEAFLKCARSI  161 (161)
T ss_pred             -------HHHHHHHHHcCCEEEEEECCCC------------CCHHHHHHHHHHhC
Confidence                   1267788888999999999999            99999999998753

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

>cd04144 Ras2 Ras2 subfamily

Probab=99.97  E-value=3.5e-29  Score=216.46  Aligned_cols=163  Identities=18%  Similarity=0.214  Sum_probs=135.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEe
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFN  130 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~D  130 (289)
                      ||+|+|++|||||||+++|..+.|...+.+|.+..+.. .+..++..+.+++|||+|+++|..++..+++.+|++|+|||
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~~~-~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   79 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYRK-QVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYS   79 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhEEE-EEEECCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEE
Confidence            69999999999999999999999988888888765532 33445667889999999999999999999999999999999


Q ss_pred             CCCHhhHHHHHHHHHHhhhcC-----CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          131 LNDLSTLDALKHWVPSIDLQK-----FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       131 v~~~~S~~~l~~~~~~i~~~~-----~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      ++++.||+.+..|+..+....     ..|+|+||||+|+...        +.+                          +
T Consensus        80 ~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~--------~~v--------------------------~  125 (190)
T cd04144          80 ITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYE--------REV--------------------------S  125 (190)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhcccc--------Ccc--------------------------C
Confidence            999999999999998886542     2389999999999532        111                          1


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCccc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVL  268 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~  268 (289)
                      .        ..+.+++..++++|+++||++|            .|++++|.+|++.+..++..
T Consensus       126 ~--------~~~~~~~~~~~~~~~e~SAk~~------------~~v~~l~~~l~~~l~~~~~~  168 (190)
T cd04144         126 T--------EEGAALARRLGCEFIEASAKTN------------VNVERAFYTLVRALRQQRQG  168 (190)
T ss_pred             H--------HHHHHHHHHhCCEEEEecCCCC------------CCHHHHHHHHHHHHHHhhcc
Confidence            1        1256788888999999999999            99999999999988766543

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.

>cd04134 Rho3 Rho3 subfamily

Probab=99.97  E-value=6.2e-29  Score=214.93  Aligned_cols=172  Identities=16%  Similarity=0.201  Sum_probs=135.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEe
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFN  130 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~D  130 (289)
                      ||+|+|++|||||||+++|..+.|...+.+|.+..+.. .+..++..+.+.||||+|++.|..++..++++++++|+|||
T Consensus         2 kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~-~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~d   80 (189)
T cd04134           2 KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYVH-DIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFS   80 (189)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeeeEE-EEEECCEEEEEEEEECCCChhccccccccccCCCEEEEEEE
Confidence            89999999999999999999999988888888776642 34445667899999999999999999999999999999999


Q ss_pred             CCCHhhHHHHH-HHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCC
Q 040295          131 LNDLSTLDALK-HWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEE  208 (289)
Q Consensus       131 v~~~~S~~~l~-~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  208 (289)
                      ++++++|+.+. .|+..+..... .|+++||||+|+......    ...+                          ....
T Consensus        81 v~~~~sf~~~~~~~~~~i~~~~~~~piilvgNK~Dl~~~~~~----~~~~--------------------------~~~~  130 (189)
T cd04134          81 VDSPDSLENVESKWLGEIREHCPGVKLVLVALKCDLREARNE----RDDL--------------------------QRYG  130 (189)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccChhh----HHHH--------------------------hhcc
Confidence            99999999997 69998876543 399999999999643110    0000                          0000


Q ss_pred             CcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          209 PSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       209 ~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                      ........+..++...+ ++|+||||++|            .||+++|.+|++.++..
T Consensus       131 ~~~v~~~~~~~~~~~~~~~~~~e~SAk~~------------~~v~e~f~~l~~~~~~~  176 (189)
T cd04134         131 KHTISYEEGLAVAKRINALRYLECSAKLN------------RGVNEAFTEAARVALNV  176 (189)
T ss_pred             CCCCCHHHHHHHHHHcCCCEEEEccCCcC------------CCHHHHHHHHHHHHhcc
Confidence            00011233678888877 68999999999            99999999999888643

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.

>PTZ00369 Ras-like protein; Provisional

Probab=99.97  E-value=4.1e-29  Score=215.90  Aligned_cols=165  Identities=16%  Similarity=0.199  Sum_probs=138.0

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||+|+|++|||||||+++|..+.|...+.+|.+..+. ..+..++..+.+.+|||+|++.|..++..+++.++++|
T Consensus         3 ~~~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~ii   81 (189)
T PTZ00369          3 STEYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSYR-KQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFL   81 (189)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEEE-EEEEECCEEEEEEEEeCCCCccchhhHHHHhhcCCEEE
Confidence            34589999999999999999999999998888888876663 34445566788999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      +|||++++++|+.+..|+..+....   ..|+++||||+|+....        .+                         
T Consensus        82 lv~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~--------~i-------------------------  128 (189)
T PTZ00369         82 CVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSER--------QV-------------------------  128 (189)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccc--------cc-------------------------
Confidence            9999999999999999999886542   33899999999985321        11                         


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                       ..        ..+..++..++++|++|||++|            .||+++|.+|++++....
T Consensus       129 -~~--------~~~~~~~~~~~~~~~e~Sak~~------------~gi~~~~~~l~~~l~~~~  170 (189)
T PTZ00369        129 -ST--------GEGQELAKSFGIPFLETSAKQR------------VNVDEAFYELVREIRKYL  170 (189)
T ss_pred             -CH--------HHHHHHHHHhCCEEEEeeCCCC------------CCHHHHHHHHHHHHHHHh
Confidence             11        1256778888899999999999            999999999999886553

>cd04175 Rap1 Rap1 subgroup

Probab=99.96  E-value=5e-29  Score=209.04  Aligned_cols=158  Identities=17%  Similarity=0.215  Sum_probs=132.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||++++..+.+...+.+|.+..+. ..+...+..+.+.+|||+|++.|..++..+++++|++|+||
T Consensus         2 ~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (164)
T cd04175           2 YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVY   80 (164)
T ss_pred             cEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheEE-EEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEEE
Confidence            79999999999999999999999888778888876553 34455566788999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      |++++.+|+.+..|+..+....   ..|+++||||+|+.....        +                          ..
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~--------~--------------------------~~  126 (164)
T cd04175          81 SITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERV--------V--------------------------GK  126 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccE--------E--------------------------cH
Confidence            9999999999999999886542   349999999999953211        1                          11


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                              ..+..+++..+++|++|||+++            .|++++|.+|++.+
T Consensus       127 --------~~~~~~~~~~~~~~~~~Sa~~~------------~~v~~~~~~l~~~l  162 (164)
T cd04175         127 --------EQGQNLARQWGCAFLETSAKAK------------INVNEIFYDLVRQI  162 (164)
T ss_pred             --------HHHHHHHHHhCCEEEEeeCCCC------------CCHHHHHHHHHHHh
Confidence                    1156788888899999999999            99999999998754

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

>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.96  E-value=1.2e-29  Score=207.02  Aligned_cols=183  Identities=22%  Similarity=0.317  Sum_probs=162.3

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      .....+|.+|+|+-|||||+|+++|...+|......|++++|....|...+..++++||||+|||+|+.+.++|++++.+
T Consensus         7 nysyifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwdtagqerfravtrsyyrgaag   86 (215)
T KOG0097|consen    7 NYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAG   86 (215)
T ss_pred             chhheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhccccc
Confidence            34567999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcCCC--eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~--~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      .++|||++.+.++..+..|+...+...+|  .+++||||.||        +..|.+                        
T Consensus        87 almvyditrrstynhlsswl~dar~ltnpnt~i~lignkadl--------e~qrdv------------------------  134 (215)
T KOG0097|consen   87 ALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADL--------ESQRDV------------------------  134 (215)
T ss_pred             eeEEEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhh--------hhcccC------------------------
Confidence            99999999999999999999999888665  78889999999        455656                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCccccc-------CCCCC
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKS-------GDKIT  275 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~-------~~~~~  275 (289)
                        ++++        +.+|+.++|.-++|+|||+|            .+|++.|-+..+.++.+.+-..       ..-+.
T Consensus       135 --~yee--------ak~faeengl~fle~saktg------------~nvedafle~akkiyqniqdgsldlnaaesgvq~  192 (215)
T KOG0097|consen  135 --TYEE--------AKEFAEENGLMFLEASAKTG------------QNVEDAFLETAKKIYQNIQDGSLDLNAAESGVQH  192 (215)
T ss_pred             --cHHH--------HHHHHhhcCeEEEEeccccc------------CcHHHHHHHHHHHHHHhhhcCcccccchhccCcC
Confidence              5555        99999999999999999999            9999999999888887765443       34455


Q ss_pred             CCCCCc
Q 040295          276 EPSLPV  281 (289)
Q Consensus       276 ~~~~~~  281 (289)
                      +|+.|.
T Consensus       193 k~~~p~  198 (215)
T KOG0097|consen  193 KPSQPS  198 (215)
T ss_pred             CCCCCC
Confidence            566665

>cd04176 Rap2 Rap2 subgroup

Probab=99.96  E-value=8.4e-29  Score=207.24  Aligned_cols=158  Identities=18%  Similarity=0.228  Sum_probs=131.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||++++..+.+...+.+|.+. ++...+..++..+.+++|||+|+++|..++..+++++|++|+||
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~   80 (163)
T cd04176           2 YKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIED-FYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVVY   80 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchhh-eEEEEEEECCEEEEEEEEECCCcccccchHHHHHhhCCEEEEEE
Confidence            79999999999999999999999998887777763 33345555666788999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      |++++++|+.+..|+..+...   ...|+++||||+|+.....        +                          ..
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~--------~--------------------------~~  126 (163)
T cd04176          81 SLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESERE--------V--------------------------SS  126 (163)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCc--------c--------------------------CH
Confidence            999999999999999888665   2349999999999953211        1                          00


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                              ..+..++...++++++|||+++            .|+.++|.+|++.+
T Consensus       127 --------~~~~~~~~~~~~~~~~~Sa~~~------------~~v~~l~~~l~~~l  162 (163)
T cd04176         127 --------AEGRALAEEWGCPFMETSAKSK------------TMVNELFAEIVRQM  162 (163)
T ss_pred             --------HHHHHHHHHhCCEEEEecCCCC------------CCHHHHHHHHHHhc
Confidence                    1156777777899999999999            99999999998754

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.96  E-value=7.9e-29  Score=209.89  Aligned_cols=160  Identities=20%  Similarity=0.347  Sum_probs=136.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhh-ccccccccCccEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFS-IRSLPISDQLTALVM  127 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~-~~~~~~~~~ad~vIl  127 (289)
                      .+||+++|++|||||||+++|+.+.+...+.++.+.++....+...+..+.+.+|||+|+++|+ .++..+++++|++|+
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~   81 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVF   81 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEE
Confidence            4799999999999999999999999888888888888877777777778899999999999987 467788999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |||++++++|+.+..|+..+....   ..|+++||||+|+...        +++                          
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~--------~~~--------------------------  127 (170)
T cd04115          82 VYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQ--------IQV--------------------------  127 (170)
T ss_pred             EEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhh--------cCC--------------------------
Confidence            999999999999999999887653   2499999999999532        222                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCC---CcccccccCCCCchhHHHHHHHHHHhc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASN---VDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~---~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                      +.+        .+..++..++++|+||||++   +            .++.++|..|++++
T Consensus       128 ~~~--------~~~~~~~~~~~~~~e~Sa~~~~~~------------~~i~~~f~~l~~~~  168 (170)
T cd04115         128 PTD--------LAQRFADAHSMPLFETSAKDPSEN------------DHVEAIFMTLAHKL  168 (170)
T ss_pred             CHH--------HHHHHHHHcCCcEEEEeccCCcCC------------CCHHHHHHHHHHHh
Confidence            111        26778888889999999999   7            99999999998765

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

>PLN03108 Rab family protein; Provisional

Probab=99.96  E-value=2e-28  Score=215.65  Aligned_cols=167  Identities=20%  Similarity=0.329  Sum_probs=143.0

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ....+||+|+|++|||||||+++|....|...+.+|.+.++....+..++..+.+.+|||+|++.|..++..+++.+|++
T Consensus         3 ~~~~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~   82 (210)
T PLN03108          3 YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGA   82 (210)
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEE
Confidence            34568999999999999999999999999888888998888766666677778899999999999998888999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      |+|||++++.+|+.+..|+..+....  ..|+++|+||+|+...        +.+                         
T Consensus        83 vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~~--------~~~-------------------------  129 (210)
T PLN03108         83 LLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHR--------RAV-------------------------  129 (210)
T ss_pred             EEEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccc--------cCC-------------------------
Confidence            99999999999999999998886553  3489999999999532        111                         


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                       +.        ..+.++++.++++|+++||+++            .||+++|.++++.++.+.
T Consensus       130 -~~--------~~~~~~~~~~~~~~~e~Sa~~~------------~~v~e~f~~l~~~~~~~~  171 (210)
T PLN03108        130 -ST--------EEGEQFAKEHGLIFMEASAKTA------------QNVEEAFIKTAAKIYKKI  171 (210)
T ss_pred             -CH--------HHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHHHHHh
Confidence             11        1267888889999999999999            999999999999987654

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

Probab=99.96  E-value=1.1e-28  Score=208.61  Aligned_cols=170  Identities=14%  Similarity=0.246  Sum_probs=135.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEeC
Q 040295           52 ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNL  131 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv  131 (289)
                      |+|+|++|||||||+++|.++.|...+.++....+. ..+..++..+.+.+|||+|++.|..++..+++++|++|+|||+
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~   79 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYVPTVFENYS-ADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSV   79 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCCCcEEeeee-EEEEECCEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEEC
Confidence            689999999999999999999998877777765553 3445566778999999999999999998999999999999999


Q ss_pred             CCHhhHHHHH-HHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCC
Q 040295          132 NDLSTLDALK-HWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEP  209 (289)
Q Consensus       132 ~~~~S~~~l~-~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  209 (289)
                      ++++||+.+. .|+..+..... .|+++||||+|+......    ...+                          .....
T Consensus        80 ~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~----~~~~--------------------------~~~~~  129 (174)
T smart00174       80 DSPASFENVKEKWYPEVKHFCPNTPIILVGTKLDLREDKST----LREL--------------------------SKQKQ  129 (174)
T ss_pred             CCHHHHHHHHHHHHHHHHhhCCCCCEEEEecChhhhhChhh----hhhh--------------------------hcccC
Confidence            9999999996 69999876543 499999999999642110    0111                          00000


Q ss_pred             cHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          210 SWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       210 ~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                      .....+.+.++++.+++ +|+||||+++            .||+++|+.|++.++.
T Consensus       130 ~~v~~~~~~~~~~~~~~~~~~e~Sa~~~------------~~v~~lf~~l~~~~~~  173 (174)
T smart00174      130 EPVTYEQGEALAKRIGAVKYLECSALTQ------------EGVREVFEEAIRAALN  173 (174)
T ss_pred             CCccHHHHHHHHHHcCCcEEEEecCCCC------------CCHHHHHHHHHHHhcC
Confidence            11123447899999997 8999999999            9999999999987754

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.96  E-value=2.5e-28  Score=203.47  Aligned_cols=161  Identities=21%  Similarity=0.377  Sum_probs=138.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||+++|.+..+...+.++.+.++....+...+..+.+.+||++|++.|......+++.+|++|+||
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~   80 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVY   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEE
Confidence            58999999999999999999999988778888888877777777777788999999999999988889999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |++++.+|+.+..|+..+....  ..|+++|+||+|+.+...        +                          .  
T Consensus        81 d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~~--------~--------------------------~--  124 (164)
T smart00175       81 DITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLEDQRQ--------V--------------------------S--  124 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcccccC--------C--------------------------C--
Confidence            9999999999999999987664  349999999999854211        1                          0  


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                            .+.+..++..++++|+|+||+++            .|++++|.+|++.+.+
T Consensus       125 ------~~~~~~~~~~~~~~~~e~Sa~~~------------~~i~~l~~~i~~~~~~  163 (164)
T smart00175      125 ------REEAEAFAEEHGLPFFETSAKTN------------TNVEEAFEELAREILK  163 (164)
T ss_pred             ------HHHHHHHHHHcCCeEEEEeCCCC------------CCHHHHHHHHHHHHhh
Confidence                  11266788888999999999999            9999999999987653

Rab GTPases are implicated in vesicle trafficking.

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.96  E-value=1e-28  Score=216.62  Aligned_cols=157  Identities=17%  Similarity=0.230  Sum_probs=136.3

Q ss_pred             EcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCH
Q 040295           55 IGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDL  134 (289)
Q Consensus        55 lG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~  134 (289)
                      +|++|||||||+++|+.+.|...+.+|++.++....+..++..+.+.||||+|+++|..++..|+++++++|+|||++++
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~   80 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTAR   80 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCCh
Confidence            69999999999999999999888899999888777777777789999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHH
Q 040295          135 STLDALKHWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEI  213 (289)
Q Consensus       135 ~S~~~l~~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  213 (289)
                      .||+.+..|+..+..... .|++|||||+|+..         +.+                          ..       
T Consensus        81 ~S~~~i~~w~~~i~~~~~~~piilvgNK~Dl~~---------~~v--------------------------~~-------  118 (200)
T smart00176       81 VTYKNVPNWHRDLVRVCENIPIVLCGNKVDVKD---------RKV--------------------------KA-------  118 (200)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCEEEEEECccccc---------ccC--------------------------CH-------
Confidence            999999999999977543 39999999999942         111                          00       


Q ss_pred             HHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcc
Q 040295          214 RRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMV  267 (289)
Q Consensus       214 ~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~  267 (289)
                        +...++...++.|+||||++|            .||.++|.+|++.+.....
T Consensus       119 --~~~~~~~~~~~~~~e~SAk~~------------~~v~~~F~~l~~~i~~~~~  158 (200)
T smart00176      119 --KSITFHRKKNLQYYDISAKSN------------YNFEKPFLWLARKLIGDPN  158 (200)
T ss_pred             --HHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHHHhccc
Confidence              123677888999999999999            9999999999998876544

Ran is involved in the active transport of proteins through nuclear pores.

>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.96  E-value=5.6e-31  Score=218.33  Aligned_cols=168  Identities=17%  Similarity=0.271  Sum_probs=145.4

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeec---------CcceEEEEEEEcCCchhhhccc
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINT---------KYYTADVSLWMAHLHEEFSIRS  115 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~---------~~~~~~l~I~Dt~G~e~~~~~~  115 (289)
                      ++.+.||++.+|++|||||||+.++..+.|..+..+|.+++|....+..         .+..+.+++|||+|||+|+++.
T Consensus         5 dydylikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRSLT   84 (219)
T KOG0081|consen    5 DYDYLIKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRSLT   84 (219)
T ss_pred             cHHHHHHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHHHH
Confidence            4566789999999999999999999999999999999999987665432         3456889999999999999999


Q ss_pred             cccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccC
Q 040295          116 LPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQ  192 (289)
Q Consensus       116 ~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~  192 (289)
                      ..+++.|-+++++||+++.+||-++.+|+..++.+   ..|.|+++|||+||        +..|.+              
T Consensus        85 TAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL--------~~~R~V--------------  142 (219)
T KOG0081|consen   85 TAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADL--------EDQRVV--------------  142 (219)
T ss_pred             HHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccch--------hhhhhh--------------
Confidence            99999999999999999999999999999999776   34578889999999        456666              


Q ss_pred             CCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          193 SGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                                  +.+        ++.++|.++|+||||+||-+|            .||++..+.|...++..+
T Consensus       143 ------------s~~--------qa~~La~kyglPYfETSA~tg------------~Nv~kave~LldlvM~Ri  184 (219)
T KOG0081|consen  143 ------------SED--------QAAALADKYGLPYFETSACTG------------TNVEKAVELLLDLVMKRI  184 (219)
T ss_pred             ------------hHH--------HHHHHHHHhCCCeeeeccccC------------cCHHHHHHHHHHHHHHHH
Confidence                        333        389999999999999999999            999988777776665444

>cd04116 Rab9 Rab9 subfamily

Probab=99.96  E-value=2.6e-28  Score=205.85  Aligned_cols=160  Identities=16%  Similarity=0.328  Sum_probs=136.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..+||+++|++|||||||+++|+++.+...+.++.+..+....+..++..+.+.||||+|+++|..++..+++.+|++|+
T Consensus         4 ~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i~   83 (170)
T cd04116           4 SLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCCLL   83 (170)
T ss_pred             eEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHHhcCCCEEEE
Confidence            45899999999999999999999999988888888887766666667778899999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcC------CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQK------FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~------~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      |||++++++|+.+..|+..+....      ..|+++||||+|+..         +.+                       
T Consensus        84 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~---------~~~-----------------------  131 (170)
T cd04116          84 TFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIPE---------RQV-----------------------  131 (170)
T ss_pred             EEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECccccc---------ccc-----------------------
Confidence            999999999999999998775432      238999999999952         111                       


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                         ..        +++.+++..+++ +|+++||+++            .|+.++|..+++.+
T Consensus       132 ---~~--------~~~~~~~~~~~~~~~~e~Sa~~~------------~~v~~~~~~~~~~~  170 (170)
T cd04116         132 ---ST--------EEAQAWCRENGDYPYFETSAKDA------------TNVAAAFEEAVRRV  170 (170)
T ss_pred             ---CH--------HHHHHHHHHCCCCeEEEEECCCC------------CCHHHHHHHHHhhC
Confidence               11        126788888885 7999999999            99999999998753

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

>cd04112 Rab26 Rab26 subfamily

Probab=99.96  E-value=2.5e-28  Score=211.36  Aligned_cols=163  Identities=17%  Similarity=0.298  Sum_probs=138.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFED-ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      +||+|+|++|||||||+++|..+++.. .+.+|.+..+....+..++..+.+.||||||+++|..+...+++.+|++|+|
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v   80 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLL   80 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEE
Confidence            589999999999999999999999864 5777888777665566667788999999999999998888899999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      ||++++++|+.+..|+..+.....  .|+++||||+|+...        +.+                          ..
T Consensus        81 ~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~--------~~~--------------------------~~  126 (191)
T cd04112          81 YDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMSGE--------RVV--------------------------KR  126 (191)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccchhc--------ccc--------------------------CH
Confidence            999999999999999999877643  499999999999531        111                          11


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                              ..+..++..++++|+|+||++|            .|++++|.+|++.+....
T Consensus       127 --------~~~~~l~~~~~~~~~e~Sa~~~------------~~v~~l~~~l~~~~~~~~  166 (191)
T cd04112         127 --------EDGERLAKEYGVPFMETSAKTG------------LNVELAFTAVAKELKHRK  166 (191)
T ss_pred             --------HHHHHHHHHcCCeEEEEeCCCC------------CCHHHHHHHHHHHHHHhc
Confidence                    1266778888999999999999            999999999999887664

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.

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

Probab=99.96  E-value=1.8e-28  Score=203.37  Aligned_cols=157  Identities=22%  Similarity=0.278  Sum_probs=131.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||+++|.+++|...+.+|.+..+. ..+..++..+.+.+|||+|++.|+.++..|++.++++++||
T Consensus         2 ~ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v~   80 (162)
T cd04138           2 YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVF   80 (162)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheEE-EEEEECCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEEEE
Confidence            69999999999999999999999988888888776543 33444555678999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      |++++.+|+.+..|+..+....   ..|+++||||+|+....         +                          . 
T Consensus        81 ~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~~~---------~--------------------------~-  124 (162)
T cd04138          81 AINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAART---------V--------------------------S-  124 (162)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccce---------e--------------------------c-
Confidence            9999999999999998886652   34899999999995310         1                          0 


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                             ...+..++...+++++++||++|            .|++++|++|++.+
T Consensus       125 -------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~  161 (162)
T cd04138         125 -------SRQGQDLAKSYGIPYIETSAKTR------------QGVEEAFYTLVREI  161 (162)
T ss_pred             -------HHHHHHHHHHhCCeEEEecCCCC------------CCHHHHHHHHHHHh
Confidence                   11256778888999999999999            99999999998753

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=99.96  E-value=2.1e-28  Score=204.73  Aligned_cols=159  Identities=18%  Similarity=0.224  Sum_probs=131.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+|+|++|||||||+++|.++.+...+.+|.+..+ ...+..++..+.+.+|||||+++|..++..+++.++++|+||
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIEDSY-RKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVY   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCcccCCchhhhE-EEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEE
Confidence            5899999999999999999999998877777776444 334445566788999999999999998889999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      |++++++|+.+..|...+....   ..|+++||||+|+.+...        +                          ..
T Consensus        80 d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~--------~--------------------------~~  125 (164)
T smart00173       80 SITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERV--------V--------------------------ST  125 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccce--------E--------------------------cH
Confidence            9999999999999988875542   348999999999964211        1                          00


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                              ..+..++..++++|++|||+++            .|++++|++|++.+.
T Consensus       126 --------~~~~~~~~~~~~~~~~~Sa~~~------------~~i~~l~~~l~~~~~  162 (164)
T smart00173      126 --------EEGKELARQWGCPFLETSAKER------------VNVDEAFYDLVREIR  162 (164)
T ss_pred             --------HHHHHHHHHcCCEEEEeecCCC------------CCHHHHHHHHHHHHh
Confidence                    1256778888899999999999            999999999998653

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

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

Probab=99.96  E-value=3.7e-28  Score=202.74  Aligned_cols=159  Identities=19%  Similarity=0.239  Sum_probs=131.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||++++++..+...+.++.+..+. .....++..+.+.+|||||++.|..++..+++.+|++++|
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   80 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYT-KQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLV   80 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccceEE-EEEEECCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEE
Confidence            479999999999999999999999887777777775543 2334456678899999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      ||++++.+|+.+..|+..+...   ...|+++|+||+|+.....        +                          .
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~--------~--------------------------~  126 (164)
T cd04145          81 FSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRK--------V--------------------------S  126 (164)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccce--------e--------------------------c
Confidence            9999999999999999888664   2349999999999953211        1                          0


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                              ...+..++..++++++++||++|            .|++++|++|++.+
T Consensus       127 --------~~~~~~~~~~~~~~~~~~Sa~~~------------~~i~~l~~~l~~~~  163 (164)
T cd04145         127 --------REEGQELARKLKIPYIETSAKDR------------LNVDKAFHDLVRVI  163 (164)
T ss_pred             --------HHHHHHHHHHcCCcEEEeeCCCC------------CCHHHHHHHHHHhh
Confidence                    11266788888999999999999            99999999998754

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

>cd04140 ARHI_like ARHI subfamily

Probab=99.96  E-value=3.6e-28  Score=204.69  Aligned_cols=156  Identities=17%  Similarity=0.215  Sum_probs=129.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||++++.++.|...+.+|.+..+.. .+......+.+.+|||+|+++|..+...+++.++++|+||
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~-~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   80 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTYRQ-VISCSKNICTLQITDTTGSHQFPAMQRLSISKGHAFILVY   80 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheEEE-EEEECCEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEE
Confidence            799999999999999999999999988888887755532 3333445688999999999999988888899999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhc-----CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQ-----KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~-----~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |++++++|+.+..|+..++..     ...|+++||||+|+....        .+                          
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~--------~v--------------------------  126 (165)
T cd04140          81 SVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKR--------EV--------------------------  126 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccC--------ee--------------------------
Confidence            999999999999998877654     223899999999995421        11                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                      .        ...+..++..++++|+||||++|            +|++++|++|+.
T Consensus       127 ~--------~~~~~~~~~~~~~~~~e~SA~~g------------~~v~~~f~~l~~  162 (165)
T cd04140         127 S--------SNEGAACATEWNCAFMETSAKTN------------HNVQELFQELLN  162 (165)
T ss_pred             c--------HHHHHHHHHHhCCcEEEeecCCC------------CCHHHHHHHHHh
Confidence            1        11256778888899999999999            999999999975

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

>cd04118 Rab24 Rab24 subfamily

Probab=99.96  E-value=4.6e-28  Score=209.07  Aligned_cols=166  Identities=16%  Similarity=0.257  Sum_probs=138.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFED-ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      +||+|+|++|||||||+++|.++.|.. .+.+|.+..+....+..++..+.+.+|||+|++++..+...+++++|++|+|
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv   80 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVC   80 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhhHhhcCCCCEEEEE
Confidence            589999999999999999999999874 5778888877666666777788999999999999999888899999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      ||++++.+|+.+..|+..+..... .|+++||||+|+.....    ..+++                          .  
T Consensus        81 ~d~~~~~s~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~----~~~~v--------------------------~--  128 (193)
T cd04118          81 YDLTDSSSFERAKFWVKELQNLEEHCKIYLCGTKSDLIEQDR----SLRQV--------------------------D--  128 (193)
T ss_pred             EECCCHHHHHHHHHHHHHHHhcCCCCCEEEEEEccccccccc----ccCcc--------------------------C--
Confidence            999999999999999999877643 49999999999854210    01111                          1  


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                            ...+..++..++++++++||+++            .|++++|++|++.+...
T Consensus       129 ------~~~~~~~~~~~~~~~~~~Sa~~~------------~gv~~l~~~i~~~~~~~  168 (193)
T cd04118         129 ------FHDVQDFADEIKAQHFETSSKTG------------QNVDELFQKVAEDFVSR  168 (193)
T ss_pred             ------HHHHHHHHHHcCCeEEEEeCCCC------------CCHHHHHHHHHHHHHHh
Confidence                  12266778888899999999999            99999999999888654

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

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.96  E-value=4.5e-28  Score=211.59  Aligned_cols=176  Identities=15%  Similarity=0.146  Sum_probs=124.2

Q ss_pred             CceEEEEcCCCCCHHHHHH-HHhcCC-----CCCCCCCCcce-EEeeEE--------eecCcceEEEEEEEcCCchhhhc
Q 040295           49 RPGILIIGSSNVGKRTILS-RLLSVN-----FEDASDSSSEL-LVNGWT--------INTKYYTADVSLWMAHLHEEFSI  113 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~-rl~~~~-----~~~~~~~t~~~-~~~~~~--------i~~~~~~~~l~I~Dt~G~e~~~~  113 (289)
                      .+||+++|++|||||||+. ++.++.     |...+.+|++. +.+...        +..++..+.+.+|||+|++..  
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~~--   79 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHDK--   79 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChhh--
Confidence            4799999999999999995 665543     44567778752 222111        134567899999999999853  


Q ss_pred             cccccccCccEEEEEEeCCCHhhHHHHH-HHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCccc
Q 040295          114 RSLPISDQLTALVMVFNLNDLSTLDALK-HWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFC  191 (289)
Q Consensus       114 ~~~~~~~~ad~vIlV~Dv~~~~S~~~l~-~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~  191 (289)
                      +...+++++|++|+|||++++.||+.+. .|+..++.... .|+++||||+||........ .....         |  +
T Consensus        80 ~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~~~~~~~-~~~~~---------~--~  147 (195)
T cd01873          80 DRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCPRVPVILVGCKLDLRYADLDEV-NRARR---------P--L  147 (195)
T ss_pred             hhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhCCCCCEEEEEEchhccccccchh-hhccc---------c--c
Confidence            4556899999999999999999999997 59998876543 48999999999953210000 00000         0  0


Q ss_pred             CCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          192 QSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       192 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                      ..           +.........++++.+++.++++|+||||++|            .||+++|+.+++.
T Consensus       148 ~~-----------~~~~~~~V~~~e~~~~a~~~~~~~~E~SAkt~------------~~V~e~F~~~~~~  194 (195)
T cd01873         148 AR-----------PIKNADILPPETGRAVAKELGIPYYETSVVTQ------------FGVKDVFDNAIRA  194 (195)
T ss_pred             cc-----------ccccCCccCHHHHHHHHHHhCCEEEEcCCCCC------------CCHHHHHHHHHHh
Confidence            00           00000111123489999999999999999999            9999999999864

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.

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.96  E-value=8.2e-28  Score=200.74  Aligned_cols=159  Identities=19%  Similarity=0.357  Sum_probs=136.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+|+|++|||||||+++++++++...+.++.+..+....+..++..+.+.+||++|++++...+..+++++|++|+||
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~   81 (163)
T cd01860           2 FKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVY   81 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEEE
Confidence            79999999999999999999999988778888887776677777778889999999999999988888999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |++++++|+.+..|+..+.....  .|+++|+||+|+.....        +                          +  
T Consensus        82 d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~--------~--------------------------~--  125 (163)
T cd01860          82 DITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLESKRQ--------V--------------------------S--  125 (163)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccCc--------C--------------------------C--
Confidence            99999999999999999876652  38999999999863211        1                          0  


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                            ...+..++..++++++++||++|            .|+.++|++|++.+
T Consensus       126 ------~~~~~~~~~~~~~~~~~~Sa~~~------------~~v~~l~~~l~~~l  162 (163)
T cd01860         126 ------TEEAQEYADENGLLFFETSAKTG------------ENVNELFTEIAKKL  162 (163)
T ss_pred             ------HHHHHHHHHHcCCEEEEEECCCC------------CCHHHHHHHHHHHh
Confidence                  11256778888899999999999            99999999999875

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

>cd01861 Rab6 Rab6 subfamily

Probab=99.96  E-value=9.9e-28  Score=199.85  Aligned_cols=158  Identities=18%  Similarity=0.329  Sum_probs=135.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||++++++.++...+.++.+.++....+..++..+.+.+|||||++.+..+...+++.+|++|+||
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~   80 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEE
Confidence            48999999999999999999999998878888888877777766777788999999999999998889999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |++++++|+.+..|+..+.....  .|+++||||+|+.....        +                          .  
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~--------~--------------------------~--  124 (161)
T cd01861          81 DITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQ--------V--------------------------S--  124 (161)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhccccCc--------c--------------------------C--
Confidence            99999999999999999876654  59999999999953211        1                          0  


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                            .+.+..++...+++++++||+++            .|++++|.+|++.
T Consensus       125 ------~~~~~~~~~~~~~~~~~~Sa~~~------------~~v~~l~~~i~~~  160 (161)
T cd01861         125 ------TEEGEKKAKELNAMFIETSAKAG------------HNVKELFRKIASA  160 (161)
T ss_pred             ------HHHHHHHHHHhCCEEEEEeCCCC------------CCHHHHHHHHHHh
Confidence                  11256667777899999999999            9999999999875

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.96  E-value=1e-27  Score=200.54  Aligned_cols=159  Identities=13%  Similarity=0.208  Sum_probs=131.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC--CCCCCCCCCcceEEeeEEeec-CcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV--NFEDASDSSSELLVNGWTINT-KYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~--~~~~~~~~t~~~~~~~~~i~~-~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      +||+++|++|||||||++++..+  .+...+.+|.+.++....+.. .+..+++.+|||+|++.+..+...+++.+|++|
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii   80 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPSVFI   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEE
Confidence            58999999999999999999865  677788888887765444433 356789999999999999988889999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      +|||++++++|+.+..|+..+.... ..|+++||||+|+.+...        +                          .
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~--------~--------------------------~  126 (164)
T cd04101          81 LVYDVSNKASFENCSRWVNKVRTASKHMPGVLVGNKMDLADKAE--------V--------------------------T  126 (164)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccccccC--------C--------------------------C
Confidence            9999999999999999999987664 348999999999954211        1                          0


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                              .+.+..+...++++|+++||+++            .|++++|+.|++..
T Consensus       127 --------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~  163 (164)
T cd04101         127 --------DAQAQAFAQANQLKFFKTSALRG------------VGYEEPFESLARAF  163 (164)
T ss_pred             --------HHHHHHHHHHcCCeEEEEeCCCC------------CChHHHHHHHHHHh
Confidence                    01145667777899999999999            99999999998865

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.

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.96  E-value=3.2e-28  Score=205.22  Aligned_cols=153  Identities=15%  Similarity=0.246  Sum_probs=122.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||+++|+.+.|...+.++.+ .+ ...+..++..+.+.+|||+|++..     .+++++|++++||
T Consensus         1 ~ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~~~-~~-~~~i~~~~~~~~l~i~D~~g~~~~-----~~~~~~~~~ilv~   73 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSYVQLESPEGG-RF-KKEVLVDGQSHLLLIRDEGGAPDA-----QFASWVDAVIFVF   73 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhCCCCCCCCCCcc-ce-EEEEEECCEEEEEEEEECCCCCch-----hHHhcCCEEEEEE
Confidence            5899999999999999999999998776655543 33 244555666788999999999853     4678899999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      |+++++||+.+..|+..+....   ..|+++||||.|+....      .+.+                          +.
T Consensus        74 d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~------~~~v--------------------------~~  121 (158)
T cd04103          74 SLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESN------PRVI--------------------------DD  121 (158)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcC------Cccc--------------------------CH
Confidence            9999999999999999997664   23999999999984211      1222                          11


Q ss_pred             CCCcHHHHHHHHHHHHHc-CCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          207 EEPSWEIRRSCLEWCTEH-RIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~-~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                              +.+.++++.. ++.|+||||+++            .||+++|..+++.
T Consensus       122 --------~~~~~~~~~~~~~~~~e~SAk~~------------~~i~~~f~~~~~~  157 (158)
T cd04103         122 --------ARARQLCADMKRCSYYETCATYG------------LNVERVFQEAAQK  157 (158)
T ss_pred             --------HHHHHHHHHhCCCcEEEEecCCC------------CCHHHHHHHHHhh
Confidence                    2267888776 489999999999            9999999999864

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.

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.96  E-value=1.4e-27  Score=202.74  Aligned_cols=167  Identities=13%  Similarity=0.169  Sum_probs=131.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||+++|.++.|...+.+|... .+...+..++..+.+.+|||+|++.|..++..+++++|++|+||
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~   79 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFD-NFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCF   79 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceee-eeeEEEEECCEEEEEEEEECCCChhhccccccccCCCcEEEEEE
Confidence            58999999999999999999999998888887743 33445555667789999999999999999989999999999999


Q ss_pred             eCCCHhhHHHHH-HHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALK-HWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~-~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |++++++|+.+. .|+..+.... ..|+++||||+|+.+.....   .+..                          . .
T Consensus        80 d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~---~~~~--------------------------~-~  129 (173)
T cd04130          80 SVVNPSSFQNISEKWIPEIRKHNPKAPIILVGTQADLRTDVNVL---IQLA--------------------------R-Y  129 (173)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhhccChhHH---HHHh--------------------------h-c
Confidence            999999999985 6998887543 34899999999996431100   0000                          0 0


Q ss_pred             CCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHH
Q 040295          208 EPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALS  259 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~  259 (289)
                      .......+++..+++..++ +|+||||++|            .||+++|+.++
T Consensus       130 ~~~~v~~~~~~~~a~~~~~~~~~e~Sa~~~------------~~v~~lf~~~~  170 (173)
T cd04130         130 GEKPVSQSRAKALAEKIGACEYIECSALTQ------------KNLKEVFDTAI  170 (173)
T ss_pred             CCCCcCHHHHHHHHHHhCCCeEEEEeCCCC------------CCHHHHHHHHH
Confidence            0001112347889999998 8999999999            99999999875

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,

>cd04135 Tc10 TC10 subfamily

Probab=99.95  E-value=2.7e-27  Score=200.12  Aligned_cols=170  Identities=14%  Similarity=0.168  Sum_probs=133.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||+++|..+.|...+.++....+ ...+..++..+.+.+|||+|++.|..++..+++.+|++|+||
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   79 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICF   79 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeee-EEEEEECCEEEEEEEEeCCCcccccccccccCCCCCEEEEEE
Confidence            5899999999999999999999999877777776443 334455666788999999999999999989999999999999


Q ss_pred             eCCCHhhHHHHH-HHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALK-HWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~-~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |++++.+|+.+. .|+..+.... ..|+++||||+|+.+...    ....+.                         ...
T Consensus        80 ~~~~~~s~~~~~~~~~~~l~~~~~~~piivv~nK~Dl~~~~~----~~~~~~-------------------------~~~  130 (174)
T cd04135          80 SVVNPASFQNVKEEWVPELKEYAPNVPYLLVGTQIDLRDDPK----TLARLN-------------------------DMK  130 (174)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeEchhhhcChh----hHHHHh-------------------------hcc
Confidence            999999999996 6888886653 338999999999964321    111110                         000


Q ss_pred             CCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          208 EPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                       ........+..+++..++ +|+||||++|            .|++++|+.++..+
T Consensus       131 -~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~------------~gi~~~f~~~~~~~  173 (174)
T cd04135         131 -EKPVTVEQGQKLAKEIGAHCYVECSALTQ------------KGLKTVFDEAILAI  173 (174)
T ss_pred             -CCCCCHHHHHHHHHHcCCCEEEEecCCcC------------CCHHHHHHHHHHHh
Confidence             000112337889998986 7999999999            99999999999875

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

>cd01892 Miro2 Miro2 subfamily

Probab=99.95  E-value=1.5e-27  Score=202.75  Aligned_cols=162  Identities=12%  Similarity=0.058  Sum_probs=136.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCC-CCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFE-DASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~-~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      +.+||+++|++|||||||+++|+++.|. ..+.+|.+..+....+..++..+.+.+||++|++.+..+...+++++|++|
T Consensus         3 ~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~~l   82 (169)
T cd01892           3 NVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLNDAELAACDVAC   82 (169)
T ss_pred             eEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcccccccchhhhhcCCEEE
Confidence            4589999999999999999999999998 788899888775555555666788999999999999988888999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      +|||++++.+|+.+..|+..+......|+++|+||+|+.+..        +.                          ..
T Consensus        83 lv~d~~~~~s~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~--------~~--------------------------~~  128 (169)
T cd01892          83 LVYDSSDPKSFSYCAEVYKKYFMLGEIPCLFVAAKADLDEQQ--------QR--------------------------YE  128 (169)
T ss_pred             EEEeCCCHHHHHHHHHHHHHhccCCCCeEEEEEEcccccccc--------cc--------------------------cc
Confidence            999999999999999999877544456999999999995321        11                          11


Q ss_pred             CCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          207 EEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                      .+        +.++++.+++ .++++||+++            .|++++|+.|.+.+.
T Consensus       129 ~~--------~~~~~~~~~~~~~~~~Sa~~~------------~~v~~lf~~l~~~~~  166 (169)
T cd01892         129 VQ--------PDEFCRKLGLPPPLHFSSKLG------------DSSNELFTKLATAAQ  166 (169)
T ss_pred             cC--------HHHHHHHcCCCCCEEEEeccC------------ccHHHHHHHHHHHhh
Confidence            11        5678888887 4799999999            999999999998765

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.

>cd01863 Rab18 Rab18 subfamily

Probab=99.95  E-value=4.1e-27  Score=196.35  Aligned_cols=158  Identities=20%  Similarity=0.374  Sum_probs=134.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+|+|++|||||||+++|.+..+...+.++.+.++....+...+..+.+.+|||+|++.+..+...+++.+|++|+||
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~   80 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEE
Confidence            58999999999999999999999987778888888776665656666788999999999999988888999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      |++++.+|+.+..|+..+....   ..|+++||||+|+....         .                          . 
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~~~---------~--------------------------~-  124 (161)
T cd01863          81 DVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKENRE---------V--------------------------T-  124 (161)
T ss_pred             ECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCcccccc---------c--------------------------C-
Confidence            9999999999999999887653   33899999999995211         0                          0 


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                             .+....++...+++|+++||++|            .|++++++.++..+
T Consensus       125 -------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~~~~~~~~~~  161 (161)
T cd01863         125 -------REEGLKFARKHNMLFIETSAKTR------------DGVQQAFEELVEKI  161 (161)
T ss_pred             -------HHHHHHHHHHcCCEEEEEecCCC------------CCHHHHHHHHHHhC
Confidence                   11256778888999999999999            99999999998753

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

>cd04142 RRP22 RRP22 subfamily

Probab=99.95  E-value=2.8e-27  Score=206.97  Aligned_cols=162  Identities=14%  Similarity=0.129  Sum_probs=128.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcc--------ccccccC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIR--------SLPISDQ  121 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~--------~~~~~~~  121 (289)
                      +||+|+|++|||||||+++|.+++|...+.+|.+..++...+..++..+.+.+|||+|.+.|...        ....++.
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~   80 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRN   80 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEECCEEEEEEEEeCCCcccCCccchhHHHHHHHhhhcc
Confidence            58999999999999999999999998888888876665555556677789999999997654321        2234788


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHhhhcC-----CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCC
Q 040295          122 LTALVMVFNLNDLSTLDALKHWVPSIDLQK-----FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGIS  196 (289)
Q Consensus       122 ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~-----~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~  196 (289)
                      +|++|+|||+++++||+.+..|+..+....     ..|+++||||+|+...        +.+                  
T Consensus        81 ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~--------~~~------------------  134 (198)
T cd04142          81 SRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRH--------RFA------------------  134 (198)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECcccccc--------ccc------------------
Confidence            999999999999999999999998886542     3499999999999532        111                  


Q ss_pred             cccCCCCCCCCCCcHHHHHHHHHHHH-HcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          197 ETEGSSLLGDEEPSWEIRRSCLEWCT-EHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       197 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                              +.        +.+..++. .++++|+||||++|            .||+++|+.+.+.++..
T Consensus       135 --------~~--------~~~~~~~~~~~~~~~~e~Sak~g------------~~v~~lf~~i~~~~~~~  176 (198)
T cd04142         135 --------PR--------HVLSVLVRKSWKCGYLECSAKYN------------WHILLLFKELLISATTR  176 (198)
T ss_pred             --------cH--------HHHHHHHHHhcCCcEEEecCCCC------------CCHHHHHHHHHHHhhcc
Confidence                    11        11455654 56899999999999            99999999999888754

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.

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.95  E-value=8.3e-28  Score=202.04  Aligned_cols=158  Identities=20%  Similarity=0.262  Sum_probs=127.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchh-hhccccccccCccEEEEEE
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEE-FSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~-~~~~~~~~~~~ad~vIlV~  129 (289)
                      ||+++|++|||||||+++++.+.|...+.++....+ ...+..++..+.+++|||+|++. +......+++.+|++|+||
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~   79 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFIGEYDPNLESLY-SRQVTIDGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVY   79 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccccccCCChHHhc-eEEEEECCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEE
Confidence            699999999999999999999888777777775444 23344456678899999999985 3444567889999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcC----CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQK----FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~----~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      |++++.||+.+..|+..+....    ..|+++||||+|+...        +.+                          +
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--------~~v--------------------------~  125 (165)
T cd04146          80 SITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHY--------RQV--------------------------S  125 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHh--------Ccc--------------------------C
Confidence            9999999999999998887653    3489999999998421        222                          1


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCch-hHHHHHHHHHHhcc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQ-GVERLYGALSAHMW  263 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~-~i~~l~~~L~~~~~  263 (289)
                      .        +.+..++...+++|++|||+++            . ||+++|+.|++.+.
T Consensus       126 ~--------~~~~~~~~~~~~~~~e~Sa~~~------------~~~v~~~f~~l~~~~~  164 (165)
T cd04146         126 T--------EEGEKLASELGCLFFEVSAAED------------YDGVHSVFHELCREVR  164 (165)
T ss_pred             H--------HHHHHHHHHcCCEEEEeCCCCC------------chhHHHHHHHHHHHHh
Confidence            1        1267888888999999999998            7 89999999998654

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

>cd04177 RSR1 RSR1 subgroup

Probab=99.95  E-value=5.3e-27  Score=198.14  Aligned_cols=160  Identities=14%  Similarity=0.204  Sum_probs=133.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||+++|.++.+...+.+|.+..+ ...+..++..+.+++|||+|++.|..++..+++.++++|+||
T Consensus         2 ~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~   80 (168)
T cd04177           2 YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSY-RKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVY   80 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEEE
Confidence            6899999999999999999999999887888887554 344555667789999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      |++++++|+.+..|...+...   ...|+++||||+|+.+...        +                          ..
T Consensus        81 ~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~--------~--------------------------~~  126 (168)
T cd04177          81 SVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQ--------V--------------------------SR  126 (168)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCc--------c--------------------------CH
Confidence            999999999999999888653   2348999999999954211        1                          11


Q ss_pred             CCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          207 EEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                              ..+..+++.++ ++|+++||+++            .|++++|++++++++.
T Consensus       127 --------~~~~~~~~~~~~~~~~~~SA~~~------------~~i~~~f~~i~~~~~~  165 (168)
T cd04177         127 --------EDGVSLSQQWGNVPFYETSARKR------------TNVDEVFIDLVRQIIC  165 (168)
T ss_pred             --------HHHHHHHHHcCCceEEEeeCCCC------------CCHHHHHHHHHHHHhh
Confidence                    11456677777 78999999999            9999999999988764

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

>cd04123 Rab21 Rab21 subfamily

Probab=99.95  E-value=1.5e-26  Score=191.81  Aligned_cols=159  Identities=19%  Similarity=0.361  Sum_probs=132.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+|+|++|||||||+++|.++.+...+.++.+..+....+...+..+.+.+||++|++.+..++..+++.+|++++||
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVY   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHhhHHHhccCCEEEEEE
Confidence            58999999999999999999999987766677766665555555566788999999999999999988999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |++++++++.+..|+..+.....  .|+++|+||+|+....+        +                          .. 
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~~--------~--------------------------~~-  125 (162)
T cd04123          81 DITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQRV--------V--------------------------SK-  125 (162)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccC--------C--------------------------CH-
Confidence            99999999999999998876643  48999999999963211        1                          00 


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                             ..+.+++...+++++++||+++            .|++++|++|.+.+
T Consensus       126 -------~~~~~~~~~~~~~~~~~s~~~~------------~gi~~~~~~l~~~~  161 (162)
T cd04123         126 -------SEAEEYAKSVGAKHFETSAKTG------------KGIEELFLSLAKRM  161 (162)
T ss_pred             -------HHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHh
Confidence                   1145667778899999999999            99999999998865

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

>cd01862 Rab7 Rab7 subfamily

Probab=99.95  E-value=1.2e-26  Score=195.06  Aligned_cols=163  Identities=17%  Similarity=0.366  Sum_probs=136.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||++++.+..+...+.++.+.++....+...+..+.+.+||+||++.|..++..++++++++|+||
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~   80 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVY   80 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEE
Confidence            58999999999999999999999988888888887776666666667788999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcC------CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQK------FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~------~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      |++++++|+.+..|...+....      ..|+++|+||+|+.....        +                         
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~--------~-------------------------  127 (172)
T cd01862          81 DVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQ--------V-------------------------  127 (172)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccc--------c-------------------------
Confidence            9999999999999988764332      349999999999963111        0                         


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                       +        ...+..++...+ ++++++||++|            .|++++|+++.+.+....
T Consensus       128 -~--------~~~~~~~~~~~~~~~~~~~Sa~~~------------~gv~~l~~~i~~~~~~~~  170 (172)
T cd01862         128 -S--------TKKAQQWCQSNGNIPYFETSAKEA------------INVEQAFETIARKALEQE  170 (172)
T ss_pred             -C--------HHHHHHHHHHcCCceEEEEECCCC------------CCHHHHHHHHHHHHHhcc
Confidence             0        112567777787 68999999999            999999999998877653

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-

>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]

Probab=99.95  E-value=5e-29  Score=201.52  Aligned_cols=157  Identities=19%  Similarity=0.299  Sum_probs=142.4

Q ss_pred             EEcCCCCCHHHHHHHHhcCCCCC-CCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEeCC
Q 040295           54 IIGSSNVGKRTILSRLLSVNFED-ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLN  132 (289)
Q Consensus        54 ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~  132 (289)
                      ++|++++|||+|+-||..+-|.. ...+|.+.+|.+..+..++..+++++|||+|||+|+++...|++.||+.+++||+.
T Consensus         2 llgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydia   81 (192)
T KOG0083|consen    2 LLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDIA   81 (192)
T ss_pred             ccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeecc
Confidence            68999999999999998887754 46789999999999999999999999999999999999999999999999999999


Q ss_pred             CHhhHHHHHHHHHHhhhcCCC--eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCc
Q 040295          133 DLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPS  210 (289)
Q Consensus       133 ~~~S~~~l~~~~~~i~~~~~~--~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  210 (289)
                      +..||++++.|+..|..+...  -+.++|||+|+.+        +|.+                          ..++  
T Consensus        82 nkasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~--------er~v--------------------------~~dd--  125 (192)
T KOG0083|consen   82 NKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAH--------ERAV--------------------------KRDD--  125 (192)
T ss_pred             cchhHHHHHHHHHHHHHHHHhhHhHhhhccccccch--------hhcc--------------------------ccch--
Confidence            999999999999999888655  6778999999954        5666                          5555  


Q ss_pred             HHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          211 WEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       211 ~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                            .+.++..+++|++|+|||+|            -||+..|-.|.+.+..
T Consensus       126 ------g~kla~~y~ipfmetsaktg------------~nvd~af~~ia~~l~k  161 (192)
T KOG0083|consen  126 ------GEKLAEAYGIPFMETSAKTG------------FNVDLAFLAIAEELKK  161 (192)
T ss_pred             ------HHHHHHHHCCCceecccccc------------ccHhHHHHHHHHHHHH
Confidence                  89999999999999999999            9999999999988754

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.95  E-value=1.3e-26  Score=196.12  Aligned_cols=170  Identities=16%  Similarity=0.257  Sum_probs=132.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      .||+|+|++|||||||+++|.++.|...+.+|.+..+.. .+...+..+.+.+|||+|++.|..++..+++++|++++||
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~-~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCF   80 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccceEE-EEEECCEEEEEEEEeCCCchhhhhccccccCCCCEEEEEE
Confidence            589999999999999999999999988888888766532 3445566788999999999999888888899999999999


Q ss_pred             eCCCHhhHHHHH-HHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALK-HWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~-~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |++++++|+.+. .|+..+.... ..|+++||||+|+.+...    ....+                          ...
T Consensus        81 ~~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----~~~~i--------------------------~~~  130 (175)
T cd01870          81 SIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEH----TRREL--------------------------AKM  130 (175)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhcccChh----hhhhh--------------------------hhc
Confidence            999999999986 6888887653 349999999999864321    11111                          000


Q ss_pred             CCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          208 EPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                      .........+.+++...+. +|++|||++|            .|++++|.+|++.+
T Consensus       131 ~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~------------~~v~~lf~~l~~~~  174 (175)
T cd01870         131 KQEPVKPEEGRDMANKIGAFGYMECSAKTK------------EGVREVFEMATRAA  174 (175)
T ss_pred             cCCCccHHHHHHHHHHcCCcEEEEeccccC------------cCHHHHHHHHHHHh
Confidence            0000112347788888775 7999999999            99999999998754

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.95  E-value=8.4e-27  Score=210.78  Aligned_cols=161  Identities=17%  Similarity=0.169  Sum_probs=129.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||+++|+++.|...+.+|++ +++...+..++..+.+.||||+|++.|..+...++..+|++|+||
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVf   79 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVF   79 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCCCCCCCCChh-HhEEEEEEECCEEEEEEEEECCCChhhhHHHHHHhccCCEEEEEE
Confidence            5899999999999999999999999888888886 333444555667789999999999999888888889999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhc-----------CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcc
Q 040295          130 NLNDLSTLDALKHWVPSIDLQ-----------KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISET  198 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~-----------~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~  198 (289)
                      |+++++||+.+..|+..+...           ...|+|+||||+|+...        +.+                    
T Consensus        80 dv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~--------~~v--------------------  131 (247)
T cd04143          80 SLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFP--------REV--------------------  131 (247)
T ss_pred             eCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhc--------ccc--------------------
Confidence            999999999999999888543           23499999999999531        111                    


Q ss_pred             cCCCCCCCCCCcHHHHHHHHHHHHH-cCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          199 EGSSLLGDEEPSWEIRRSCLEWCTE-HRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                            ..        .++.+++.. .++.|+++||+++            .|++++|++|...+.-.
T Consensus       132 ------~~--------~ei~~~~~~~~~~~~~evSAktg------------~gI~elf~~L~~~~~~p  173 (247)
T cd04143         132 ------QR--------DEVEQLVGGDENCAYFEVSAKKN------------SNLDEMFRALFSLAKLP  173 (247)
T ss_pred             ------CH--------HHHHHHHHhcCCCEEEEEeCCCC------------CCHHHHHHHHHHHhccc
Confidence                  11        114455443 4678999999999            99999999999866433

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

>PLN03118 Rab family protein; Provisional

Probab=99.95  E-value=1.2e-26  Score=203.96  Aligned_cols=166  Identities=19%  Similarity=0.316  Sum_probs=135.0

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      .....+||+|+|++|||||||+++|+++.+ ..+.++.+.++....+..++..+.+.+|||||+++|..++..+++.+|+
T Consensus        10 ~~~~~~kv~ivG~~~vGKTsli~~l~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~   88 (211)
T PLN03118         10 GYDLSFKILLIGDSGVGKSSLLVSFISSSV-EDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNAQG   88 (211)
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHHhCCC-CCcCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCE
Confidence            344568999999999999999999999887 4567788877766666556667889999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHH-HHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          125 LVMVFNLNDLSTLDALKH-WVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~-~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      +|+|||++++++|+.+.. |...+...   ...|+++||||+|+.......                             
T Consensus        89 ~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~-----------------------------  139 (211)
T PLN03118         89 IILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVS-----------------------------  139 (211)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccC-----------------------------
Confidence            999999999999999975 76666543   233889999999995422110                             


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                   .+.+..++..+++.|+|+||+++            .|++++|.+|...+...
T Consensus       140 -------------~~~~~~~~~~~~~~~~e~SAk~~------------~~v~~l~~~l~~~~~~~  179 (211)
T PLN03118        140 -------------REEGMALAKEHGCLFLECSAKTR------------ENVEQCFEELALKIMEV  179 (211)
T ss_pred             -------------HHHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHHHhh
Confidence                         11256777788899999999999            99999999999888544

>cd04148 RGK RGK subfamily

Probab=99.95  E-value=2.7e-26  Score=203.89  Aligned_cols=162  Identities=18%  Similarity=0.219  Sum_probs=130.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCC-CCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcccccccc-CccEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFE-DASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISD-QLTALVM  127 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~-~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~-~ad~vIl  127 (289)
                      +||+++|++|||||||+++|..+.+. ..+.++.+.+++...+..++....+.+|||+|++.+  +...+++ ++|++|+
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~--~~~~~~~~~ad~iil   78 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQEMW--TEDSCMQYQGDAFVV   78 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcchH--HHhHHhhcCCCEEEE
Confidence            58999999999999999999988886 667777765565556666667788999999999832  3344566 8999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |||++++.+|+.+..|+..+....   ..|+|+||||+|+...        +.+                          
T Consensus        79 V~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~--------~~v--------------------------  124 (221)
T cd04148          79 VYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARS--------REV--------------------------  124 (221)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhcccc--------cee--------------------------
Confidence            999999999999999999887653   3499999999999542        112                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMV  267 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~  267 (289)
                      +.        +.+..++...+++|+||||+++            .||+++|+.|++.+.....
T Consensus       125 ~~--------~~~~~~a~~~~~~~~e~SA~~~------------~gv~~l~~~l~~~~~~~~~  167 (221)
T cd04148         125 SV--------QEGRACAVVFDCKFIETSAGLQ------------HNVDELLEGIVRQIRLRRD  167 (221)
T ss_pred             cH--------HHHHHHHHHcCCeEEEecCCCC------------CCHHHHHHHHHHHHHhhhc
Confidence            11        1156777788899999999999            9999999999998864443

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

>cd04114 Rab30 Rab30 subfamily

Probab=99.94  E-value=7.6e-26  Score=190.14  Aligned_cols=162  Identities=20%  Similarity=0.329  Sum_probs=133.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..+||+++|++|||||||++++..+.+...+.++.+.++....+...+..+.+.+||++|++.|......+++.+|++|+
T Consensus         6 ~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~   85 (169)
T cd04114           6 FLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALIL   85 (169)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEE
Confidence            45899999999999999999999888877777888777666666667777889999999999999888889999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      |||++++.+|+.+..|+..+.....  .|+++||||+|+.......    ..                            
T Consensus        86 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~~i~----~~----------------------------  133 (169)
T cd04114          86 TYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERREVS----QQ----------------------------  133 (169)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccC----HH----------------------------
Confidence            9999999999999999988866533  4889999999995322111    00                            


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                ....+.+.....+++|||++|            .|+.++|..|+++++
T Consensus       134 ----------~~~~~~~~~~~~~~~~Sa~~~------------~gv~~l~~~i~~~~~  169 (169)
T cd04114         134 ----------RAEEFSDAQDMYYLETSAKES------------DNVEKLFLDLACRLI  169 (169)
T ss_pred             ----------HHHHHHHHcCCeEEEeeCCCC------------CCHHHHHHHHHHHhC
Confidence                      145566666788999999999            999999999998653

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

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.94  E-value=5.3e-26  Score=199.78  Aligned_cols=172  Identities=17%  Similarity=0.179  Sum_probs=135.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeec-----CcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINT-----KYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~-----~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      +||+++|++|||||||+++|.++.|...+.+|++..+....+..     .+..+.++||||+|++.|..+...+++++++
T Consensus         1 vKIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~~~yr~ad~   80 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRAVFYNQVNG   80 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHHHHhCcCCE
Confidence            58999999999999999999999998888899987664443332     2467899999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhc---------------------CCCeEEEEeeCCCCCCCCCchhHHHHHhhhccc
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQ---------------------KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREE  183 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~---------------------~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~  183 (289)
                      +|+|||+++++||+.+..|+..+...                     ...|+||||||+|+.+.        |.+     
T Consensus        81 iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~--------r~~-----  147 (202)
T cd04102          81 IILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPE--------KES-----  147 (202)
T ss_pred             EEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhh--------ccc-----
Confidence            99999999999999999999998653                     12399999999999542        222     


Q ss_pred             CCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          184 SSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       184 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                               ........+..++...+++.++.++++.  .-......+...+.+.|+.++++
T Consensus       148 -------------------------~~~~~~~~~~~ia~~~~~~~i~~~c~~~--~~~~~~~~~~~~~~~~~~~~~~~  198 (202)
T cd04102         148 -------------------------SGNLVLTARGFVAEQGNAEEINLNCTNG--RLLAAGSSDAVKLSRFFDKVIEK  198 (202)
T ss_pred             -------------------------chHHHhhHhhhHHHhcCCceEEEecCCc--ccccCCCccHHHHHHHHHHHHHh
Confidence                                     1112223367889999999999988865  22233444567788888888764

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.

>cd00154 Rab Rab family

Probab=99.94  E-value=6.3e-26  Score=186.04  Aligned_cols=156  Identities=21%  Similarity=0.376  Sum_probs=135.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||++++.+..+...+.+|.+.++....+...+..+.+.+||+||++.+......+++++|++|+||
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~   80 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVY   80 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEE
Confidence            58999999999999999999999998888888888888777777777889999999999999988889999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |.+++++++.+..|+..+....  ..|+++|+||+|+.....        .                             
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~--------~-----------------------------  123 (159)
T cd00154          81 DITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLEDQRQ--------V-----------------------------  123 (159)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEccccccccc--------c-----------------------------
Confidence            9999999999999999987765  349999999999952110        0                             


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHH
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALS  259 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~  259 (289)
                           ....+..++..++++|+++||+++            .|++++|.+|.
T Consensus       124 -----~~~~~~~~~~~~~~~~~~~sa~~~------------~~i~~~~~~i~  158 (159)
T cd00154         124 -----STEEAQQFAKENGLLFFETSAKTG------------ENVEELFQSLA  158 (159)
T ss_pred             -----cHHHHHHHHHHcCCeEEEEecCCC------------CCHHHHHHHHh
Confidence                 012266778788899999999999            99999999886

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.94  E-value=9.4e-26  Score=187.66  Aligned_cols=159  Identities=16%  Similarity=0.240  Sum_probs=131.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||++++....+...+.++.+..+. ..+..++..+.+.+|||+|++.+......+++.++++++||
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVF   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCccccCCcchhhEE-EEEEECCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEE
Confidence            58999999999999999999999988777777765443 33445556788999999999999998889999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      |++++.+|+.+..|+..+...   ...|+++|+||+|+......    ..                              
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~----~~------------------------------  125 (164)
T cd04139          80 SITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLEDKRQV----SS------------------------------  125 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEcccccccccc----CH------------------------------
Confidence            999999999999999888765   33499999999999641100    00                              


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                              .....++..++++|+++||+++            .|++++|..|++++.
T Consensus       126 --------~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~~  162 (164)
T cd04139         126 --------EEAANLARQWGVPYVETSAKTR------------QNVEKAFYDLVREIR  162 (164)
T ss_pred             --------HHHHHHHHHhCCeEEEeeCCCC------------CCHHHHHHHHHHHHH
Confidence                    1145677778899999999999            999999999998764

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

>KOG0395 consensus Ras-related GTPase [General function prediction only]

Probab=99.94  E-value=1.5e-26  Score=202.33  Aligned_cols=161  Identities=19%  Similarity=0.234  Sum_probs=141.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|.+|||||+|..+|+...|...|.+|++..+ ...+..++..+.+.|+||+|++.|..+...|+++++|+++|
T Consensus         3 ~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptied~y-~k~~~v~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~lV   81 (196)
T KOG0395|consen    3 EYKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIEDSY-RKELTVDGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLLV   81 (196)
T ss_pred             ceEEEEECCCCCCcchheeeecccccccccCCCccccc-eEEEEECCEEEEEEEEcCCCcccChHHHHHhhccCcEEEEE
Confidence            47999999999999999999999999999999999544 45555567889999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcCC--C-eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQKF--E-ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~~--~-~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      |+++++.||+.+..++..|.+.+.  . |+++||||+|+.        ..|.+                          +
T Consensus        82 ysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~--------~~R~V--------------------------~  127 (196)
T KOG0395|consen   82 YSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLE--------RERQV--------------------------S  127 (196)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccch--------hcccc--------------------------C
Confidence            999999999999999999944332  2 999999999994        34556                          3


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                      .++        +..++..++++|+|+||+.+            .+++++|..|++.+-.
T Consensus       128 ~ee--------g~~la~~~~~~f~E~Sak~~------------~~v~~~F~~L~r~~~~  166 (196)
T KOG0395|consen  128 EEE--------GKALARSWGCAFIETSAKLN------------YNVDEVFYELVREIRL  166 (196)
T ss_pred             HHH--------HHHHHHhcCCcEEEeeccCC------------cCHHHHHHHHHHHHHh
Confidence            333        88889999999999999999            9999999999997755

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.94  E-value=1.6e-25  Score=197.12  Aligned_cols=175  Identities=16%  Similarity=0.178  Sum_probs=145.0

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      .....+||+++|++|||||||+++++.+.+...+.+|.+..+....+..++..+.+.+|||+|++.|..++..+++++++
T Consensus         5 ~~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~~~~~~~   84 (215)
T PTZ00132          5 DEVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYIKGQC   84 (215)
T ss_pred             cCCCCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHhccCCE
Confidence            34556999999999999999999999999888899999998887777667778999999999999999888889999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      +|+|||+++..+|..+..|+..+.... ..|+++||||+|+...         .+                         
T Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~i~lv~nK~Dl~~~---------~~-------------------------  130 (215)
T PTZ00132         85 AIIMFDVTSRITYKNVPNWHRDIVRVCENIPIVLVGNKVDVKDR---------QV-------------------------  130 (215)
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccCccc---------cC-------------------------
Confidence            999999999999999999999886543 3388899999998421         01                         


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcccccCCCCC
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKIT  275 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~~~~~~  275 (289)
                       .         .+...++...++.|+++||+++            .|++++|.+|++.+.....+.-.+.++
T Consensus       131 -~---------~~~~~~~~~~~~~~~e~Sa~~~------------~~v~~~f~~ia~~l~~~p~~~~ldEp~  180 (215)
T PTZ00132        131 -K---------ARQITFHRKKNLQYYDISAKSN------------YNFEKPFLWLARRLTNDPNLVFVGAPA  180 (215)
T ss_pred             -C---------HHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHHhhcccceecCCcc
Confidence             0         0133567778899999999999            999999999999887665544444443

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.94  E-value=3.2e-26  Score=193.62  Aligned_cols=155  Identities=17%  Similarity=0.144  Sum_probs=124.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEeC
Q 040295           52 ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNL  131 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv  131 (289)
                      |+++|++|||||||+++|.++.+...+.+|.+..+.  .+.  ...+++.+|||+|++.|+.++..+++++|++|+|||+
T Consensus         2 i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~~--~i~--~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~   77 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNSV--AIP--TQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDS   77 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCcccccccCCcceE--EEe--eCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEEC
Confidence            799999999999999999999888778888886542  332  3467899999999999999999999999999999999


Q ss_pred             CCHhhHHHHHHHHHHhhhc-CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCc
Q 040295          132 NDLSTLDALKHWVPSIDLQ-KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPS  210 (289)
Q Consensus       132 ~~~~S~~~l~~~~~~i~~~-~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  210 (289)
                      +++.+|..++.|+..+... ...|+++||||+|+....... +.....                                
T Consensus        78 t~~~s~~~~~~~l~~~~~~~~~~piilv~NK~Dl~~~~~~~-~i~~~~--------------------------------  124 (164)
T cd04162          78 ADSERLPLARQELHQLLQHPPDLPLVVLANKQDLPAARSVQ-EIHKEL--------------------------------  124 (164)
T ss_pred             CCHHHHHHHHHHHHHHHhCCCCCcEEEEEeCcCCcCCCCHH-HHHHHh--------------------------------
Confidence            9999999999998888543 345999999999995432111 000111                                


Q ss_pred             HHHHHHHHHHHHHcCCeEEEeecCC------CcccccccCCCCchhHHHHHHHHHH
Q 040295          211 WEIRRSCLEWCTEHRIEYIEACASN------VDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       211 ~~~~~~~~~~~~~~~~~~ie~Sa~~------~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                           ++..++.+.++.+++|||++      +            +||.++|..|+.
T Consensus       125 -----~~~~~~~~~~~~~~~~Sa~~~~s~~~~------------~~v~~~~~~~~~  163 (164)
T cd04162         125 -----ELEPIARGRRWILQGTSLDDDGSPSRM------------EAVKDLLSQLIN  163 (164)
T ss_pred             -----CChhhcCCCceEEEEeeecCCCChhHH------------HHHHHHHHHHhc
Confidence                 14567777788899998888      8            999999999864

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.

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.94  E-value=4.5e-26  Score=196.07  Aligned_cols=172  Identities=17%  Similarity=0.163  Sum_probs=129.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeec-CcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINT-KYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~-~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      .+||+++|++|||||||++++..+.+... .+|.+..+....+.. ++..+.+.+|||+|+++|..++..+++++|++|+
T Consensus         3 ~~kv~~vG~~~~GKTsli~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~   81 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIVF   81 (183)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCcCCc-CCccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHHhccCCEEEE
Confidence            48999999999999999999999888644 566666665555543 3456889999999999999989899999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |||++++.+++.+..|+..+...   ...|+++|+||+|+......  +......                         
T Consensus        82 v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~~~~~--~~~~~~~-------------------------  134 (183)
T cd04152          82 VVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPNALSV--SEVEKLL-------------------------  134 (183)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCccccCCH--HHHHHHh-------------------------
Confidence            99999999999999888877543   33499999999999532110  1111110                         


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcccccC
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSG  271 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~~  271 (289)
                      .           ...+....+++++++||+++            +|++++|.+|.+.++..+.+.+.
T Consensus       135 ~-----------~~~~~~~~~~~~~~~SA~~~------------~gi~~l~~~l~~~l~~~~~~~~~  178 (183)
T cd04152         135 A-----------LHELSASTPWHVQPACAIIG------------EGLQEGLEKLYEMILKRRKMLRQ  178 (183)
T ss_pred             C-----------ccccCCCCceEEEEeecccC------------CCHHHHHHHHHHHHHHHHhhhhh
Confidence            0           01111112356899999999            99999999999988766655443

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.

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.94  E-value=8.2e-26  Score=194.67  Aligned_cols=162  Identities=20%  Similarity=0.212  Sum_probs=123.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||++++..+.+.. +.+|.+..+....  .  ..+.+.+|||+|++.++.++..+++++|++|+|
T Consensus        17 ~~kv~lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~~~~~--~--~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~v   91 (182)
T PTZ00133         17 EVRILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNVETVE--Y--KNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFV   91 (182)
T ss_pred             ccEEEEEcCCCCCHHHHHHHHhcCCccc-cCCccccceEEEE--E--CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEE
Confidence            4899999999999999999998888764 5677776654332  2  347899999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      ||++++++|+.+..|+..+...   ...|+++||||.|+..... ..+....+                           
T Consensus        92 ~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~-~~~i~~~l---------------------------  143 (182)
T PTZ00133         92 VDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNAMS-TTEVTEKL---------------------------  143 (182)
T ss_pred             EeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCCCC-HHHHHHHh---------------------------
Confidence            9999999999998877766332   3458999999999853211 00111111                           


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                                 ...++....+.++++||++|            .|++++|++|.+.+.+.|
T Consensus       144 -----------~~~~~~~~~~~~~~~Sa~tg------------~gv~e~~~~l~~~i~~~~  181 (182)
T PTZ00133        144 -----------GLHSVRQRNWYIQGCCATTA------------QGLYEGLDWLSANIKKSM  181 (182)
T ss_pred             -----------CCCcccCCcEEEEeeeCCCC------------CCHHHHHHHHHHHHHHhc
Confidence                       11122223456779999999            999999999998887665

>cd00876 Ras Ras family

Probab=99.94  E-value=2.4e-25  Score=184.23  Aligned_cols=157  Identities=20%  Similarity=0.258  Sum_probs=130.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEe
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFN  130 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~D  130 (289)
                      ||+|+|++|||||||++++++..+...+.++.. ..........+..+.+.+||++|++.+..+...+++.++++|+|||
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d   79 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTFVEEYDPTIE-DSYRKTIVVDGETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYS   79 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCcCcCCChh-HeEEEEEEECCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEE
Confidence            799999999999999999999888777777776 3344455556667889999999999998888888999999999999


Q ss_pred             CCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          131 LNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       131 v~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      ++++++++.+..|...+....   ..|+++|+||+|+.....        +                          .  
T Consensus        80 ~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~--------~--------------------------~--  123 (160)
T cd00876          80 ITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENERQ--------V--------------------------S--  123 (160)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccccce--------e--------------------------c--
Confidence            999999999999988886653   359999999999964211        1                          1  


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                            ...+..++..++++++++||+++            .|++++|+.|.+++
T Consensus       124 ------~~~~~~~~~~~~~~~~~~S~~~~------------~~i~~l~~~l~~~i  160 (160)
T cd00876         124 ------KEEGKALAKEWGCPFIETSAKDN------------INIDEVFKLLVREI  160 (160)
T ss_pred             ------HHHHHHHHHHcCCcEEEeccCCC------------CCHHHHHHHHHhhC
Confidence                  12267777888899999999999            99999999998754

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

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.94  E-value=8e-26  Score=190.13  Aligned_cols=112  Identities=19%  Similarity=0.201  Sum_probs=93.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|.+|||||||++++..+.+. .+.+|.+..+...  ..  ..+.+.+|||+|+++|..++..+++++|++|+||
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~-~~~pt~g~~~~~~--~~--~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~   75 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVETV--EY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCc-ccCCCCCcceEEE--EE--CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEE
Confidence            58999999999999999999888886 4677777655322  22  3578999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLP  166 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~  166 (289)
                      |++++.+|+.+..|+..+...   ...|+++||||+|+..
T Consensus        76 D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  115 (159)
T cd04150          76 DSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPN  115 (159)
T ss_pred             eCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCC
Confidence            999999999999887766432   2358999999999953

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

>cd04129 Rho2 Rho2 subfamily

Probab=99.94  E-value=1.4e-25  Score=193.44  Aligned_cols=172  Identities=15%  Similarity=0.188  Sum_probs=131.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      .||+|+|++|||||||+++|..+.+.+.+.++....+.. .+...+..+.+.+|||+|++.+......+++.++++++||
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~~~~~t~~~~~~~-~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~   80 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPEEYHPTVFENYVT-DCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIGF   80 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEE-EEEECCEEEEEEEEECCCChhccccchhhcCCCCEEEEEE
Confidence            589999999999999999999888877676776655432 3333456678999999999988877767789999999999


Q ss_pred             eCCCHhhHHHHH-HHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALK-HWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~-~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |++++++|+.+. .|+..+..... .|+++||||+|+....... +.  ..                             
T Consensus        81 ~i~~~~s~~~~~~~~~~~i~~~~~~~piilvgnK~Dl~~~~~~~-~~--~~-----------------------------  128 (187)
T cd04129          81 AVDTPDSLENVRTKWIEEVRRYCPNVPVILVGLKKDLRQDAVAK-EE--YR-----------------------------  128 (187)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhhhCcccc-cc--cc-----------------------------
Confidence            999999999997 69998876533 4999999999985321100 00  00                             


Q ss_pred             CCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          208 EPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                      .........+..+++..++ +||||||++|            .|++++|+.|.+.++..+
T Consensus       129 ~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~------------~~v~~~f~~l~~~~~~~~  176 (187)
T cd04129         129 TQRFVPIQQGKRVAKEIGAKKYMECSALTG------------EGVDDVFEAATRAALLVR  176 (187)
T ss_pred             cCCcCCHHHHHHHHHHhCCcEEEEccCCCC------------CCHHHHHHHHHHHHhccc
Confidence            0000112237788999985 8999999999            999999999998775543

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).

>cd00157 Rho Rho (Ras homology) family

Probab=99.94  E-value=3.6e-25  Score=185.88  Aligned_cols=167  Identities=17%  Similarity=0.249  Sum_probs=129.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||+++|.+..+...+.++....+ ...+...+..+.+.+||+||++.+......+++.+|++++||
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTVFDNY-SATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICF   79 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeee-EEEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEE
Confidence            6899999999999999999999998767767665443 334444566788999999999988888888889999999999


Q ss_pred             eCCCHhhHHHHH-HHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALK-HWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~-~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |++++.+|..+. .|+..+..... .|+++||||+|+......     ...            +      ..+       
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~-----~~~------------~------~~~-------  129 (171)
T cd00157          80 SVDSPSSFENVKTKWIPEIRHYCPNVPIILVGTKIDLRDDENT-----LKK------------L------EKG-------  129 (171)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEccHHhhhchhh-----hhh------------c------ccC-------
Confidence            999999998876 58887766543 499999999999643210     000            0      000       


Q ss_pred             CCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          208 EPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                       ........+..++..+++ +|+++||+++            .|+.++|.+|++
T Consensus       130 -~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~i~~  170 (171)
T cd00157         130 -KEPITPEEGEKLAKEIGAIGYMECSALTQ------------EGVKEVFEEAIR  170 (171)
T ss_pred             -CCccCHHHHHHHHHHhCCeEEEEeecCCC------------CCHHHHHHHHhh
Confidence             000112337788888888 8999999999            999999999875

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

>cd04149 Arf6 Arf6 subfamily

Probab=99.93  E-value=1.2e-25  Score=191.03  Aligned_cols=152  Identities=20%  Similarity=0.171  Sum_probs=119.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +.+||+++|++|||||||+++|..+.+. .+.+|.+..+....  .  ..+.+.+|||+|++++..++..+++.+|++|+
T Consensus         8 ~~~kv~i~G~~~~GKTsli~~l~~~~~~-~~~~t~g~~~~~~~--~--~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~   82 (168)
T cd04149           8 KEMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVGFNVETVT--Y--KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIF   82 (168)
T ss_pred             CccEEEEECcCCCCHHHHHHHHccCCCc-cccCCcccceEEEE--E--CCEEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence            4589999999999999999999988875 45677776654322  2  35789999999999999988899999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |||++++.+|+.+..|+..+...   ...|+++||||+|+.....     ..+                           
T Consensus        83 v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~-----~~~---------------------------  130 (168)
T cd04149          83 VVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPDAMK-----PHE---------------------------  130 (168)
T ss_pred             EEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCccCCC-----HHH---------------------------
Confidence            99999999999998888766432   3458999999999953211     011                           


Q ss_pred             CCCCCcHHHHHHHHHHHH-----HcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          205 GDEEPSWEIRRSCLEWCT-----EHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~-----~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                                  +..++.     ...+.++++||++|            .|++++|++|.+
T Consensus       131 ------------i~~~~~~~~~~~~~~~~~~~SAk~g------------~gv~~~~~~l~~  167 (168)
T cd04149         131 ------------IQEKLGLTRIRDRNWYVQPSCATSG------------DGLYEGLTWLSS  167 (168)
T ss_pred             ------------HHHHcCCCccCCCcEEEEEeeCCCC------------CChHHHHHHHhc
Confidence                        223221     12357899999999            999999999975

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

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

Probab=99.93  E-value=1.5e-25  Score=191.54  Aligned_cols=159  Identities=20%  Similarity=0.204  Sum_probs=120.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..+||+++|++|||||||+++|..+.+. .+.+|.+..+....  .  ..+.+.+|||+|++.+..++..|+++++++|+
T Consensus        12 ~~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~~~~--~--~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~   86 (175)
T smart00177       12 KEMRILMVGLDAAGKTTILYKLKLGESV-TTIPTIGFNVETVT--Y--KNISFTVWDVGGQDKIRPLWRHYYTNTQGLIF   86 (175)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhcCCCC-CcCCccccceEEEE--E--CCEEEEEEECCCChhhHHHHHHHhCCCCEEEE
Confidence            3589999999999999999999888874 46678776654333  2  35789999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |||++++.+|+.+..|+..+...   ...|++|||||+|+..... ..+..+.+                          
T Consensus        87 v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~-~~~i~~~~--------------------------  139 (175)
T smart00177       87 VVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDAMK-AAEITEKL--------------------------  139 (175)
T ss_pred             EEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccCCC-HHHHHHHh--------------------------
Confidence            99999999999999888777433   2348999999999953211 00000111                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                  ....+....+.++++||++|            .|+.++|++|.+++
T Consensus       140 ------------~~~~~~~~~~~~~~~Sa~~g------------~gv~e~~~~l~~~~  173 (175)
T smart00177      140 ------------GLHSIRDRNWYIQPTCATSG------------DGLYEGLTWLSNNL  173 (175)
T ss_pred             ------------CccccCCCcEEEEEeeCCCC------------CCHHHHHHHHHHHh
Confidence                        00111222345778999999            99999999998764

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).

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.93  E-value=3.6e-25  Score=190.64  Aligned_cols=113  Identities=19%  Similarity=0.232  Sum_probs=94.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||++++..+.+. .+.+|.+..+..  +.  ...+.+.+||++|++.|+.++..+++++|++|+|
T Consensus        17 ~~ki~ivG~~~~GKTsl~~~l~~~~~~-~~~pt~g~~~~~--~~--~~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI~V   91 (181)
T PLN00223         17 EMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVET--VE--YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFV   91 (181)
T ss_pred             ccEEEEECCCCCCHHHHHHHHccCCCc-cccCCcceeEEE--EE--ECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEE
Confidence            479999999999999999999988875 466787766543  22  2357899999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLP  166 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~  166 (289)
                      ||++++++|+.+..|+..+...   ...|++|||||+|+..
T Consensus        92 ~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~  132 (181)
T PLN00223         92 VDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN  132 (181)
T ss_pred             EeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCC
Confidence            9999999999998887766432   3458999999999953

>cd04158 ARD1 ARD1 subfamily

Probab=99.93  E-value=1.1e-25  Score=190.92  Aligned_cols=157  Identities=18%  Similarity=0.141  Sum_probs=123.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEe
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFN  130 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~D  130 (289)
                      ||+++|++|||||||+++|.+..+.. +.+|.+..+...  .  ...+.+.+|||||++.+...+..+++++|++|+|||
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~~-~~~T~~~~~~~~--~--~~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D   75 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFMQ-PIPTIGFNVETV--E--YKNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVD   75 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCceeEEEE--E--ECCEEEEEEECCCChhcchHHHHHhccCCEEEEEEe
Confidence            68999999999999999999987754 667777665432  2  235789999999999998888889999999999999


Q ss_pred             CCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          131 LNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       131 v~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      ++++++|+.+..|+..+...   ...|+++||||+|+....  ..+.                                 
T Consensus        76 ~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~---------------------------------  120 (169)
T cd04158          76 SSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAGAL--SVEE---------------------------------  120 (169)
T ss_pred             CCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCcccCC--CHHH---------------------------------
Confidence            99999999999999888543   235899999999995321  0011                                 


Q ss_pred             CCcHHHHHHHHHHHHHc------CCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCccc
Q 040295          208 EPSWEIRRSCLEWCTEH------RIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVL  268 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~------~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~  268 (289)
                               +..++...      .+.+++|||++|            .||+++|++|++.+.++-.+
T Consensus       121 ---------~~~~~~~~~~~~~~~~~~~~~Sa~~g------------~gv~~~f~~l~~~~~~~~~~  166 (169)
T cd04158         121 ---------MTELLSLHKLCCGRSWYIQGCDARSG------------MGLYEGLDWLSRQLVAAGVL  166 (169)
T ss_pred             ---------HHHHhCCccccCCCcEEEEeCcCCCC------------CCHHHHHHHHHHHHhhcccc
Confidence                     22332211      236889999999            99999999999988777544

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

>cd01893 Miro1 Miro1 subfamily

Probab=99.93  E-value=9e-25  Score=184.32  Aligned_cols=161  Identities=17%  Similarity=0.267  Sum_probs=121.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+|+|++|||||||+++|.++.|...+..+... + .......+..+++.+|||+|++.+...+..+++.+|++++||
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~~~~~~~-~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~   78 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFPENVPRVLPE-I-TIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVY   78 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCccCCCcccc-e-EeeeeecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEE
Confidence            48999999999999999999999987654443322 1 233333455688999999999888776677789999999999


Q ss_pred             eCCCHhhHHHHH-HHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALK-HWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~-~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |++++.+|+.+. .|+..++.... .|+++||||+|+.+.....                                    
T Consensus        79 d~~~~~s~~~~~~~~~~~i~~~~~~~pviiv~nK~Dl~~~~~~~------------------------------------  122 (166)
T cd01893          79 SVDRPSTLERIRTKWLPLIRRLGVKVPIILVGNKSDLRDGSSQA------------------------------------  122 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhcccccchh------------------------------------
Confidence            999999999986 68888876533 4999999999996532110                                    


Q ss_pred             CCcHHHHHHHHHHHHHc-CC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          208 EPSWEIRRSCLEWCTEH-RI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~-~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                          ........++..+ ++ ++++|||+++            .|++++|..+.+.++.
T Consensus       123 ----~~~~~~~~~~~~~~~~~~~~e~Sa~~~------------~~v~~lf~~~~~~~~~  165 (166)
T cd01893         123 ----GLEEEMLPIMNEFREIETCVECSAKTL------------INVSEVFYYAQKAVLH  165 (166)
T ss_pred             ----HHHHHHHHHHHHHhcccEEEEeccccc------------cCHHHHHHHHHHHhcC
Confidence                0001123333333 33 7999999999            9999999999887654

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.

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.93  E-value=4.8e-25  Score=191.94  Aligned_cols=163  Identities=17%  Similarity=0.240  Sum_probs=127.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEe
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFN  130 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~D  130 (289)
                      ||+++|++|||||||+++|+++.+...+.++... +....+...+..+.+.+||++|++.|..++..+++.+|++|+|||
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d   79 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVEE-MHRKEYEVGGVSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVYA   79 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchhh-heeEEEEECCEEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEEE
Confidence            7999999999999999999999988777777653 333344555667889999999999998888889999999999999


Q ss_pred             CCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          131 LNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       131 v~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      ++++.+|+.+..|+..+....   ..|+|+|+||+|+.+..       +.+                          .. 
T Consensus        80 ~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~-------~~v--------------------------~~-  125 (198)
T cd04147          80 VDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEE-------RQV--------------------------PA-  125 (198)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEcccccccc-------ccc--------------------------cH-
Confidence            999999999999998876542   34999999999996421       111                          00 


Q ss_pred             CCcHHHHHHHHHHH-HHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcc
Q 040295          208 EPSWEIRRSCLEWC-TEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMV  267 (289)
Q Consensus       208 ~~~~~~~~~~~~~~-~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~  267 (289)
                             ..+.+.. ...+++|+++||++|            .|+.++|++|++.+.....
T Consensus       126 -------~~~~~~~~~~~~~~~~~~Sa~~g------------~gv~~l~~~l~~~~~~~~~  167 (198)
T cd04147         126 -------KDALSTVELDWNCGFVETSAKDN------------ENVLEVFKELLRQANLPYN  167 (198)
T ss_pred             -------HHHHHHHHhhcCCcEEEecCCCC------------CCHHHHHHHHHHHhhcccc
Confidence                   0022222 245678999999999            9999999999987754433

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.

>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]

Probab=99.93  E-value=6.1e-26  Score=196.81  Aligned_cols=177  Identities=18%  Similarity=0.272  Sum_probs=146.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeec-CcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINT-KYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~-~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ..+|++|+|+.+||||+|+..+..+.|+..|.+|.-..| ...+.. ++..+.+.+|||+||+.|..++..-+.++|.++
T Consensus         3 ~~~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVFdny-s~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvfl   81 (198)
T KOG0393|consen    3 RRIKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVFDNY-SANVTVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVFL   81 (198)
T ss_pred             eeeEEEEECCCCcCceEEEEEeccCcCcccccCeEEccc-eEEEEecCCCEEEEeeeecCCCcccccccccCCCCCCEEE
Confidence            358999999999999999999999999999999998554 455566 588999999999999999998877899999999


Q ss_pred             EEEeCCCHhhHHHHH-HHHHHhhhcCCC-eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          127 MVFNLNDLSTLDALK-HWVPSIDLQKFE-ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~-~~~~~i~~~~~~-~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      +||++.++.||+++. +|+++++++.+. |+|+||+|.||+...    ...+.+   .               .++.+..
T Consensus        82 ~cfsv~~p~S~~nv~~kW~pEi~~~cp~vpiiLVGtk~DLr~d~----~~~~~l---~---------------~~~~~~V  139 (198)
T KOG0393|consen   82 LCFSVVSPESFENVKSKWIPEIKHHCPNVPIILVGTKADLRDDP----STLEKL---Q---------------RQGLEPV  139 (198)
T ss_pred             EEEEcCChhhHHHHHhhhhHHHHhhCCCCCEEEEeehHHhhhCH----HHHHHH---H---------------hccCCcc
Confidence            999999999999987 899999999866 999999999998432    122222   0               1122222


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMV  267 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~  267 (289)
                      +.+        ++..++++.|. .|+||||++.            .|+.++|+..+...+...+
T Consensus       140 t~~--------~g~~lA~~iga~~y~EcSa~tq------------~~v~~vF~~a~~~~l~~~~  183 (198)
T KOG0393|consen  140 TYE--------QGLELAKEIGAVKYLECSALTQ------------KGVKEVFDEAIRAALRPPQ  183 (198)
T ss_pred             cHH--------HHHHHHHHhCcceeeeehhhhh------------CCcHHHHHHHHHHHhcccc
Confidence            333        38999999994 7999999999            9999999999998887754

>cd04154 Arl2 Arl2 subfamily

Probab=99.93  E-value=7.8e-25  Score=185.90  Aligned_cols=152  Identities=21%  Similarity=0.215  Sum_probs=119.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..+||+++|++|||||||+++|.+..+ ..+.+|.+.....+.+  +  .+.+.+|||||++.++.++..+++.+|++|+
T Consensus        13 ~~~kv~ivG~~~~GKTsL~~~l~~~~~-~~~~~t~g~~~~~~~~--~--~~~l~l~D~~G~~~~~~~~~~~~~~~d~~i~   87 (173)
T cd04154          13 REMRILILGLDNAGKTTILKKLLGEDI-DTISPTLGFQIKTLEY--E--GYKLNIWDVGGQKTLRPYWRNYFESTDALIW   87 (173)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCC-CCcCCccccceEEEEE--C--CEEEEEEECCCCHHHHHHHHHHhCCCCEEEE
Confidence            458999999999999999999998865 4566777754444333  2  4679999999999998888889999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |||++++.+|+.+..|+..+...   ...|+++|+||+|+.....     ..+                           
T Consensus        88 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~-----~~~---------------------------  135 (173)
T cd04154          88 VVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGALS-----EEE---------------------------  135 (173)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccCCC-----HHH---------------------------
Confidence            99999999999998888776432   3449999999999954210     011                           


Q ss_pred             CCCCCcHHHHHHHHHHH-----HHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          205 GDEEPSWEIRRSCLEWC-----TEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~-----~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                                  +..++     ...+++++++||++|            .|++++|++|+.
T Consensus       136 ------------~~~~~~~~~~~~~~~~~~~~Sa~~g------------~gi~~l~~~l~~  172 (173)
T cd04154         136 ------------IREALELDKISSHHWRIQPCSAVTG------------EGLLQGIDWLVD  172 (173)
T ss_pred             ------------HHHHhCccccCCCceEEEeccCCCC------------cCHHHHHHHHhc
Confidence                        22332     234678999999999            999999999864

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.

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

Probab=99.93  E-value=2.3e-24  Score=183.59  Aligned_cols=161  Identities=17%  Similarity=0.205  Sum_probs=129.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      .||+|+|++|||||||+++|....+...+.++.+..+. ..+...+..+.+.+|||||++.|..++..++..++++|+||
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTFS-KIIRYKGQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILVY   80 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccCcchhhhEE-EEEEECCEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEEE
Confidence            58999999999999999999999887767677665442 33344555678999999999999988888999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      |+++..+|+.+..|+..+....   ..|+|+|+||+|+....        .+                          ..
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--------~~--------------------------~~  126 (180)
T cd04137          81 SVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQR--------QV--------------------------ST  126 (180)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcC--------cc--------------------------CH
Confidence            9999999999999888775532   33899999999995321        11                          00


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                              .....++...+++++++||+++            .|+.++|.+|.+++...
T Consensus       127 --------~~~~~~~~~~~~~~~~~Sa~~~------------~gv~~l~~~l~~~~~~~  165 (180)
T cd04137         127 --------EEGKELAESWGAAFLESSAREN------------ENVEEAFELLIEEIEKV  165 (180)
T ss_pred             --------HHHHHHHHHcCCeEEEEeCCCC------------CCHHHHHHHHHHHHHHh
Confidence                    1145666777889999999999            99999999999877544

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.92  E-value=9.7e-25  Score=181.82  Aligned_cols=156  Identities=17%  Similarity=0.200  Sum_probs=118.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEe
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFN  130 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~D  130 (289)
                      ||+|+|++|||||||+++|.++.+.. ..+|.+..+.....   ...+.+.+|||+|++.+...+..+++.+|++|+|||
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~-~~~t~~~~~~~~~~---~~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D   76 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVT-TIPTVGFNVEMLQL---EKHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVD   76 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCccc-ccCccCcceEEEEe---CCceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEE
Confidence            68999999999999999999998754 45666655433332   234689999999999998888888999999999999


Q ss_pred             CCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          131 LNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       131 v~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      ++++.+|..+..|+..+...   ...|+++|+||+|+.....     .+++.                         .. 
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~-----~~~i~-------------------------~~-  125 (160)
T cd04156          77 SSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGALT-----AEEIT-------------------------RR-  125 (160)
T ss_pred             CCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccccCcC-----HHHHH-------------------------HH-
Confidence            99999999999888877443   3459999999999953211     11110                         00 


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                             -....++...++++++|||++|            .|++++|++|.+
T Consensus       126 -------~~~~~~~~~~~~~~~~~Sa~~~------------~gv~~~~~~i~~  159 (160)
T cd04156         126 -------FKLKKYCSDRDWYVQPCSAVTG------------EGLAEAFRKLAS  159 (160)
T ss_pred             -------cCCcccCCCCcEEEEecccccC------------CChHHHHHHHhc
Confidence                   0012344445668999999999            999999999864

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

>cd04157 Arl6 Arl6 subfamily

Probab=99.92  E-value=3.4e-24  Score=178.42  Aligned_cols=112  Identities=18%  Similarity=0.186  Sum_probs=92.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCC-CCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNF-EDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~-~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +|+++|++|||||||+++|.+..+ ...+.+|.+......  .  ...+.+.+|||||++.|..++..+++.++++|+||
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~~~~--~--~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~   76 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNVESF--E--KGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVI   76 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccccceEEE--E--ECCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEE
Confidence            589999999999999999998763 456777877554322  2  23578999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhc-----CCCeEEEEeeCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQ-----KFEILLCIGNKVDLLP  166 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~-----~~~~iivvgnK~Dl~~  166 (289)
                      |++++.+|..+..|+..+...     ...|+++|+||+|+..
T Consensus        77 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~  118 (162)
T cd04157          77 DSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPD  118 (162)
T ss_pred             eCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccC
Confidence            999999999998888877442     2349999999999964

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

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.92  E-value=2.4e-24  Score=183.53  Aligned_cols=156  Identities=21%  Similarity=0.222  Sum_probs=119.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||++++..+.+.. +.+|.+..+.....  .  .+.+.+|||||++.|...+..+++++|++|+|
T Consensus        15 ~~kv~~~G~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~~~~~--~--~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V   89 (174)
T cd04153          15 EYKVIIVGLDNAGKTTILYQFLLGEVVH-TSPTIGSNVEEIVY--K--NIRFLMWDIGGQESLRSSWNTYYTNTDAVILV   89 (174)
T ss_pred             ccEEEEECCCCCCHHHHHHHHccCCCCC-cCCccccceEEEEE--C--CeEEEEEECCCCHHHHHHHHHHhhcCCEEEEE
Confidence            4799999999999999999999988764 56777766543332  2  46899999999999988888889999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      ||++++++|..+..|+..+...   ...|+++|+||+|+..... ..+..+.+                           
T Consensus        90 ~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~~~~-~~~i~~~l---------------------------  141 (174)
T cd04153          90 IDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKGAMT-PAEISESL---------------------------  141 (174)
T ss_pred             EECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCCCCC-HHHHHHHh---------------------------
Confidence            9999999999888877766433   2359999999999854211 00111111                           


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                                 ....+...++++++|||++|            .|++++|++|.+
T Consensus       142 -----------~~~~~~~~~~~~~~~SA~~g------------~gi~e~~~~l~~  173 (174)
T cd04153         142 -----------GLTSIRDHTWHIQGCCALTG------------EGLPEGLDWIAS  173 (174)
T ss_pred             -----------CcccccCCceEEEecccCCC------------CCHHHHHHHHhc
Confidence                       11112335678999999999            999999999975

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.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.92  E-value=4.7e-24  Score=180.77  Aligned_cols=161  Identities=16%  Similarity=0.089  Sum_probs=120.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEe
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFN  130 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~D  130 (289)
                      +|+++|++|||||||+++|.+. +...+.+|.+.....  +...  .+.+.+||++|++.++.++..|+++++++|+|||
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~-~~~~~~~t~g~~~~~--~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D   75 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGE-IPKKVAPTVGFTPTK--LRLD--KYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVD   75 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCC-CCccccCcccceEEE--EEEC--CEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEE
Confidence            4899999999999999999877 666778888865443  3333  4679999999999999999999999999999999


Q ss_pred             CCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          131 LNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       131 v~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      ++++.+|+.+..|+..+...   ...|+++|+||+|+....... +....+                             
T Consensus        76 ~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~-~i~~~~-----------------------------  125 (167)
T cd04161          76 SSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNALLGA-DVIEYL-----------------------------  125 (167)
T ss_pred             CCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCCCHH-HHHHhc-----------------------------
Confidence            99999999999999988654   345999999999995432110 111111                             


Q ss_pred             CCcHHHHHHHHHHHHHcC--CeEEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          208 EPSWEIRRSCLEWCTEHR--IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~--~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                              ....++...+  +.+++|||++|      .-+-...|+.+.|+||++
T Consensus       126 --------~l~~~~~~~~~~~~~~~~Sa~~g------~~~~~~~g~~~~~~wl~~  166 (167)
T cd04161         126 --------SLEKLVNENKSLCHIEPCSAIEG------LGKKIDPSIVEGLRWLLA  166 (167)
T ss_pred             --------CcccccCCCCceEEEEEeEceeC------CCCccccCHHHHHHHHhc
Confidence                    0334454443  46778999995      000011689999999975

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.

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

Probab=99.91  E-value=1.5e-23  Score=174.50  Aligned_cols=153  Identities=18%  Similarity=0.127  Sum_probs=118.1

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEe
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFN  130 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~D  130 (289)
                      ||+++|++|||||||++++.+..+ ..+.+|.+.......+  .  .+.+.+||+||++.+...+..+++.+|++++|||
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~-~~~~~t~~~~~~~~~~--~--~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D   75 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEV-VTTIPTIGFNVETVEY--K--NVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVD   75 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCC-CCCCCCcCcceEEEEE--C--CEEEEEEECCCChhhHHHHHHHhccCCEEEEEEE
Confidence            799999999999999999999884 4556677655543332  2  4679999999999999999899999999999999


Q ss_pred             CCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          131 LNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       131 v~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      ++++++|..+..|+..+...   ...|+++|+||+|+.....     ..++                             
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~~-----~~~~-----------------------------  121 (158)
T cd00878          76 SSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGALS-----VSEL-----------------------------  121 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCccccC-----HHHH-----------------------------
Confidence            99999999999888877553   2349999999999964321     1111                             


Q ss_pred             CCcHHHHHHHHHH-HHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          208 EPSWEIRRSCLEW-CTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       208 ~~~~~~~~~~~~~-~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                            .+..... +....++++++||++|            .|++++|++|..
T Consensus       122 ------~~~~~~~~~~~~~~~~~~~Sa~~~------------~gv~~~~~~l~~  157 (158)
T cd00878         122 ------IEKLGLEKILGRRWHIQPCSAVTG------------DGLDEGLDWLLQ  157 (158)
T ss_pred             ------HHhhChhhccCCcEEEEEeeCCCC------------CCHHHHHHHHhh
Confidence                  0011111 2234568999999999            999999999875

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

>cd04151 Arl1 Arl1 subfamily

Probab=99.91  E-value=1.1e-23  Score=175.80  Aligned_cols=153  Identities=19%  Similarity=0.176  Sum_probs=113.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEe
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFN  130 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~D  130 (289)
                      ||+++|+++||||||++++..+.+. .+.+|.+..+...  ..  ..+.+.+|||||++.|+.++..+++.++++|+|||
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~-~~~~t~~~~~~~~--~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d   75 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVV-TTIPTIGFNVETV--TY--KNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVD   75 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCc-CcCCccCcCeEEE--EE--CCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEE
Confidence            6999999999999999999888775 3456666554432  22  34689999999999999988899999999999999


Q ss_pred             CCCHhhHHHHHHHHHHh-hhc--CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          131 LNDLSTLDALKHWVPSI-DLQ--KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       131 v~~~~S~~~l~~~~~~i-~~~--~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      ++++.++.....|+..+ +..  ...|+++|+||+|+.....     ..++                             
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~-----~~~i-----------------------------  121 (158)
T cd04151          76 STDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGALS-----EAEI-----------------------------  121 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCCCC-----HHHH-----------------------------
Confidence            99999998777666544 322  2459999999999953211     1111                             


Q ss_pred             CCcHHHHHH-HHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          208 EPSWEIRRS-CLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       208 ~~~~~~~~~-~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                            .+. ........+++++++||+++            .|++++|++|++
T Consensus       122 ------~~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~  157 (158)
T cd04151         122 ------SEKLGLSELKDRTWSIFKTSAIKG------------EGLDEGMDWLVN  157 (158)
T ss_pred             ------HHHhCccccCCCcEEEEEeeccCC------------CCHHHHHHHHhc
Confidence                  000 00111223457999999999            999999999975

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.

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.91  E-value=1.7e-25  Score=189.01  Aligned_cols=171  Identities=16%  Similarity=0.217  Sum_probs=150.9

Q ss_pred             cccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCcc
Q 040295           44 ASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLT  123 (289)
Q Consensus        44 ~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad  123 (289)
                      .+++..||++|+|..+|||+|+|+||+.+-|...+..|++.++....+......+.+.+|||+||+.|.++.+.|+++|.
T Consensus        15 ~d~e~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaItkAyyrgaq   94 (246)
T KOG4252|consen   15 TDYERAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAITKAYYRGAQ   94 (246)
T ss_pred             hhhhhhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHHHHHhcccc
Confidence            35677799999999999999999999999999999999999987777777777778899999999999999999999999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHhhhcCCC-eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          124 ALVMVFNLNDLSTLDALKHWVPSIDLQKFE-ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       124 ~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~-~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      +.|+||+.+|..||+....|+..+...-.. |.++|-||+||+.+.        ++                        
T Consensus        95 a~vLVFSTTDr~SFea~~~w~~kv~~e~~~IPtV~vqNKIDlveds--------~~------------------------  142 (246)
T KOG4252|consen   95 ASVLVFSTTDRYSFEATLEWYNKVQKETERIPTVFVQNKIDLVEDS--------QM------------------------  142 (246)
T ss_pred             ceEEEEecccHHHHHHHHHHHHHHHHHhccCCeEEeeccchhhHhh--------hc------------------------
Confidence            999999999999999999999999887555 899999999997532        22                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCccc
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVL  268 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~  268 (289)
                        ..++        ++.+++..++.++-+|++..            .||..+|.+|++.+...+..
T Consensus       143 --~~~e--------vE~lak~l~~RlyRtSvked------------~NV~~vF~YLaeK~~q~~kq  186 (246)
T KOG4252|consen  143 --DKGE--------VEGLAKKLHKRLYRTSVKED------------FNVMHVFAYLAEKLTQQKKQ  186 (246)
T ss_pred             --chHH--------HHHHHHHhhhhhhhhhhhhh------------hhhHHHHHHHHHHHHHHHHH
Confidence              2222        78889999999999999999            99999999999888766644

>PLN00023 GTP-binding protein; Provisional

Probab=99.91  E-value=2e-23  Score=194.01  Aligned_cols=122  Identities=20%  Similarity=0.277  Sum_probs=105.7

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecC-------------cceEEEEEEEcCCchhh
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTK-------------YYTADVSLWMAHLHEEF  111 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~-------------~~~~~l~I~Dt~G~e~~  111 (289)
                      .....+||+|+|+.|||||||+++|.++.|...+.+|++..+....+...             +..+.++||||+|++.|
T Consensus        17 ~~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqErf   96 (334)
T PLN00023         17 PPCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHERY   96 (334)
T ss_pred             CCccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCChhh
Confidence            45566999999999999999999999999988888999987754433321             35688999999999999


Q ss_pred             hccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcC--------------CCeEEEEeeCCCCCC
Q 040295          112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQK--------------FEILLCIGNKVDLLP  166 (289)
Q Consensus       112 ~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~--------------~~~iivvgnK~Dl~~  166 (289)
                      +.++..|+++++++|+|||++++.+|+.+..|+..+....              ..|++|||||+||..
T Consensus        97 rsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~  165 (334)
T PLN00023         97 KDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAP  165 (334)
T ss_pred             hhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECccccc
Confidence            9999999999999999999999999999999999997652              238999999999954

>cd00879 Sar1 Sar1 subfamily

Probab=99.91  E-value=1.8e-23  Score=179.73  Aligned_cols=114  Identities=21%  Similarity=0.192  Sum_probs=93.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..+||+++|++|||||||++++.++.+. .+.+|.+.......+  .  ...+.+||+||++.+...+..++++++++|+
T Consensus        18 ~~~ki~ilG~~~~GKStLi~~l~~~~~~-~~~~T~~~~~~~i~~--~--~~~~~l~D~~G~~~~~~~~~~~~~~ad~iil   92 (190)
T cd00879          18 KEAKILFLGLDNAGKTTLLHMLKDDRLA-QHVPTLHPTSEELTI--G--NIKFKTFDLGGHEQARRLWKDYFPEVDGIVF   92 (190)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccCcceEEEEE--C--CEEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence            4589999999999999999999988874 466666654433332  3  3578999999999998888889999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLP  166 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~  166 (289)
                      |+|++++.+|+....|+..+...   ...|+++|+||+|+..
T Consensus        93 V~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~  134 (190)
T cd00879          93 LVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPG  134 (190)
T ss_pred             EEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCC
Confidence            99999999999888888877543   3359999999999954

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.

>PTZ00099 rab6; Provisional

Probab=99.90  E-value=6.8e-23  Score=176.19  Aligned_cols=143  Identities=17%  Similarity=0.205  Sum_probs=119.8

Q ss_pred             CCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcC
Q 040295           72 VNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQK  151 (289)
Q Consensus        72 ~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~  151 (289)
                      +.|.+.+.+|++.++....+..++..+.+.||||+|+++|..++..++++||++|+|||++++.+|+.+..|+..+....
T Consensus         3 ~~F~~~~~~Tig~~~~~~~~~~~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~   82 (176)
T PTZ00099          3 DTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNER   82 (176)
T ss_pred             CCcCCCCCCccceEEEEEEEEECCEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhc
Confidence            46777889999999887777777778999999999999999999999999999999999999999999999999886553


Q ss_pred             --CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEE
Q 040295          152 --FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYI  229 (289)
Q Consensus       152 --~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i  229 (289)
                        ..|+++||||+||...        +.+                          +.+        .+..++..+++.|+
T Consensus        83 ~~~~piilVgNK~DL~~~--------~~v--------------------------~~~--------e~~~~~~~~~~~~~  120 (176)
T PTZ00099         83 GKDVIIALVGNKTDLGDL--------RKV--------------------------TYE--------EGMQKAQEYNTMFH  120 (176)
T ss_pred             CCCCeEEEEEECcccccc--------cCC--------------------------CHH--------HHHHHHHHcCCEEE
Confidence              2388999999999532        112                          111        26778888899999


Q ss_pred             EeecCCCcccccccCCCCchhHHHHHHHHHHhcccCccc
Q 040295          230 EACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVL  268 (289)
Q Consensus       230 e~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~  268 (289)
                      ||||++|            .||+++|++|++.+......
T Consensus       121 e~SAk~g------------~nV~~lf~~l~~~l~~~~~~  147 (176)
T PTZ00099        121 ETSAKAG------------HNIKVLFKKIAAKLPNLDNS  147 (176)
T ss_pred             EEECCCC------------CCHHHHHHHHHHHHHhcccc
Confidence            9999999            99999999999988554433

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.90  E-value=3.6e-23  Score=173.48  Aligned_cols=158  Identities=19%  Similarity=0.167  Sum_probs=115.1

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCC------CCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNF------EDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~------~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      +|+++|++|||||||++++.+...      ...+.+|.+..+....+  +  ...+.+|||||++.+...+..+++.+++
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~~~~~--~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~   76 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIGTIEV--G--NARLKFWDLGGQESLRSLWDKYYAECHA   76 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceEEEEE--C--CEEEEEEECCCChhhHHHHHHHhCCCCE
Confidence            589999999999999999976432      23345566655543333  2  4679999999999999888889999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      +|+|+|.++++++..+..|+..+.+.   ...|+++|+||+|+......  +..+...                      
T Consensus        77 ~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~~~~--~~~~~~~----------------------  132 (167)
T cd04160          77 IIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDALSV--EEIKEVF----------------------  132 (167)
T ss_pred             EEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccCCCH--HHHHHHh----------------------
Confidence            99999999999999999888877553   23489999999998543110  1111110                      


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                         .  .        ..+.....+++++++||++|            +|+++++++|+++
T Consensus       133 ---~--~--------~~~~~~~~~~~~~~~Sa~~g------------~gv~e~~~~l~~~  167 (167)
T cd04160         133 ---Q--D--------KAEEIGRRDCLVLPVSALEG------------TGVREGIEWLVER  167 (167)
T ss_pred             ---c--c--------ccccccCCceEEEEeeCCCC------------cCHHHHHHHHhcC
Confidence               0  0        00001123468999999999            9999999999763

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.

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.89  E-value=1.6e-22  Score=166.03  Aligned_cols=155  Identities=19%  Similarity=0.224  Sum_probs=119.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEe
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFN  130 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~D  130 (289)
                      .|+|+|++|||||||++++.+.++...+.+|.+..+....  ..  .+.+.+||++|++.|...+..+++.+|++++|+|
T Consensus         1 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~--~~--~~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d   76 (159)
T cd04159           1 EITLVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMRKVT--KG--NVTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVD   76 (159)
T ss_pred             CEEEEcCCCCCHHHHHHHHccCCCCcCccCCCCcceEEEE--EC--CEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEE
Confidence            3899999999999999999999998888888887665432  22  3679999999999999888899999999999999


Q ss_pred             CCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          131 LNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       131 v~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      ++++.++..+..|+..+...   ...|+++|+||+|+....... +....+                             
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~-~~~~~~-----------------------------  126 (159)
T cd04159          77 AADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGALSVD-ELIEQM-----------------------------  126 (159)
T ss_pred             CCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCcCHH-HHHHHh-----------------------------
Confidence            99999999888777766432   234899999999986431100 000000                             


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                               .........++++++||+++            .|+.+++++|++
T Consensus       127 ---------~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~  158 (159)
T cd04159         127 ---------NLKSITDREVSCYSISCKEK------------TNIDIVLDWLIK  158 (159)
T ss_pred             ---------CcccccCCceEEEEEEeccC------------CChHHHHHHHhh
Confidence                     00111223467999999999            999999999975

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.

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

Probab=99.89  E-value=2.2e-22  Score=173.34  Aligned_cols=114  Identities=18%  Similarity=0.187  Sum_probs=92.4

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||+++|.+|||||||++++.++.+. .+.+|.+.......+  .  .+++.+||++|++.++.++..+++.++++|
T Consensus        15 ~~~~~i~ivG~~~~GKTsli~~l~~~~~~-~~~~t~~~~~~~~~~--~--~~~~~~~D~~G~~~~~~~~~~~~~~ad~ii   89 (184)
T smart00178       15 NKHAKILFLGLDNAGKTTLLHMLKNDRLA-QHQPTQHPTSEELAI--G--NIKFTTFDLGGHQQARRLWKDYFPEVNGIV   89 (184)
T ss_pred             cccCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccccceEEEEE--C--CEEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            34589999999999999999999988764 344555544333222  2  367899999999999988999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLL  165 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~  165 (289)
                      +|+|++++.+|.....|+..+...   ...|+++|+||+|+.
T Consensus        90 ~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~  131 (184)
T smart00178       90 YLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAP  131 (184)
T ss_pred             EEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCcccc
Confidence            999999999999998888776432   345899999999985

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

>cd01890 LepA LepA subfamily

Probab=99.88  E-value=9.1e-22  Score=166.99  Aligned_cols=154  Identities=18%  Similarity=0.174  Sum_probs=111.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCC-------CCCCCCCCc------ceEEeeEEee--c---CcceEEEEEEEcCCchhhh
Q 040295           51 GILIIGSSNVGKRTILSRLLSVN-------FEDASDSSS------ELLVNGWTIN--T---KYYTADVSLWMAHLHEEFS  112 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~-------~~~~~~~t~------~~~~~~~~i~--~---~~~~~~l~I~Dt~G~e~~~  112 (289)
                      +|+++|+++||||||+++|++..       +...+.++.      +..+....+.  .   ++..+.+.+|||||++.|.
T Consensus         2 ni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   81 (179)
T cd01890           2 NFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDFS   81 (179)
T ss_pred             cEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhhH
Confidence            58999999999999999998742       212222222      2233222111  1   4456789999999999998


Q ss_pred             ccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccC
Q 040295          113 IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQ  192 (289)
Q Consensus       113 ~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~  192 (289)
                      .....+++.+|++|+|||+++..+++....|.....  ...|+++|+||+|+....     . ...              
T Consensus        82 ~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~~--~~~~iiiv~NK~Dl~~~~-----~-~~~--------------  139 (179)
T cd01890          82 YEVSRSLAACEGALLLVDATQGVEAQTLANFYLALE--NNLEIIPVINKIDLPSAD-----P-ERV--------------  139 (179)
T ss_pred             HHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHHH--cCCCEEEEEECCCCCcCC-----H-HHH--------------
Confidence            888889999999999999998877777776654332  234789999999984311     0 111              


Q ss_pred             CCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCC---eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          193 SGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRI---EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                              ..+++...++   +++++||++|            .|++++|++|.+.+
T Consensus       140 ------------------------~~~~~~~~~~~~~~~~~~Sa~~g------------~gi~~l~~~l~~~~  176 (179)
T cd01890         140 ------------------------KQQIEDVLGLDPSEAILVSAKTG------------LGVEDLLEAIVERI  176 (179)
T ss_pred             ------------------------HHHHHHHhCCCcccEEEeeccCC------------CCHHHHHHHHHhhC
Confidence                                    3455555565   4899999999            99999999998865

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.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.88  E-value=1.9e-21  Score=170.60  Aligned_cols=175  Identities=19%  Similarity=0.226  Sum_probs=135.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+|+|++|||||||+++|..+.+...+.+|.+..+...........+++.+|||+|+++|+.++..|+.+++++++||
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~~   85 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIVY   85 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEEEEE
Confidence            89999999999999999999999999889999888887777666655888999999999999999999999999999999


Q ss_pred             eCCC-HhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          130 NLND-LSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       130 Dv~~-~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      |++. ..+++....|...+.....  .|+++||||+|+...........+...                    .  ....
T Consensus        86 d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~--------------------~--~~~~  143 (219)
T COG1100          86 DSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEEILNQLN--------------------R--EVVL  143 (219)
T ss_pred             ecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccchhHHHHHHhhhh--------------------c--Ccch
Confidence            9998 6666777799999988873  499999999999764322211111110                    0  0000


Q ss_pred             CCCcHHHHHHHHHHHHHc---CCeEEEeecC--CCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          207 EEPSWEIRRSCLEWCTEH---RIEYIEACAS--NVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~---~~~~ie~Sa~--~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                      .        .....+...   ...++++|++  ++            .++.++|..+...+....
T Consensus       144 ~--------~~~~~~~~~~~~~~~~~~~s~~~~~~------------~~v~~~~~~~~~~~~~~~  188 (219)
T COG1100         144 L--------VLAPKAVLPEVANPALLETSAKSLTG------------PNVNELFKELLRKLLEEI  188 (219)
T ss_pred             h--------hhHhHHhhhhhcccceeEeecccCCC------------cCHHHHHHHHHHHHHHhh
Confidence            0        012222222   3348999999  98            999999999998886543

>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]

Probab=99.88  E-value=1.1e-21  Score=162.19  Aligned_cols=176  Identities=16%  Similarity=0.184  Sum_probs=141.3

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCC--CCCCCcceEEeeEEeecCcceEEEEEEEcCCchhh-hccccccccC
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFED--ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF-SIRSLPISDQ  121 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~--~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~-~~~~~~~~~~  121 (289)
                      .+.+.-||++||-.+||||+++.+++.++...  .+.+|+...|....-...+..-.+.+|||+|.... ..+.++|++-
T Consensus         5 kmGk~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiEDiY~~svet~rgarE~l~lyDTaGlq~~~~eLprhy~q~   84 (198)
T KOG3883|consen    5 KMGKVCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIEDIYVASVETDRGAREQLRLYDTAGLQGGQQELPRHYFQF   84 (198)
T ss_pred             hhCcceEEEEECCccccHHHHHHHHHhccCCCCCccccchhhheeEeeecCCChhheEEEeecccccCchhhhhHhHhcc
Confidence            34556899999999999999999999887543  46778877765544455666778999999997766 6677899999


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCC---eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcc
Q 040295          122 LTALVMVFNLNDLSTLDALKHWVPSIDLQKFE---ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISET  198 (289)
Q Consensus       122 ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~---~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~  198 (289)
                      +||+|+||+..+++||+.+..+...|.+.+.+   ||++.|||+|+...        +++                    
T Consensus        85 aDafVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p--------~~v--------------------  136 (198)
T KOG3883|consen   85 ADAFVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEP--------REV--------------------  136 (198)
T ss_pred             CceEEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccc--------hhc--------------------
Confidence            99999999999999999887666666555443   99999999999532        323                    


Q ss_pred             cCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcccccCCCCCCCC
Q 040295          199 EGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKITEPS  278 (289)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~~~~~~~~~  278 (289)
                            ..+        .|+.||....+..+|++|+++            ..+-+.|..|+.++.+.        +++++
T Consensus       137 ------d~d--------~A~~Wa~rEkvkl~eVta~dR------------~sL~epf~~l~~rl~~p--------qskS~  182 (198)
T KOG3883|consen  137 ------DMD--------VAQIWAKREKVKLWEVTAMDR------------PSLYEPFTYLASRLHQP--------QSKST  182 (198)
T ss_pred             ------CHH--------HHHHHHhhhheeEEEEEeccc------------hhhhhHHHHHHHhccCC--------ccccc
Confidence                  111        289999999999999999999            99999999999988776        45566


Q ss_pred             CCcc
Q 040295          279 LPVK  282 (289)
Q Consensus       279 ~~~~  282 (289)
                      +|-.
T Consensus       183 Fpl~  186 (198)
T KOG3883|consen  183 FPLS  186 (198)
T ss_pred             Ccch
Confidence            6655

>cd04171 SelB SelB subfamily

Probab=99.87  E-value=3e-21  Score=160.47  Aligned_cols=151  Identities=17%  Similarity=0.195  Sum_probs=102.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCC---CCCCCCC--CcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           51 GILIIGSSNVGKRTILSRLLSVN---FEDASDS--SSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~---~~~~~~~--t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      .|+++|++|||||||+++|.+..   +.....+  |....+....+..   ...+.+|||||++.|......+++++|++
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~---~~~~~~~DtpG~~~~~~~~~~~~~~ad~i   78 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPS---GKRLGFIDVPGHEKFIKNMLAGAGGIDLV   78 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecC---CcEEEEEECCChHHHHHHHHhhhhcCCEE
Confidence            58999999999999999998643   3322222  3333333333321   34799999999999976666778899999


Q ss_pred             EEEEeCCC---HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          126 VMVFNLND---LSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       126 IlV~Dv~~---~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      |+|+|+++   +++++.+.    .+...+.+|+++|+||+|+...     ......                        
T Consensus        79 i~V~d~~~~~~~~~~~~~~----~~~~~~~~~~ilv~NK~Dl~~~-----~~~~~~------------------------  125 (164)
T cd04171          79 LLVVAADEGIMPQTREHLE----ILELLGIKRGLVVLTKADLVDE-----DWLELV------------------------  125 (164)
T ss_pred             EEEEECCCCccHhHHHHHH----HHHHhCCCcEEEEEECccccCH-----HHHHHH------------------------
Confidence            99999987   55554443    1222233489999999999531     000111                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHH---cCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          203 LLGDEEPSWEIRRSCLEWCTE---HRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~---~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                                 .....+++..   .+.+++++||+++            .|++++|..|.+
T Consensus       126 -----------~~~~~~~~~~~~~~~~~~~~~Sa~~~------------~~v~~l~~~l~~  163 (164)
T cd04171         126 -----------EEEIRELLAGTFLADAPIFPVSAVTG------------EGIEELKEYLDE  163 (164)
T ss_pred             -----------HHHHHHHHHhcCcCCCcEEEEeCCCC------------cCHHHHHHHHhh
Confidence                       1123344433   4578999999999            999999998864

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

>cd04155 Arl3 Arl3 subfamily

Probab=99.87  E-value=4.7e-21  Score=161.73  Aligned_cols=114  Identities=20%  Similarity=0.220  Sum_probs=91.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..+||+|+|++|||||||++++.+..+. .+.+|.+..+.....  .  ...+.+||++|+..+...+..+++.++++++
T Consensus        13 ~~~~v~i~G~~g~GKStLl~~l~~~~~~-~~~~t~g~~~~~i~~--~--~~~~~~~D~~G~~~~~~~~~~~~~~~~~ii~   87 (173)
T cd04155          13 EEPRILILGLDNAGKTTILKQLASEDIS-HITPTQGFNIKTVQS--D--GFKLNVWDIGGQRAIRPYWRNYFENTDCLIY   87 (173)
T ss_pred             CccEEEEEccCCCCHHHHHHHHhcCCCc-ccCCCCCcceEEEEE--C--CEEEEEEECCCCHHHHHHHHHHhcCCCEEEE
Confidence            3589999999999999999999988764 355666654443332  3  3578999999999888888888899999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLP  166 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~  166 (289)
                      |||+++..+|.....|+..+...   ...|+++++||+|+..
T Consensus        88 v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  129 (173)
T cd04155          88 VIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLAT  129 (173)
T ss_pred             EEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCcc
Confidence            99999999999888777665432   2348999999999953

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.

>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=99.87  E-value=1.6e-21  Score=167.04  Aligned_cols=161  Identities=20%  Similarity=0.209  Sum_probs=122.6

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||+++|..|||||||++++..+.+. ...||.+........  .  .+.+.+||.+|+..++.+++.|++.++++|
T Consensus        12 ~~~~~ililGl~~sGKTtll~~l~~~~~~-~~~pT~g~~~~~i~~--~--~~~~~~~d~gG~~~~~~~w~~y~~~~~~iI   86 (175)
T PF00025_consen   12 KKEIKILILGLDGSGKTTLLNRLKNGEIS-ETIPTIGFNIEEIKY--K--GYSLTIWDLGGQESFRPLWKSYFQNADGII   86 (175)
T ss_dssp             TSEEEEEEEESTTSSHHHHHHHHHSSSEE-EEEEESSEEEEEEEE--T--TEEEEEEEESSSGGGGGGGGGGHTTESEEE
T ss_pred             CcEEEEEEECCCccchHHHHHHhhhcccc-ccCcccccccceeee--C--cEEEEEEeccccccccccceeeccccceeE
Confidence            45689999999999999999999987653 366777766554433  3  467999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhh---cCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDL---QKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~---~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      ||+|.++++.+......+..+-.   ....|+++++||.|+..... ..+....+                         
T Consensus        87 fVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~~~-~~~i~~~l-------------------------  140 (175)
T PF00025_consen   87 FVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDAMS-EEEIKEYL-------------------------  140 (175)
T ss_dssp             EEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTSST-HHHHHHHT-------------------------
T ss_pred             EEEecccceeecccccchhhhcchhhcccceEEEEeccccccCcch-hhHHHhhh-------------------------
Confidence            99999999999998877776633   24459999999999854321 11111111                         


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                       .           ...+.....+.++.|||++|            +|+.+.+++|.+.+
T Consensus       141 -~-----------l~~l~~~~~~~v~~~sa~~g------------~Gv~e~l~WL~~~~  175 (175)
T PF00025_consen  141 -G-----------LEKLKNKRPWSVFSCSAKTG------------EGVDEGLEWLIEQI  175 (175)
T ss_dssp             -T-----------GGGTTSSSCEEEEEEBTTTT------------BTHHHHHHHHHHHH
T ss_pred             -h-----------hhhcccCCceEEEeeeccCC------------cCHHHHHHHHHhcC
Confidence             0           01111234567899999999            99999999998764

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 ....

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.87  E-value=5.2e-22  Score=162.76  Aligned_cols=134  Identities=16%  Similarity=0.144  Sum_probs=99.1

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCc-----hhhhccccccccCccEE
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLH-----EEFSIRSLPISDQLTAL  125 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~-----e~~~~~~~~~~~~ad~v  125 (289)
                      ||+++|++|||||||+++|.+..+.  +.+|.+..+.            ..+|||||+     +.|..+.. .++++|++
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~~--~~~t~~~~~~------------~~~iDt~G~~~~~~~~~~~~~~-~~~~ad~v   66 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEIL--YKKTQAVEYN------------DGAIDTPGEYVENRRLYSALIV-TAADADVI   66 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCccc--cccceeEEEc------------CeeecCchhhhhhHHHHHHHHH-HhhcCCEE
Confidence            8999999999999999999988752  3344433221            168999998     34554443 47899999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      |+|||++++.++.. ..|.....    .|+++|+||+|+.+...     .                              
T Consensus        67 ilv~d~~~~~s~~~-~~~~~~~~----~p~ilv~NK~Dl~~~~~-----~------------------------------  106 (142)
T TIGR02528        67 ALVQSATDPESRFP-PGFASIFV----KPVIGLVTKIDLAEADV-----D------------------------------  106 (142)
T ss_pred             EEEecCCCCCcCCC-hhHHHhcc----CCeEEEEEeeccCCccc-----C------------------------------
Confidence            99999999998865 34544332    38888999999953110     0                              


Q ss_pred             CCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHH
Q 040295          206 DEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALS  259 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~  259 (289)
                              .+.+.+++...+. +++++||+++            .|++++|++|.
T Consensus       107 --------~~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~  141 (142)
T TIGR02528       107 --------IERAKELLETAGAEPIFEISSVDE------------QGLEALVDYLN  141 (142)
T ss_pred             --------HHHHHHHHHHcCCCcEEEEecCCC------------CCHHHHHHHHh
Confidence                    1125677777776 7999999999            99999999874

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.

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

Probab=99.87  E-value=4.7e-21  Score=160.79  Aligned_cols=154  Identities=17%  Similarity=0.187  Sum_probs=105.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCC-CC-CCcceEEeeEEeecCcceEEEEEEEcCCchhhhcc---------cccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDA-SD-SSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIR---------SLPI  118 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~-~~-~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~---------~~~~  118 (289)
                      .+|+++|++|||||||+++|.+..+... +. .|......  .+  ......+.+|||||+......         ....
T Consensus         1 ~~i~~~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~--~~--~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~   76 (168)
T cd01897           1 PTLVIAGYPNVGKSSLVNKLTRAKPEVAPYPFTTKSLFVG--HF--DYKYLRWQVIDTPGLLDRPLEERNTIEMQAITAL   76 (168)
T ss_pred             CeEEEEcCCCCCHHHHHHHHhcCCCccCCCCCcccceeEE--EE--ccCceEEEEEECCCcCCccccCCchHHHHHHHHH
Confidence            3799999999999999999999886432 11 12222111  11  122468999999998422110         0011


Q ss_pred             ccCccEEEEEEeCCCHhhH--HHHHHHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCC
Q 040295          119 SDQLTALVMVFNLNDLSTL--DALKHWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGI  195 (289)
Q Consensus       119 ~~~ad~vIlV~Dv~~~~S~--~~l~~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~  195 (289)
                      ...+|++|+|+|++++.++  +....|+..++... ..|+++|+||+|+...        +.+                 
T Consensus        77 ~~~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~~~~pvilv~NK~Dl~~~--------~~~-----------------  131 (168)
T cd01897          77 AHLRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLFKNKPVIVVLNKIDLLTF--------EDL-----------------  131 (168)
T ss_pred             HhccCcEEEEEeCCcccccchHHHHHHHHHHHhhcCcCCeEEEEEccccCch--------hhH-----------------
Confidence            1236899999999987654  66677888886543 4589999999999532        111                 


Q ss_pred             CcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          196 SETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                        .. ...+....+.++++|||++|            .|++++|++|.++++
T Consensus       132 ------------------~~-~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~~  168 (168)
T cd01897         132 ------------------SE-IEEEEELEGEEVLKISTLTE------------EGVDEVKNKACELLL  168 (168)
T ss_pred             ------------------HH-HHHhhhhccCceEEEEeccc------------CCHHHHHHHHHHHhC
Confidence                              00 23445555678999999999            999999999998764

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.

>cd01898 Obg Obg subfamily

Probab=99.86  E-value=7.9e-21  Score=159.52  Aligned_cols=153  Identities=16%  Similarity=0.090  Sum_probs=105.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCC-C-CCCcceEEeeEEeecCcceEEEEEEEcCCch----hhhcccccc---ccC
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDA-S-DSSSELLVNGWTINTKYYTADVSLWMAHLHE----EFSIRSLPI---SDQ  121 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~-~-~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e----~~~~~~~~~---~~~  121 (289)
                      .|+|+|++|||||||++++.+...... . ..|.......  +...+ ...+.+|||||+.    .+..+...+   ++.
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~v~~~~~~t~~~~~~~--~~~~~-~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~   78 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLVPNLGV--VRVDD-GRSFVVADIPGLIEGASEGKGLGHRFLRHIER   78 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCccccCCCccccCCcceE--EEcCC-CCeEEEEecCcccCcccccCCchHHHHHHHHh
Confidence            589999999999999999997654211 1 1122111111  12222 1469999999963    222233333   345


Q ss_pred             ccEEEEEEeCCCH-hhHHHHHHHHHHhhhcC----CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCC
Q 040295          122 LTALVMVFNLNDL-STLDALKHWVPSIDLQK----FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGIS  196 (289)
Q Consensus       122 ad~vIlV~Dv~~~-~S~~~l~~~~~~i~~~~----~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~  196 (289)
                      +|++++|+|++++ .+++.+..|+..+....    ..|+++|+||+|+.+....     .                    
T Consensus        79 ~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~~-----~--------------------  133 (170)
T cd01898          79 TRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEEL-----F--------------------  133 (170)
T ss_pred             CCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchhh-----H--------------------
Confidence            9999999999999 89999999988886553    3588999999999642110     0                    


Q ss_pred             cccCCCCCCCCCCcHHHHHHHHHHHHH-cCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          197 ETEGSSLLGDEEPSWEIRRSCLEWCTE-HRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       197 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                        .....+... .+.+++++||+++            .|++++|++|.+.
T Consensus       134 ------------------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~i~~~  169 (170)
T cd01898         134 ------------------ELLKELLKELWGKPVFPISALTG------------EGLDELLRKLAEL  169 (170)
T ss_pred             ------------------HHHHHHHhhCCCCCEEEEecCCC------------CCHHHHHHHHHhh
Confidence                              113344444 3678999999999            9999999999864

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.

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=99.86  E-value=1.6e-20  Score=156.80  Aligned_cols=164  Identities=18%  Similarity=0.197  Sum_probs=130.3

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      .+..++|+|+|..|+||||++++|.+.. .+...+|.+++..+...  +  .+.+.+||.+||..++.+|+.|+..+||+
T Consensus        13 kerE~riLiLGLdNsGKTti~~kl~~~~-~~~i~pt~gf~Iktl~~--~--~~~L~iwDvGGq~~lr~~W~nYfestdgl   87 (185)
T KOG0073|consen   13 KEREVRILILGLDNSGKTTIVKKLLGED-TDTISPTLGFQIKTLEY--K--GYTLNIWDVGGQKTLRSYWKNYFESTDGL   87 (185)
T ss_pred             hhheeEEEEEecCCCCchhHHHHhcCCC-ccccCCccceeeEEEEe--c--ceEEEEEEcCCcchhHHHHHHhhhccCeE
Confidence            3446899999999999999999998887 46677888877765543  3  46799999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHh---hhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSI---DLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i---~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      |+|||++++..|+.....+..+   .+..+.|+++++||.|+.+.-.  .+.-..+                        
T Consensus        88 IwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~l~--~~~i~~~------------------------  141 (185)
T KOG0073|consen   88 IWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGALS--LEEISKA------------------------  141 (185)
T ss_pred             EEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccccC--HHHHHHh------------------------
Confidence            9999999999999887666555   2223458999999999952211  1111111                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                  -...+++++++++++-|||.+|            +++.+-+++|+..+..
T Consensus       142 ------------~~L~~l~ks~~~~l~~cs~~tg------------e~l~~gidWL~~~l~~  179 (185)
T KOG0073|consen  142 ------------LDLEELAKSHHWRLVKCSAVTG------------EDLLEGIDWLCDDLMS  179 (185)
T ss_pred             ------------hCHHHhccccCceEEEEecccc------------ccHHHHHHHHHHHHHH
Confidence                        1156777889999999999999            9999999999987755

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.86  E-value=2.2e-20  Score=151.92  Aligned_cols=155  Identities=18%  Similarity=0.214  Sum_probs=120.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|.+|+|||||++++.+..+...+.++.+..+....+...+..+.+.+||+||+..+..++..+.+.++++++++
T Consensus         2 ~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~~   81 (161)
T TIGR00231         2 IKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRVF   81 (161)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEEE
Confidence            79999999999999999999999976667777777765554555555578999999999999888888888999999999


Q ss_pred             eCCCH-hhHHHHH-HHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          130 NLNDL-STLDALK-HWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       130 Dv~~~-~S~~~l~-~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      |+... .++.... .|...+....  ..|+++|+||+|+....     ...+.                           
T Consensus        82 d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~-----~~~~~---------------------------  129 (161)
T TIGR00231        82 DIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLRDAK-----LKTHV---------------------------  129 (161)
T ss_pred             EEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCCcch-----hhHHH---------------------------
Confidence            99877 7777665 6666664443  34899999999995421     01111                           


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHH
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALS  259 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~  259 (289)
                                 ...+....+.+++++||+++            .|+.++|++|.
T Consensus       130 -----------~~~~~~~~~~~~~~~sa~~~------------~gv~~~~~~l~  160 (161)
T TIGR00231       130 -----------AFLFAKLNGEPIIPLSAETG------------KNIDSAFKIVE  160 (161)
T ss_pred             -----------HHHHhhccCCceEEeecCCC------------CCHHHHHHHhh
Confidence                       33444445567999999999            99999999873

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.

>cd01878 HflX HflX subfamily

Probab=99.84  E-value=2.9e-20  Score=162.00  Aligned_cols=153  Identities=16%  Similarity=0.140  Sum_probs=109.1

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCC--CCCCcceEEeeEEeecCcceEEEEEEEcCCch---------hhhccc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDA--SDSSSELLVNGWTINTKYYTADVSLWMAHLHE---------EFSIRS  115 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~--~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e---------~~~~~~  115 (289)
                      .+.++|+|+|++|||||||++++.+..+...  ..+|.........+  .+. ..+.+|||||..         .|....
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~~~~~~~~~~t~~~~~~~~~~--~~~-~~~~i~Dt~G~~~~~~~~~~~~~~~~~  115 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGADVYAEDQLFATLDPTTRRLRL--PDG-REVLLTDTVGFIRDLPHQLVEAFRSTL  115 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcchhccCCccceeccceeEEEEe--cCC-ceEEEeCCCccccCCCHHHHHHHHHHH
Confidence            4458999999999999999999999875322  22333333322222  221 268999999972         222211


Q ss_pred             cccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCC
Q 040295          116 LPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQS  193 (289)
Q Consensus       116 ~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~  193 (289)
                       ..+..+|++++|+|.+++.++..+..|...+....  ..|+++|+||+|+.+.        ...               
T Consensus       116 -~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~--------~~~---------------  171 (204)
T cd01878         116 -EEVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDD--------EEL---------------  171 (204)
T ss_pred             -HHHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCCh--------HHH---------------
Confidence             23567999999999999999988887777776543  3489999999999542        111               


Q ss_pred             CCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          194 GISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                              ..+....+.+++++||+++            .|+++++.+|.+++
T Consensus       172 ------------------------~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~L~~~~  204 (204)
T cd01878         172 ------------------------EERLEAGRPDAVFISAKTG------------EGLDELLEAIEELL  204 (204)
T ss_pred             ------------------------HHHhhcCCCceEEEEcCCC------------CCHHHHHHHHHhhC
Confidence                                    1334445678999999999            99999999998754

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.

>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=99.83  E-value=4e-20  Score=147.11  Aligned_cols=113  Identities=25%  Similarity=0.429  Sum_probs=82.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCC--CCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFE--DASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~--~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      ||+|+|++|||||||+++|.+..+.  .....+.+..+.............+.+||++|++.+...+...+..+|++|+|
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv   80 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILV   80 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEE
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCccceecccccchhhcCcEEEEE
Confidence            7999999999999999999999876  11222222233222333333444599999999998888777778999999999


Q ss_pred             EeCCCHhhHHHHHH---HHHHhhhcCC-CeEEEEeeCCC
Q 040295          129 FNLNDLSTLDALKH---WVPSIDLQKF-EILLCIGNKVD  163 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~---~~~~i~~~~~-~~iivvgnK~D  163 (289)
                      ||++++.||+.+..   |+..+..... .|++|||||.|
T Consensus        81 ~D~s~~~s~~~~~~~~~~l~~~~~~~~~~piilv~nK~D  119 (119)
T PF08477_consen   81 YDLSDPESLEYLSQLLKWLKNIRKRDKNIPIILVGNKSD  119 (119)
T ss_dssp             EECCGHHHHHHHHHHHHHHHHHHHHSSCSEEEEEEE-TC
T ss_pred             EcCCChHHHHHHHHHHHHHHHHHccCCCCCEEEEEeccC
Confidence            99999999999854   5666655333 49999999998

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.

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=99.83  E-value=4.6e-20  Score=152.90  Aligned_cols=166  Identities=16%  Similarity=0.269  Sum_probs=147.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||.++|++.+|||||+-++.++++.+.+..+.|..+...++...+..+.+.|||.+|+++|....+...+++-+++|+
T Consensus        20 slkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG~~~~~n~lPiac~dsvaIlFm   99 (205)
T KOG1673|consen   20 SLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGGQREFINMLPIACKDSVAILFM   99 (205)
T ss_pred             EEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCCcHhhhccCceeecCcEEEEEE
Confidence            37999999999999999999999999888999999999888888999999999999999999999888889999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcCCC-eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQKFE-ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~~~-~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      ||++.+.++..+..|+...+..+.. .-|+||+|.|+.-.-                                     +.
T Consensus       100 FDLt~r~TLnSi~~WY~QAr~~NktAiPilvGTKyD~fi~l-------------------------------------p~  142 (205)
T KOG1673|consen  100 FDLTRRSTLNSIKEWYRQARGLNKTAIPILVGTKYDLFIDL-------------------------------------PP  142 (205)
T ss_pred             EecCchHHHHHHHHHHHHHhccCCccceEEeccchHhhhcC-------------------------------------CH
Confidence            9999999999999999999887665 334589999986321                                     22


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                      +-+|.+.++++..++-.+.++|+||+..+            .||..+|+.+.+.+.
T Consensus       143 e~Q~~I~~qar~YAk~mnAsL~F~Sts~s------------INv~KIFK~vlAklF  186 (205)
T KOG1673|consen  143 ELQETISRQARKYAKVMNASLFFCSTSHS------------INVQKIFKIVLAKLF  186 (205)
T ss_pred             HHHHHHHHHHHHHHHHhCCcEEEeecccc------------ccHHHHHHHHHHHHh
Confidence            24667778899999999999999999999            999999998887764

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

Probab=99.83  E-value=2.5e-19  Score=149.92  Aligned_cols=111  Identities=15%  Similarity=0.200  Sum_probs=79.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecC-cceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTK-YYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~-~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      .|+|+|++|||||||+++|....+......+....+....+... +....+.+|||||++.|..++..+++.+|++++|+
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~   81 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNMRARGASLTDIAILVV   81 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEE
Confidence            59999999999999999999988765433333323222222222 13467899999999998887777889999999999


Q ss_pred             eCCCH---hhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          130 NLNDL---STLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       130 Dv~~~---~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      |+++.   ++++.+.    .+.. ...|+++|+||+|+..
T Consensus        82 d~~~~~~~~~~~~~~----~~~~-~~~p~ivv~NK~Dl~~  116 (168)
T cd01887          82 AADDGVMPQTIEAIK----LAKA-ANVPFIVALNKIDKPN  116 (168)
T ss_pred             ECCCCccHHHHHHHH----HHHH-cCCCEEEEEEceeccc
Confidence            99874   4443332    2222 3347899999999953

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.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.82  E-value=3.5e-19  Score=142.73  Aligned_cols=152  Identities=21%  Similarity=0.353  Sum_probs=115.2

Q ss_pred             EEcCCCCCHHHHHHHHhcCCC-CCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEeCC
Q 040295           54 IIGSSNVGKRTILSRLLSVNF-EDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLN  132 (289)
Q Consensus        54 ilG~~gvGKSSLi~rl~~~~~-~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~  132 (289)
                      |+|++|+|||||++++.+... .....++. ..+.............+.+||++|+..+......+++.++++++|||++
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   79 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTIEVDGKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVT   79 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccch-hheeeEEEEECCEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECc
Confidence            589999999999999999886 44455555 5665566555556788999999999988777777889999999999999


Q ss_pred             CHhhHHHHHHHH--HH-hhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCC
Q 040295          133 DLSTLDALKHWV--PS-IDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEP  209 (289)
Q Consensus       133 ~~~S~~~l~~~~--~~-i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  209 (289)
                      ++.++..+..|.  .. .......|+++|+||+|+.....     ....                               
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~-----~~~~-------------------------------  123 (157)
T cd00882          80 DRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEERV-----VSEE-------------------------------  123 (157)
T ss_pred             CHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccc-----hHHH-------------------------------
Confidence            999999998872  22 22233459999999999964321     0000                               


Q ss_pred             cHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHH
Q 040295          210 SWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALS  259 (289)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~  259 (289)
                           ..........+++++++|++++            .|+.+++++|.
T Consensus       124 -----~~~~~~~~~~~~~~~~~s~~~~------------~~i~~~~~~l~  156 (157)
T cd00882         124 -----ELAEQLAKELGVPYFETSAKTG------------ENVEELFEELA  156 (157)
T ss_pred             -----HHHHHHHhhcCCcEEEEecCCC------------CChHHHHHHHh
Confidence                 0123445556788999999999            99999999875

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

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

Probab=99.82  E-value=3.1e-19  Score=154.70  Aligned_cols=114  Identities=13%  Similarity=0.165  Sum_probs=81.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc--CCCCCCC------------CCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcccc
Q 040295           51 GILIIGSSNVGKRTILSRLLS--VNFEDAS------------DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSL  116 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~--~~~~~~~------------~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~  116 (289)
                      +|+++|.++||||||+++|+.  +.|...+            ..+.+..+.............+.+|||||++.|.....
T Consensus         4 ~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~   83 (194)
T cd01891           4 NIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHADFGGEVE   83 (194)
T ss_pred             EEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHHHHHHHH
Confidence            799999999999999999997  4554332            11233333222223334457899999999999998888


Q ss_pred             ccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          117 PISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       117 ~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      .+++.+|++++|||+++. .+.....|+..+... ..|+++|+||+|+..
T Consensus        84 ~~~~~~d~~ilV~d~~~~-~~~~~~~~~~~~~~~-~~p~iiv~NK~Dl~~  131 (194)
T cd01891          84 RVLSMVDGVLLLVDASEG-PMPQTRFVLKKALEL-GLKPIVVINKIDRPD  131 (194)
T ss_pred             HHHHhcCEEEEEEECCCC-ccHHHHHHHHHHHHc-CCCEEEEEECCCCCC
Confidence            999999999999999874 233333444444333 347888999999953

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

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

Probab=99.81  E-value=3.1e-19  Score=147.64  Aligned_cols=147  Identities=12%  Similarity=0.048  Sum_probs=102.8

Q ss_pred             EEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcc------ccccc--cCccEE
Q 040295           54 IIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIR------SLPIS--DQLTAL  125 (289)
Q Consensus        54 ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~------~~~~~--~~ad~v  125 (289)
                      |+|.+|||||||++++.+..+.....++.+.......+..++  ..+.+|||||++.+...      ...++  +.+|++
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~v   78 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGG--KEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLI   78 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcccccceEEEeeCC--eEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEE
Confidence            589999999999999998864433333333333333333343  46899999999876542      34445  489999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      |+|+|.++++...   .|...+... ..|+++|+||+|+.....        +                           
T Consensus        79 i~v~d~~~~~~~~---~~~~~~~~~-~~~~iiv~NK~Dl~~~~~--------~---------------------------  119 (158)
T cd01879          79 VNVVDATNLERNL---YLTLQLLEL-GLPVVVALNMIDEAEKRG--------I---------------------------  119 (158)
T ss_pred             EEEeeCCcchhHH---HHHHHHHHc-CCCEEEEEehhhhccccc--------c---------------------------
Confidence            9999999865433   344444433 358999999999954211        0                           


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                              ......+....+++++++||+++            .|+.+++..|...
T Consensus       120 --------~~~~~~~~~~~~~~~~~iSa~~~------------~~~~~l~~~l~~~  155 (158)
T cd01879         120 --------KIDLDKLSELLGVPVVPTSARKG------------EGIDELKDAIAEL  155 (158)
T ss_pred             --------hhhHHHHHHhhCCCeEEEEccCC------------CCHHHHHHHHHHH
Confidence                    00134666667889999999999            9999999999874

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.

>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.80  E-value=5.3e-19  Score=150.49  Aligned_cols=159  Identities=19%  Similarity=0.181  Sum_probs=123.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      .+|+++|-.++||||++++|..+++... .||+|.....+.+.    .+.+.+||.+||++++.++++|+++.+++|||.
T Consensus        18 ~~IlmlGLD~AGKTTILykLk~~E~vtt-vPTiGfnVE~v~yk----n~~f~vWDvGGq~k~R~lW~~Y~~~t~~lIfVv   92 (181)
T KOG0070|consen   18 MRILMVGLDAAGKTTILYKLKLGEIVTT-VPTIGFNVETVEYK----NISFTVWDVGGQEKLRPLWKHYFQNTQGLIFVV   92 (181)
T ss_pred             EEEEEEeccCCCceeeeEeeccCCcccC-CCccccceeEEEEc----ceEEEEEecCCCcccccchhhhccCCcEEEEEE
Confidence            6899999999999999999999987544 78998776655443    578999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      |.+|++.+..++.-+..+-...   ..|+++.+||.|+....+ ..+....+                            
T Consensus        93 DS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~als-~~ei~~~L----------------------------  143 (181)
T KOG0070|consen   93 DSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGALS-AAEITNKL----------------------------  143 (181)
T ss_pred             eCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhccccCC-HHHHHhHh----------------------------
Confidence            9999999999987666664443   349999999999954322 11222222                            


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                ...-.......+-.|||.+|            .|+.+.+++|...+..
T Consensus       144 ----------~l~~l~~~~w~iq~~~a~~G------------~GL~egl~wl~~~~~~  179 (181)
T KOG0070|consen  144 ----------GLHSLRSRNWHIQSTCAISG------------EGLYEGLDWLSNNLKK  179 (181)
T ss_pred             ----------hhhccCCCCcEEeecccccc------------ccHHHHHHHHHHHHhc
Confidence                      11111113345667999999            9999999999887643

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.80  E-value=8.9e-19  Score=165.98  Aligned_cols=150  Identities=18%  Similarity=0.158  Sum_probs=107.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCC--CCCCcceEEeeEEeecCcceEEEEEEEcCCc---------hhhhcccc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDA--SDSSSELLVNGWTINTKYYTADVSLWMAHLH---------EEFSIRSL  116 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~--~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~---------e~~~~~~~  116 (289)
                      ..++|+++|.+|||||||+|+|++.++...  ..+|.........+. ++  ..+.+|||+|.         +.|.... 
T Consensus       188 ~~~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i~~~-~~--~~i~l~DT~G~~~~l~~~lie~f~~tl-  263 (351)
T TIGR03156       188 DVPTVALVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLP-DG--GEVLLTDTVGFIRDLPHELVAAFRATL-  263 (351)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCceeeccCCccccCCEEEEEEeC-CC--ceEEEEecCcccccCCHHHHHHHHHHH-
Confidence            448999999999999999999999875322  234444433333332 22  36899999997         3344322 


Q ss_pred             ccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCC
Q 040295          117 PISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSG  194 (289)
Q Consensus       117 ~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~  194 (289)
                      ..++++|++|+|+|++++.+++.+..|...+....  ..|+++|+||+|+.+.        ..+                
T Consensus       264 e~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~~--------~~v----------------  319 (351)
T TIGR03156       264 EEVREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDE--------PRI----------------  319 (351)
T ss_pred             HHHHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCCh--------HhH----------------
Confidence            34778999999999999999888877766665543  4589999999999531        111                


Q ss_pred             CCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          195 ISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                             ..+. ....+++++||+++            .|++++++.|...
T Consensus       320 -----------------------~~~~-~~~~~~i~iSAktg------------~GI~eL~~~I~~~  350 (351)
T TIGR03156       320 -----------------------ERLE-EGYPEAVFVSAKTG------------EGLDLLLEAIAER  350 (351)
T ss_pred             -----------------------HHHH-hCCCCEEEEEccCC------------CCHHHHHHHHHhh
Confidence                                   1111 12246899999999            9999999998764

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).

>PRK04213 GTP-binding protein; Provisional

Probab=99.80  E-value=3.9e-19  Score=154.33  Aligned_cols=153  Identities=16%  Similarity=0.142  Sum_probs=99.0

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCC-----------chhhhccc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHL-----------HEEFSIRS  115 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G-----------~e~~~~~~  115 (289)
                      ...++|+++|++|||||||+++|.+..+.....++.  .+....+...    .+.+|||||           ++.++..+
T Consensus         7 ~~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~--t~~~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~   80 (201)
T PRK04213          7 DRKPEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGV--TRKPNHYDWG----DFILTDLPGFGFMSGVPKEVQEKIKDEI   80 (201)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCce--eeCceEEeec----ceEEEeCCccccccccCHHHHHHHHHHH
Confidence            345899999999999999999999888654443433  3322232222    589999999           67777766


Q ss_pred             ccccc----CccEEEEEEeCCCHhhH-HH---------HHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhc
Q 040295          116 LPISD----QLTALVMVFNLNDLSTL-DA---------LKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKR  181 (289)
Q Consensus       116 ~~~~~----~ad~vIlV~Dv~~~~S~-~~---------l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~  181 (289)
                      ..+++    .++++++|+|.+....+ +.         -..+...+.. ...|+++|+||+|+....       ...   
T Consensus        81 ~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~p~iiv~NK~Dl~~~~-------~~~---  149 (201)
T PRK04213         81 VRYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLRE-LGIPPIVAVNKMDKIKNR-------DEV---  149 (201)
T ss_pred             HHHHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHHH-cCCCeEEEEECccccCcH-------HHH---
Confidence            66654    34677788876543221 00         0111222222 345889999999995321       111   


Q ss_pred             ccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCC---------eEEEeecCCCcccccccCCCCchhHH
Q 040295          182 EESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRI---------EYIEACASNVDFDKCLSIDGDSQGVE  252 (289)
Q Consensus       182 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~ie~Sa~~~~~~~~~~~~~~~~~i~  252 (289)
                                                         +.+++...++         +++++||++|             |++
T Consensus       150 -----------------------------------~~~~~~~~~~~~~~~~~~~~~~~~SA~~g-------------gi~  181 (201)
T PRK04213        150 -----------------------------------LDEIAERLGLYPPWRQWQDIIAPISAKKG-------------GIE  181 (201)
T ss_pred             -----------------------------------HHHHHHHhcCCccccccCCcEEEEecccC-------------CHH
Confidence                                               3444444443         5799999985             899


Q ss_pred             HHHHHHHHhccc
Q 040295          253 RLYGALSAHMWP  264 (289)
Q Consensus       253 ~l~~~L~~~~~~  264 (289)
                      ++|++|...+.+
T Consensus       182 ~l~~~l~~~~~~  193 (201)
T PRK04213        182 ELKEAIRKRLHE  193 (201)
T ss_pred             HHHHHHHHhhcC
Confidence            999999987643

>TIGR00436 era GTP-binding protein Era

Probab=99.80  E-value=2.6e-18  Score=157.08  Aligned_cols=155  Identities=13%  Similarity=0.114  Sum_probs=105.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCC--CCCCcceEEeeEEeecCcceEEEEEEEcCCchhhh-c-------ccccccc
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDA--SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFS-I-------RSLPISD  120 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~--~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~-~-------~~~~~~~  120 (289)
                      +|+++|.+|||||||+|+|++.++...  ...|+.......... .  ..++.+|||||..... .       ....+++
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr~~i~~i~~~-~--~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~   78 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNRISGIHTT-G--ASQIIFIDTPGFHEKKHSLNRLMMKEARSAIG   78 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCcccCcEEEEEEc-C--CcEEEEEECcCCCCCcchHHHHHHHHHHHHHh
Confidence            699999999999999999999876432  222333222222222 2  2468999999975321 1       1234578


Q ss_pred             CccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          121 QLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       121 ~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      .+|++++|+|+++..+++  ..++..+... ..|+++|+||+|+...        ..+                      
T Consensus        79 ~aDvvl~VvD~~~~~~~~--~~i~~~l~~~-~~p~ilV~NK~Dl~~~--------~~~----------------------  125 (270)
T TIGR00436        79 GVDLILFVVDSDQWNGDG--EFVLTKLQNL-KRPVVLTRNKLDNKFK--------DKL----------------------  125 (270)
T ss_pred             hCCEEEEEEECCCCCchH--HHHHHHHHhc-CCCEEEEEECeeCCCH--------HHH----------------------
Confidence            899999999999877764  3344444443 3489999999999531        111                      


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                                   ......++...++ +++++||++|            .|++++++.|.+.+.+..
T Consensus       126 -------------~~~~~~~~~~~~~~~v~~iSA~~g------------~gi~~L~~~l~~~l~~~~  167 (270)
T TIGR00436       126 -------------LPLIDKYAILEDFKDIVPISALTG------------DNTSFLAAFIEVHLPEGP  167 (270)
T ss_pred             -------------HHHHHHHHhhcCCCceEEEecCCC------------CCHHHHHHHHHHhCCCCC
Confidence                         1114455555565 7999999999            999999999998765443

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

>cd01889 SelB_euk SelB subfamily

Probab=99.80  E-value=1.4e-18  Score=150.32  Aligned_cols=167  Identities=13%  Similarity=0.151  Sum_probs=103.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC----CCCC---C--CCCCcceEEeeEEee----------cCcceEEEEEEEcCCchh
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV----NFED---A--SDSSSELLVNGWTIN----------TKYYTADVSLWMAHLHEE  110 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~----~~~~---~--~~~t~~~~~~~~~i~----------~~~~~~~l~I~Dt~G~e~  110 (289)
                      ++|+++|++|+|||||+++|+..    .+..   .  ...|.+..+....+.          ..+....+.+|||||+..
T Consensus         1 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~   80 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHAS   80 (192)
T ss_pred             CeEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHH
Confidence            58999999999999999999973    1111   1  123444444444443          123356899999999976


Q ss_pred             hhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcc
Q 040295          111 FSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDF  190 (289)
Q Consensus       111 ~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~  190 (289)
                      +........+.+|++++|+|+++.........|.. ... ...|+++|+||+|+....      .+..            
T Consensus        81 ~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~~-~~~-~~~~~iiv~NK~Dl~~~~------~~~~------------  140 (192)
T cd01889          81 LIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLVI-GEI-LCKKLIVVLNKIDLIPEE------ERER------------  140 (192)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHHH-HHH-cCCCEEEEEECcccCCHH------HHHH------------
Confidence            53322233456899999999987544443333321 122 234888999999996421      1110            


Q ss_pred             cCCCCCcccCCCCCCCCCCcHHHHHHHHHHHH---HcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          191 CQSGISETEGSSLLGDEEPSWEIRRSCLEWCT---EHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       191 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                                        ...+.++.......   ..+++++++||+++            .|+++++++|...+.+..
T Consensus       141 ------------------~~~~~~~~l~~~~~~~~~~~~~vi~iSa~~g------------~gi~~L~~~l~~~~~~~~  189 (192)
T cd01889         141 ------------------KIEKMKKKLQKTLEKTRFKNSPIIPVSAKPG------------GGEAELGKDLNNLIVLPL  189 (192)
T ss_pred             ------------------HHHHHHHHHHHHHHhcCcCCCCEEEEeccCC------------CCHHHHHHHHHhcccccc
Confidence                              00011111111111   23578999999999            999999999999886653

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

>PRK15494 era GTPase Era; Provisional

Probab=99.80  E-value=1.4e-18  Score=164.00  Aligned_cols=164  Identities=16%  Similarity=0.185  Sum_probs=108.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCC---CCCCcceEEeeEEeecCcceEEEEEEEcCCch-hhhcccc-------
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDA---SDSSSELLVNGWTINTKYYTADVSLWMAHLHE-EFSIRSL-------  116 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~---~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e-~~~~~~~-------  116 (289)
                      +.++|+++|++|||||||+++|++..+...   ...|..  .....+..++  ..+.+|||||+. .+..+..       
T Consensus        51 k~~kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tTr~--~~~~~~~~~~--~qi~~~DTpG~~~~~~~l~~~~~r~~~  126 (339)
T PRK15494         51 KTVSVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTRS--IITGIITLKD--TQVILYDTPGIFEPKGSLEKAMVRCAW  126 (339)
T ss_pred             ceeEEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCccC--cEEEEEEeCC--eEEEEEECCCcCCCcccHHHHHHHHHH
Confidence            345999999999999999999999887421   122221  1122223332  468999999984 3332221       


Q ss_pred             ccccCccEEEEEEeCCCHhhHHHHH-HHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCC
Q 040295          117 PISDQLTALVMVFNLNDLSTLDALK-HWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGI  195 (289)
Q Consensus       117 ~~~~~ad~vIlV~Dv~~~~S~~~l~-~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~  195 (289)
                      ..++.+|++|+|+|.++  +|..+. .|+..++..+. |+|+|+||+|+...      ...                   
T Consensus       127 ~~l~~aDvil~VvD~~~--s~~~~~~~il~~l~~~~~-p~IlViNKiDl~~~------~~~-------------------  178 (339)
T PRK15494        127 SSLHSADLVLLIIDSLK--SFDDITHNILDKLRSLNI-VPIFLLNKIDIESK------YLN-------------------  178 (339)
T ss_pred             HHhhhCCEEEEEEECCC--CCCHHHHHHHHHHHhcCC-CEEEEEEhhcCccc------cHH-------------------
Confidence            23678999999999765  455554 45566655544 45678999998431      001                   


Q ss_pred             CcccCCCCCCCCCCcHHHHHHHHHHHHHcC--CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcccccCCC
Q 040295          196 SETEGSSLLGDEEPSWEIRRSCLEWCTEHR--IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDK  273 (289)
Q Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~~~~  273 (289)
                                          .+.+++...+  .+++++||++|            .|++++|++|...+.++--+-..+.
T Consensus       179 --------------------~~~~~l~~~~~~~~i~~iSAktg------------~gv~eL~~~L~~~l~~~~~~~~~~~  226 (339)
T PRK15494        179 --------------------DIKAFLTENHPDSLLFPISALSG------------KNIDGLLEYITSKAKISPWLYAEDD  226 (339)
T ss_pred             --------------------HHHHHHHhcCCCcEEEEEeccCc------------cCHHHHHHHHHHhCCCCCCCCCCCC
Confidence                                1344554443  47999999999            9999999999997766654444443


Q ss_pred             CC
Q 040295          274 IT  275 (289)
Q Consensus       274 ~~  275 (289)
                      .|
T Consensus       227 ~t  228 (339)
T PRK15494        227 IT  228 (339)
T ss_pred             CC
Confidence            33

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.79  E-value=2e-18  Score=146.69  Aligned_cols=170  Identities=18%  Similarity=0.114  Sum_probs=107.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCc----------------ceEEeeEEeecCcceEEEEEEEcCCchhhhcc
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSS----------------ELLVNGWTINTKYYTADVSLWMAHLHEEFSIR  114 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~----------------~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~  114 (289)
                      +|+|+|.+|+|||||++.+++.........+.                ........+..  ....+.+|||||+..+...
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~liDtpG~~~~~~~   78 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEW--PDRRVNFIDTPGHEDFSSE   78 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEee--CCEEEEEEeCCCcHHHHHH
Confidence            48999999999999999999887654331111                11111111111  2457999999999988877


Q ss_pred             ccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCC
Q 040295          115 SLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSG  194 (289)
Q Consensus       115 ~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~  194 (289)
                      ...+++.+|++++|+|++++.+.... .++..+.. ...|+++|+||+|+....... ...+++.....        +.|
T Consensus        79 ~~~~~~~~d~~i~v~d~~~~~~~~~~-~~~~~~~~-~~~~i~iv~nK~D~~~~~~~~-~~~~~~~~~~~--------~~~  147 (189)
T cd00881          79 VIRGLSVSDGAILVVDANEGVQPQTR-EHLRIARE-GGLPIIVAINKIDRVGEEDLE-EVLREIKELLG--------LIG  147 (189)
T ss_pred             HHHHHHhcCEEEEEEECCCCCcHHHH-HHHHHHHH-CCCCeEEEEECCCCcchhcHH-HHHHHHHHHHc--------ccc
Confidence            77888999999999999876655433 33444443 345899999999997421100 00011100000        000


Q ss_pred             CCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          195 ISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                      +.         ..        .+..+......+++++||+++            .|+++++.+|.+.+
T Consensus       148 ~~---------~~--------~~~~~~~~~~~~v~~~Sa~~g------------~gi~~l~~~l~~~l  186 (189)
T cd00881         148 FI---------ST--------KEEGTRNGLLVPIVPGSALTG------------IGVEELLEAIVEHL  186 (189)
T ss_pred             cc---------ch--------hhhhcccCCcceEEEEecccC------------cCHHHHHHHHHhhC
Confidence            00         00        011122234578999999999            99999999999876

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.

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

Probab=99.79  E-value=2.7e-18  Score=141.21  Aligned_cols=147  Identities=19%  Similarity=0.137  Sum_probs=102.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcc--------ccccc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFED-ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIR--------SLPIS  119 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~--------~~~~~  119 (289)
                      +++|+++|++|+|||||++++.+..... ...++....+....+...  ...+.+|||||...+...        ....+
T Consensus         1 ~~~i~l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~   78 (157)
T cd04164           1 GIKVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIG--GIPVRLIDTAGIRETEDEIEKIGIERAREAI   78 (157)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeC--CEEEEEEECCCcCCCcchHHHHHHHHHHHHH
Confidence            4799999999999999999999876421 111222222222233323  356899999997654321        12346


Q ss_pred             cCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCccc
Q 040295          120 DQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETE  199 (289)
Q Consensus       120 ~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~  199 (289)
                      ..+|++++|+|++++.+......|..    ....|+++|+||+|+....                               
T Consensus        79 ~~~~~~v~v~d~~~~~~~~~~~~~~~----~~~~~vi~v~nK~D~~~~~-------------------------------  123 (157)
T cd04164          79 EEADLVLFVIDASRGLDEEDLEILEL----PADKPIIVVLNKSDLLPDS-------------------------------  123 (157)
T ss_pred             hhCCEEEEEEECCCCCCHHHHHHHHh----hcCCCEEEEEEchhcCCcc-------------------------------
Confidence            78999999999998888877765443    3345899999999995321                               


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          200 GSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                              .        .  .....+.+++++||+++            .|+++++++|...+
T Consensus       124 --------~--------~--~~~~~~~~~~~~Sa~~~------------~~v~~l~~~l~~~~  156 (157)
T cd04164         124 --------E--------L--LSLLAGKPIIAISAKTG------------EGLDELKEALLELA  156 (157)
T ss_pred             --------c--------c--ccccCCCceEEEECCCC------------CCHHHHHHHHHHhh
Confidence                    0        1  22334568999999999            99999999998754

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.78  E-value=2.9e-18  Score=161.43  Aligned_cols=158  Identities=13%  Similarity=0.046  Sum_probs=110.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCC-CcceEEeeEEeecCcceEEEEEEEcCCchh----hhcccc---cccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFED-ASDS-SSELLVNGWTINTKYYTADVSLWMAHLHEE----FSIRSL---PISD  120 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~-t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~----~~~~~~---~~~~  120 (289)
                      ..|+|+|.+|||||||++++.+..... .+.. |.........+. +  ...+.+||+||.-.    ...+..   .+++
T Consensus       159 adVglVG~PNaGKSTLln~ls~a~~~va~ypfTT~~p~~G~v~~~-~--~~~~~i~D~PGli~ga~~~~gLg~~flrhie  235 (335)
T PRK12299        159 ADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLHPNLGVVRVD-D--YKSFVIADIPGLIEGASEGAGLGHRFLKHIE  235 (335)
T ss_pred             CCEEEEcCCCCCHHHHHHHHHcCCCccCCCCCceeCceEEEEEeC-C--CcEEEEEeCCCccCCCCccccHHHHHHHHhh
Confidence            569999999999999999999865321 2222 222222222221 2  23589999998631    111222   3456


Q ss_pred             CccEEEEEEeCCCHhhHHHHHHHHHHhhhcC----CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCC
Q 040295          121 QLTALVMVFNLNDLSTLDALKHWVPSIDLQK----FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGIS  196 (289)
Q Consensus       121 ~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~----~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~  196 (289)
                      .++++|+|+|+++.++++.+..|...+..+.    ..|+++|+||+|+.+...    ...                    
T Consensus       236 ~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~----~~~--------------------  291 (335)
T PRK12299        236 RTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEE----ERE--------------------  291 (335)
T ss_pred             hcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchh----HHH--------------------
Confidence            7999999999998889999999999887653    358999999999964210    000                    


Q ss_pred             cccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          197 ETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       197 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                        .....++...+++++++||+++            +|+++++++|.+.+..
T Consensus       292 ------------------~~~~~~~~~~~~~i~~iSAktg------------~GI~eL~~~L~~~l~~  329 (335)
T PRK12299        292 ------------------KRAALELAALGGPVFLISAVTG------------EGLDELLRALWELLEE  329 (335)
T ss_pred             ------------------HHHHHHHHhcCCCEEEEEcCCC------------CCHHHHHHHHHHHHHh
Confidence                              1134455566788999999999            9999999999887643

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.78  E-value=2.9e-18  Score=166.93  Aligned_cols=153  Identities=17%  Similarity=0.137  Sum_probs=110.7

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCC--CCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcc--------c
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFE--DASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIR--------S  115 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~--~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~--------~  115 (289)
                      ...++||+++|++|||||||+|+|++..+.  ..+ ++.+.++....+..++  ..+.+|||||+..+...        .
T Consensus       200 ~~~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~-pgtTrd~~~~~i~~~g--~~v~l~DTaG~~~~~~~ie~~gi~~~  276 (442)
T TIGR00450       200 LDDGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDI-KGTTRDVVEGDFELNG--ILIKLLDTAGIREHADFVERLGIEKS  276 (442)
T ss_pred             hhcCCEEEEECCCCCcHHHHHHHHhCCCCcccCCC-CCcEEEEEEEEEEECC--EEEEEeeCCCcccchhHHHHHHHHHH
Confidence            345699999999999999999999987642  223 2333344444444444  45789999998654322        2


Q ss_pred             cccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCC
Q 040295          116 LPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGI  195 (289)
Q Consensus       116 ~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~  195 (289)
                      ..+++.+|++|+|||++++.+++..  |+..+... ..|+|+|+||+|+...                            
T Consensus       277 ~~~~~~aD~il~V~D~s~~~s~~~~--~l~~~~~~-~~piIlV~NK~Dl~~~----------------------------  325 (442)
T TIGR00450       277 FKAIKQADLVIYVLDASQPLTKDDF--LIIDLNKS-KKPFILVLNKIDLKIN----------------------------  325 (442)
T ss_pred             HHHHhhCCEEEEEEECCCCCChhHH--HHHHHhhC-CCCEEEEEECccCCCc----------------------------
Confidence            3567899999999999999888776  77766543 3488999999999421                            


Q ss_pred             CcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          196 SETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                  +        ...++...+++++++||++             .||.++|+.|.+.+...
T Consensus       326 ------------~--------~~~~~~~~~~~~~~vSak~-------------~gI~~~~~~L~~~i~~~  362 (442)
T TIGR00450       326 ------------S--------LEFFVSSKVLNSSNLSAKQ-------------LKIKALVDLLTQKINAF  362 (442)
T ss_pred             ------------c--------hhhhhhhcCCceEEEEEec-------------CCHHHHHHHHHHHHHHH
Confidence                        0        2344556678899999997             48888888888876543

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.78  E-value=2.1e-18  Score=169.45  Aligned_cols=159  Identities=15%  Similarity=0.092  Sum_probs=107.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCC-CCCCCCcceEEeeEEeecCcceEEEEEEEcCCc----------hhhhccc-
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFE-DASDSSSELLVNGWTINTKYYTADVSLWMAHLH----------EEFSIRS-  115 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~-~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~----------e~~~~~~-  115 (289)
                      ..+||+|+|.+|||||||+++|++.++. ....++.+.+.....+..++.  .+.+|||||.          +.|..+. 
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~--~~~l~DTaG~~~~~~~~~~~e~~~~~~~  287 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGGK--TWRFVDTAGLRRRVKQASGHEYYASLRT  287 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECCE--EEEEEECCCccccccccchHHHHHHHHH
Confidence            4589999999999999999999998753 222223333333333333433  4679999995          4444332 


Q ss_pred             cccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCC
Q 040295          116 LPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGI  195 (289)
Q Consensus       116 ~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~  195 (289)
                      ..+++.+|++|+|||++++.+++.+. ++..+.. ...|+|+|+||+|+....     ..+.+                 
T Consensus       288 ~~~i~~ad~vilV~Da~~~~s~~~~~-~~~~~~~-~~~piIiV~NK~Dl~~~~-----~~~~~-----------------  343 (472)
T PRK03003        288 HAAIEAAEVAVVLIDASEPISEQDQR-VLSMVIE-AGRALVLAFNKWDLVDED-----RRYYL-----------------  343 (472)
T ss_pred             HHHHhcCCEEEEEEeCCCCCCHHHHH-HHHHHHH-cCCCEEEEEECcccCChh-----HHHHH-----------------
Confidence            23578999999999999998888775 4444443 345899999999996421     11111                 


Q ss_pred             CcccCCCCCCCCCCcHHHHHHH-HHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          196 SETEGSSLLGDEEPSWEIRRSC-LEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                        ...+ ..+.....++++++||++|            .||+++|+.+.+.+
T Consensus       344 ------------------~~~i~~~l~~~~~~~~~~~SAk~g------------~gv~~lf~~i~~~~  381 (472)
T PRK03003        344 ------------------EREIDRELAQVPWAPRVNISAKTG------------RAVDKLVPALETAL  381 (472)
T ss_pred             ------------------HHHHHHhcccCCCCCEEEEECCCC------------CCHHHHHHHHHHHH
Confidence                              0011 2223223468999999999            99999999998755

>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]

Probab=99.78  E-value=7.9e-21  Score=161.61  Aligned_cols=167  Identities=17%  Similarity=0.221  Sum_probs=140.1

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEee-cCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTIN-TKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~-~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      +..+|++|+|.-|+|||++++|++...|...|..|++.++.-.... +++..+++++||.+||++|-.+...|++.+++.
T Consensus        23 ~hL~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrVyykea~~~  102 (229)
T KOG4423|consen   23 EHLFKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRVYYKEAHGA  102 (229)
T ss_pred             hhhhhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEEEecCCcce
Confidence            5568999999999999999999999999988999999987433333 344557789999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhc-----CCC-eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCccc
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQ-----KFE-ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETE  199 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~-----~~~-~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~  199 (289)
                      ++|||++...+|+....|.+++...     +.| |+++.+||||..+....  +.                         
T Consensus       103 ~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~~--~~-------------------------  155 (229)
T KOG4423|consen  103 FIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAKN--EA-------------------------  155 (229)
T ss_pred             EEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccChHhhh--hh-------------------------
Confidence            9999999999999999999988543     223 89999999999643210  00                         


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHHHHcCCe-EEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          200 GSSLLGDEEPSWEIRRSCLEWCTEHRIE-YIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                                    -+...++++++|+. ++|+|+|.+            .+++|.-..|++.++-+-
T Consensus       156 --------------~~~~d~f~kengf~gwtets~Ken------------kni~Ea~r~lVe~~lvnd  197 (229)
T KOG4423|consen  156 --------------TRQFDNFKKENGFEGWTETSAKEN------------KNIPEAQRELVEKILVND  197 (229)
T ss_pred             --------------HHHHHHHHhccCccceeeeccccc------------cChhHHHHHHHHHHHhhc
Confidence                          12267999999995 999999999            999999999999887664

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

Probab=99.78  E-value=2.4e-18  Score=144.77  Aligned_cols=151  Identities=19%  Similarity=0.159  Sum_probs=102.2

Q ss_pred             EEcCCCCCHHHHHHHHhcCCCC-CCC-CCCcceEEeeEEeecCcceEEEEEEEcCCchh----hhccc---cccccCccE
Q 040295           54 IIGSSNVGKRTILSRLLSVNFE-DAS-DSSSELLVNGWTINTKYYTADVSLWMAHLHEE----FSIRS---LPISDQLTA  124 (289)
Q Consensus        54 ilG~~gvGKSSLi~rl~~~~~~-~~~-~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~----~~~~~---~~~~~~ad~  124 (289)
                      |+|++|||||||++++.+.++. ..+ ..|.......  +.... ...+.+|||||...    ...+.   ..+++.+|+
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~~~~~t~~~~~~~--~~~~~-~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~   77 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVANYPFTTLEPNLGV--VEVPD-GARIQVADIPGLIEGASEGRGLGNQFLAHIRRADA   77 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccCCCceeecCcceE--EEcCC-CCeEEEEeccccchhhhcCCCccHHHHHHHhccCE
Confidence            5899999999999999998742 122 1222222222  22220 34689999999732    22222   234678999


Q ss_pred             EEEEEeCCCH------hhHHHHHHHHHHhhhc---------CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCc
Q 040295          125 LVMVFNLNDL------STLDALKHWVPSIDLQ---------KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPD  189 (289)
Q Consensus       125 vIlV~Dv~~~------~S~~~l~~~~~~i~~~---------~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~  189 (289)
                      +++|+|.+++      .+++.+..|...+...         ...|+++|+||+|+...        +..           
T Consensus        78 ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~--------~~~-----------  138 (176)
T cd01881          78 ILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDA--------EEL-----------  138 (176)
T ss_pred             EEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCch--------hHH-----------
Confidence            9999999988      5888888888777543         24589999999999632        111           


Q ss_pred             ccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          190 FCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                           ..  .....++...+.+++++||+++            .|++++++.++..
T Consensus       139 ---------------------~~--~~~~~~~~~~~~~~~~~Sa~~~------------~gl~~l~~~l~~~  175 (176)
T cd01881         139 ---------------------EE--ELVRELALEEGAEVVPISAKTE------------EGLDELIRAIYEL  175 (176)
T ss_pred             ---------------------HH--HHHHHHhcCCCCCEEEEehhhh------------cCHHHHHHHHHhh
Confidence                                 00  0022344445677999999999            9999999999764

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

>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.78  E-value=5.8e-19  Score=150.65  Aligned_cols=166  Identities=17%  Similarity=0.232  Sum_probs=141.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..+|++++|+.|.|||++++|++.++|...+.+|++....+.....+...+.+..|||+|+|.+..+...|+-++.++|+
T Consensus         9 ~~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrdgyyI~~qcAii   88 (216)
T KOG0096|consen    9 LTFKLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRDGYYIQGQCAII   88 (216)
T ss_pred             ceEEEEEecCCcccccchhhhhhcccceecccCcceeEEeeeeeecccCcEEEEeeecccceeecccccccEEecceeEE
Confidence            47899999999999999999999999999999999999877766666557999999999999999999888888999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcCCC-eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQKFE-ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~~~-~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      +||++..-++.++.+|..++.+-..+ ||+++|||.|.-.         +++                           .
T Consensus        89 mFdVtsr~t~~n~~rwhrd~~rv~~NiPiv~cGNKvDi~~---------r~~---------------------------k  132 (216)
T KOG0096|consen   89 MFDVTSRFTYKNVPRWHRDLVRVRENIPIVLCGNKVDIKA---------RKV---------------------------K  132 (216)
T ss_pred             EeeeeehhhhhcchHHHHHHHHHhcCCCeeeeccceeccc---------ccc---------------------------c
Confidence            99999999999999999988666555 9999999999943         211                           0


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcccc
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLK  269 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~  269 (289)
                              .+...+-+..++.|+|.||+++            .|.++-|.+|.+.+...-.++
T Consensus       133 --------~k~v~~~rkknl~y~~iSaksn------------~NfekPFl~LarKl~G~p~Le  175 (216)
T KOG0096|consen  133 --------AKPVSFHRKKNLQYYEISAKSN------------YNFERPFLWLARKLTGDPSLE  175 (216)
T ss_pred             --------cccceeeecccceeEEeecccc------------cccccchHHHhhhhcCCCCeE
Confidence                    0134566667899999999999            999999999999886654443

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.77  E-value=1.9e-18  Score=145.74  Aligned_cols=140  Identities=16%  Similarity=0.112  Sum_probs=97.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCch-----hhhccccccccCccEE
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHE-----EFSIRSLPISDQLTAL  125 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e-----~~~~~~~~~~~~ad~v  125 (289)
                      ||+++|.+|||||||++++.+....  ...+.+..+     ...      .+|||||+.     .++.+. ..++.+|++
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~~~~~--~~~~~~v~~-----~~~------~~iDtpG~~~~~~~~~~~~~-~~~~~ad~i   68 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQGNYTL--ARKTQAVEF-----NDK------GDIDTPGEYFSHPRWYHALI-TTLQDVDML   68 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCcc--CccceEEEE-----CCC------CcccCCccccCCHHHHHHHH-HHHhcCCEE
Confidence            7999999999999999998754321  122332222     111      269999972     222222 336889999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      ++|+|.++..++  +..|+..+.  ...|+++++||+|+...     + .                              
T Consensus        69 l~v~d~~~~~s~--~~~~~~~~~--~~~~ii~v~nK~Dl~~~-----~-~------------------------------  108 (158)
T PRK15467         69 IYVHGANDPESR--LPAGLLDIG--VSKRQIAVISKTDMPDA-----D-V------------------------------  108 (158)
T ss_pred             EEEEeCCCcccc--cCHHHHhcc--CCCCeEEEEEccccCcc-----c-H------------------------------
Confidence            999999988776  334555542  24478999999998421     0 0                              


Q ss_pred             CCCCcHHHHHHHHHHHHHcCC--eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          206 DEEPSWEIRRSCLEWCTEHRI--EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~--~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                               ..+.+++...++  +++++||+++            .|++++|++|.+.+...
T Consensus       109 ---------~~~~~~~~~~~~~~p~~~~Sa~~g------------~gi~~l~~~l~~~~~~~  149 (158)
T PRK15467        109 ---------AATRKLLLETGFEEPIFELNSHDP------------QSVQQLVDYLASLTKQE  149 (158)
T ss_pred             ---------HHHHHHHHHcCCCCCEEEEECCCc------------cCHHHHHHHHHHhchhh
Confidence                     115677777775  8999999999            99999999998866444

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.77  E-value=1.1e-17  Score=144.06  Aligned_cols=159  Identities=16%  Similarity=0.097  Sum_probs=105.6

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCc----------hhhhcccc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLH----------EEFSIRSL  116 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~----------e~~~~~~~  116 (289)
                      ...++|+|+|++|||||||+++|.+..+...+.++.+.+........   ...+.+|||||.          +.+..+..
T Consensus        22 ~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~---~~~l~l~DtpG~~~~~~~~~~~~~~~~~~~   98 (196)
T PRK00454         22 DDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV---NDKLRLVDLPGYGYAKVSKEEKEKWQKLIE   98 (196)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEec---CCeEEEeCCCCCCCcCCCchHHHHHHHHHH
Confidence            35689999999999999999999998765555555543321111111   257999999994          44444444


Q ss_pred             ccccC---ccEEEEEEeCCCHhhHHH--HHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCccc
Q 040295          117 PISDQ---LTALVMVFNLNDLSTLDA--LKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFC  191 (289)
Q Consensus       117 ~~~~~---ad~vIlV~Dv~~~~S~~~--l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~  191 (289)
                      .+++.   ++++++|+|.+++.+...  +..|+   .. ...|+++++||+|+....     ..+.+             
T Consensus        99 ~~~~~~~~~~~~~~v~d~~~~~~~~~~~i~~~l---~~-~~~~~iiv~nK~Dl~~~~-----~~~~~-------------  156 (196)
T PRK00454         99 EYLRTRENLKGVVLLIDSRHPLKELDLQMIEWL---KE-YGIPVLIVLTKADKLKKG-----ERKKQ-------------  156 (196)
T ss_pred             HHHHhCccceEEEEEEecCCCCCHHHHHHHHHH---HH-cCCcEEEEEECcccCCHH-----HHHHH-------------
Confidence            55544   468889999887644433  22333   22 234788999999996431     11111             


Q ss_pred             CCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          192 QSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       192 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                            ...+..+......+++++||+++            .|++++++.|.+.+.+
T Consensus       157 ----------------------~~~i~~~l~~~~~~~~~~Sa~~~------------~gi~~l~~~i~~~~~~  195 (196)
T PRK00454        157 ----------------------LKKVRKALKFGDDEVILFSSLKK------------QGIDELRAAIAKWLAE  195 (196)
T ss_pred             ----------------------HHHHHHHHHhcCCceEEEEcCCC------------CCHHHHHHHHHHHhcC
Confidence                                  11134444444678999999999            9999999999887654

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.77  E-value=1.2e-17  Score=157.10  Aligned_cols=156  Identities=14%  Similarity=0.063  Sum_probs=109.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCC-CcceEEeeEEeecCcceEEEEEEEcCCchhh----hcccccc---c
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFED-ASDS-SSELLVNGWTINTKYYTADVSLWMAHLHEEF----SIRSLPI---S  119 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~-t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~----~~~~~~~---~  119 (289)
                      ...|+|+|.+|||||||++++.+..... .+.. |.........+  .+ ...+.+|||||+...    ..+...+   +
T Consensus       157 ~adV~lvG~pnaGKSTLl~~lt~~~~~va~y~fTT~~p~ig~v~~--~~-~~~~~i~D~PGli~~a~~~~gLg~~flrhi  233 (329)
T TIGR02729       157 LADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLVPNLGVVRV--DD-GRSFVIADIPGLIEGASEGAGLGHRFLKHI  233 (329)
T ss_pred             cccEEEEcCCCCCHHHHHHHHhcCCccccCCCCCccCCEEEEEEe--CC-ceEEEEEeCCCcccCCcccccHHHHHHHHH
Confidence            3569999999999999999999875321 2222 22222222222  11 256899999997421    1222233   4


Q ss_pred             cCccEEEEEEeCCCH---hhHHHHHHHHHHhhhcC----CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccC
Q 040295          120 DQLTALVMVFNLNDL---STLDALKHWVPSIDLQK----FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQ  192 (289)
Q Consensus       120 ~~ad~vIlV~Dv~~~---~S~~~l~~~~~~i~~~~----~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~  192 (289)
                      +.++++|+|+|+++.   ++++.+..|...+....    ..|+++|+||+|+...     .....+              
T Consensus       234 erad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~-----~~~~~~--------------  294 (329)
T TIGR02729       234 ERTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDE-----EELAEL--------------  294 (329)
T ss_pred             HhhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCCh-----HHHHHH--------------
Confidence            569999999999976   78888888888776553    3589999999999542     111112              


Q ss_pred             CCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          193 SGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                              ++.++...+++++++||+++            +|+++++++|.+.+
T Consensus       295 ------------------------~~~l~~~~~~~vi~iSAktg------------~GI~eL~~~I~~~l  328 (329)
T TIGR02729       295 ------------------------LKELKKALGKPVFPISALTG------------EGLDELLYALAELL  328 (329)
T ss_pred             ------------------------HHHHHHHcCCcEEEEEccCC------------cCHHHHHHHHHHHh
Confidence                                    55666667788999999999            99999999998753

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.

>cd01894 EngA1 EngA1 subfamily

Probab=99.76  E-value=4.1e-18  Score=140.34  Aligned_cols=146  Identities=16%  Similarity=0.055  Sum_probs=95.9

Q ss_pred             EEEcCCCCCHHHHHHHHhcCCC--CCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc--------cccccccCc
Q 040295           53 LIIGSSNVGKRTILSRLLSVNF--EDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI--------RSLPISDQL  122 (289)
Q Consensus        53 ~ilG~~gvGKSSLi~rl~~~~~--~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~--------~~~~~~~~a  122 (289)
                      +++|.+|||||||++++.+...  ......+. ...........  ...+.+|||||...+..        .....++.+
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~~~~t-~~~~~~~~~~~--~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~   77 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTPGVT-RDRIYGEAEWG--GREFILIDTGGIEPDDEGISKEIREQAELAIEEA   77 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecCCCCce-eCceeEEEEEC--CeEEEEEECCCCCCchhHHHHHHHHHHHHHHHhC
Confidence            5799999999999999998752  22222221 11112222222  35689999999877543        223457789


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          123 TALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       123 d~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      |++|+|+|..++.+..... +...++.. ..|+++|+||+|+....        .                         
T Consensus        78 d~ii~v~d~~~~~~~~~~~-~~~~~~~~-~~piiiv~nK~D~~~~~--------~-------------------------  122 (157)
T cd01894          78 DVILFVVDGREGLTPADEE-IAKYLRKS-KKPVILVVNKVDNIKEE--------D-------------------------  122 (157)
T ss_pred             CEEEEEEeccccCCccHHH-HHHHHHhc-CCCEEEEEECcccCChH--------H-------------------------
Confidence            9999999998765444321 22223322 35899999999996421        0                         


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                    ........++ +++++||+++            .|++++|++|+++|
T Consensus       123 --------------~~~~~~~~~~~~~~~~Sa~~~------------~gv~~l~~~l~~~~  157 (157)
T cd01894         123 --------------EAAEFYSLGFGEPIPISAEHG------------RGIGDLLDAILELL  157 (157)
T ss_pred             --------------HHHHHHhcCCCCeEEEecccC------------CCHHHHHHHHHhhC
Confidence                          0111223455 6899999999            99999999998764

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.

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.76  E-value=1e-17  Score=168.43  Aligned_cols=157  Identities=19%  Similarity=0.161  Sum_probs=113.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCC-------CCCCCCCC------cceEEee--EEeec---CcceEEEEEEEcCCchhhh
Q 040295           51 GILIIGSSNVGKRTILSRLLSVN-------FEDASDSS------SELLVNG--WTINT---KYYTADVSLWMAHLHEEFS  112 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~-------~~~~~~~t------~~~~~~~--~~i~~---~~~~~~l~I~Dt~G~e~~~  112 (289)
                      +|+|+|+.++|||||+++|+...       +...+..+      .+.++..  ..+..   ++..+.+.+|||||++.|.
T Consensus         5 Ni~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~dF~   84 (595)
T TIGR01393         5 NFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFS   84 (595)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHHHH
Confidence            69999999999999999998752       22222221      2333322  22222   3456889999999999998


Q ss_pred             ccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccC
Q 040295          113 IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQ  192 (289)
Q Consensus       113 ~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~  192 (289)
                      .....+++.+|++|+|||+++..+++....|...+.  ...|+++|+||+|+....      ...+              
T Consensus        85 ~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~--~~ipiIiViNKiDl~~~~------~~~~--------------  142 (595)
T TIGR01393        85 YEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALE--NDLEIIPVINKIDLPSAD------PERV--------------  142 (595)
T ss_pred             HHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHH--cCCCEEEEEECcCCCccC------HHHH--------------
Confidence            888889999999999999998777777777665443  234789999999984311      1111              


Q ss_pred             CCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCC---eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          193 SGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRI---EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                              ..+++...++   +++++||++|            .|++++|++|.+.+.+.
T Consensus       143 ------------------------~~el~~~lg~~~~~vi~vSAktG------------~GI~~Lle~I~~~lp~p  182 (595)
T TIGR01393       143 ------------------------KKEIEEVIGLDASEAILASAKTG------------IGIEEILEAIVKRVPPP  182 (595)
T ss_pred             ------------------------HHHHHHHhCCCcceEEEeeccCC------------CCHHHHHHHHHHhCCCC
Confidence                                    3445555555   4899999999            99999999999876543

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.76  E-value=7.7e-18  Score=165.39  Aligned_cols=153  Identities=17%  Similarity=0.114  Sum_probs=104.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCcceEEeeEEeecCcceEEEEEEEcCCchh--------hhccccccc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFED-ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEE--------FSIRSLPIS  119 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~--------~~~~~~~~~  119 (289)
                      ..+|+|+|.+|||||||+++|++..+.. ...++.+.+.....+...+  ..+.+|||||++.        +......++
T Consensus        38 ~~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~  115 (472)
T PRK03003         38 LPVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNG--RRFTVVDTGGWEPDAKGLQASVAEQAEVAM  115 (472)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECC--cEEEEEeCCCcCCcchhHHHHHHHHHHHHH
Confidence            3799999999999999999999876432 2223333333333333333  3588999999762        333345578


Q ss_pred             cCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCccc
Q 040295          120 DQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETE  199 (289)
Q Consensus       120 ~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~  199 (289)
                      +.+|++|+|||+++..++.. ..|...++. ...|+++|+||+|+....       ...                     
T Consensus       116 ~~aD~il~VvD~~~~~s~~~-~~i~~~l~~-~~~piilV~NK~Dl~~~~-------~~~---------------------  165 (472)
T PRK03003        116 RTADAVLFVVDATVGATATD-EAVARVLRR-SGKPVILAANKVDDERGE-------ADA---------------------  165 (472)
T ss_pred             HhCCEEEEEEECCCCCCHHH-HHHHHHHHH-cCCCEEEEEECccCCccc-------hhh---------------------
Confidence            89999999999998766543 234444443 345899999999984210       000                     


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          200 GSSLLGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                       ...++  .++ ..+++||++|            .|+.++|++|+..+..
T Consensus       166 -----------------~~~~~--~g~~~~~~iSA~~g------------~gi~eL~~~i~~~l~~  200 (472)
T PRK03003        166 -----------------AALWS--LGLGEPHPVSALHG------------RGVGDLLDAVLAALPE  200 (472)
T ss_pred             -----------------HHHHh--cCCCCeEEEEcCCC------------CCcHHHHHHHHhhccc
Confidence                             22232  344 3579999999            9999999999988754

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

Probab=99.75  E-value=1.3e-17  Score=142.74  Aligned_cols=123  Identities=15%  Similarity=0.075  Sum_probs=80.5

Q ss_pred             ccccccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCc----------
Q 040295           39 DSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLH----------  108 (289)
Q Consensus        39 ~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~----------  108 (289)
                      ++..++.....++|+|+|++|+|||||++++.+..+...+..+.+.+........+.   .+.+|||||.          
T Consensus         8 ~~~~~~~~~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~liDtpG~~~~~~~~~~~   84 (179)
T TIGR03598         8 VKLKQLPPDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVND---GFRLVDLPGYGYAKVSKEEK   84 (179)
T ss_pred             ccHhhCCCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeCC---cEEEEeCCCCccccCChhHH
Confidence            333455567789999999999999999999998875444444444332111111111   5899999994          


Q ss_pred             hhhhcccccccc---CccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          109 EEFSIRSLPISD---QLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       109 e~~~~~~~~~~~---~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      +.|..+...|++   .++++|+|+|.+++.+..... ++..+.. ...|+++|+||+|+..
T Consensus        85 ~~~~~~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~~-~~~~~~~-~~~pviiv~nK~D~~~  143 (179)
T TIGR03598        85 EKWQKLIEEYLEKRENLKGVVLLMDIRHPLKELDLE-MLEWLRE-RGIPVLIVLTKADKLK  143 (179)
T ss_pred             HHHHHHHHHHHHhChhhcEEEEEecCCCCCCHHHHH-HHHHHHH-cCCCEEEEEECcccCC
Confidence            334444444554   357999999998765555543 2233333 3457999999999964

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.

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.75  E-value=9.9e-18  Score=163.67  Aligned_cols=149  Identities=19%  Similarity=0.142  Sum_probs=106.3

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCC-CCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcc--------ccc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFE-DASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIR--------SLP  117 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~-~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~--------~~~  117 (289)
                      ..++||+++|.+|||||||+|+|++.+.. ....+....++....+..++  ..+.+|||||++.+...        ...
T Consensus       213 ~~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~i~l~DT~G~~~~~~~ie~~gi~~~~~  290 (449)
T PRK05291        213 REGLKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLDG--IPLRLIDTAGIRETDDEVEKIGIERSRE  290 (449)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEECC--eEEEEEeCCCCCCCccHHHHHHHHHHHH
Confidence            34589999999999999999999987642 11112222233333333343  45899999998654322        124


Q ss_pred             cccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCc
Q 040295          118 ISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISE  197 (289)
Q Consensus       118 ~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~  197 (289)
                      +++.+|++|+|||++++.+++....|..    ....|+++|+||+|+.+..        ..                   
T Consensus       291 ~~~~aD~il~VvD~s~~~s~~~~~~l~~----~~~~piiiV~NK~DL~~~~--------~~-------------------  339 (449)
T PRK05291        291 AIEEADLVLLVLDASEPLTEEDDEILEE----LKDKPVIVVLNKADLTGEI--------DL-------------------  339 (449)
T ss_pred             HHHhCCEEEEEecCCCCCChhHHHHHHh----cCCCCcEEEEEhhhccccc--------hh-------------------
Confidence            6788999999999999988887665544    3345899999999995311        00                   


Q ss_pred             ccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          198 TEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       198 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                          .   ...+.+++++||++|            .|+++++++|.+.+.
T Consensus       340 --------------------~---~~~~~~~i~iSAktg------------~GI~~L~~~L~~~l~  370 (449)
T PRK05291        340 --------------------E---EENGKPVIRISAKTG------------EGIDELREAIKELAF  370 (449)
T ss_pred             --------------------h---hccCCceEEEEeeCC------------CCHHHHHHHHHHHHh
Confidence                                1   223567999999999            999999999998764

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.75  E-value=1.6e-17  Score=160.58  Aligned_cols=160  Identities=18%  Similarity=0.106  Sum_probs=104.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCC-CCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccc-----------
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDA-SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRS-----------  115 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~-~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~-----------  115 (289)
                      ..+||+++|.+|||||||+++|++.+.... ..+....+.....+..++  ..+.+|||||+.++....           
T Consensus       171 ~~~~v~ivG~~~~GKSsLin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~e~~~~~~~  248 (429)
T TIGR03594       171 GPIKIAIIGRPNVGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFERNG--KKYLLIDTAGIRRKGKVTEGVEKYSVLRT  248 (429)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCeeecCCCCCceECcEeEEEEECC--cEEEEEECCCccccccchhhHHHHHHHHH
Confidence            458999999999999999999998764321 111111122222222233  368999999975443221           


Q ss_pred             cccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCC
Q 040295          116 LPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGI  195 (289)
Q Consensus       116 ~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~  195 (289)
                      ..+++.+|++|+|+|++++.+..... ++..+.. ...|+++|+||+|+....    +....+                 
T Consensus       249 ~~~~~~ad~~ilV~D~~~~~~~~~~~-~~~~~~~-~~~~iiiv~NK~Dl~~~~----~~~~~~-----------------  305 (429)
T TIGR03594       249 LKAIERADVVLLVLDATEGITEQDLR-IAGLILE-AGKALVIVVNKWDLVKDE----KTREEF-----------------  305 (429)
T ss_pred             HHHHHhCCEEEEEEECCCCccHHHHH-HHHHHHH-cCCcEEEEEECcccCCCH----HHHHHH-----------------
Confidence            23578899999999999887777654 3333333 345899999999996210    111111                 


Q ss_pred             CcccCCCCCCCCCCcHHHHHHHHH-HHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          196 SETEGSSLLGDEEPSWEIRRSCLE-WCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                        ...+.. +.....++++++||++|            .|++++|+++....
T Consensus       306 ------------------~~~~~~~~~~~~~~~vi~~SA~~g------------~~v~~l~~~i~~~~  343 (429)
T TIGR03594       306 ------------------KKELRRKLPFLDFAPIVFISALTG------------QGVDKLLDAIDEVY  343 (429)
T ss_pred             ------------------HHHHHHhcccCCCCceEEEeCCCC------------CCHHHHHHHHHHHH
Confidence                              111222 22223478999999999            99999999988754

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=99.75  E-value=5e-17  Score=135.43  Aligned_cols=155  Identities=19%  Similarity=0.130  Sum_probs=98.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCC-CCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc----------c-cc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDAS-DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI----------R-SL  116 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~-~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~----------~-~~  116 (289)
                      .++|+++|++|+|||||++++++..+.... .+..........+...+  ..+.+|||||......          . ..
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~   79 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDG--KKYTLIDTAGIRRKGKVEEGIEKYSVLRTL   79 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEECC--eeEEEEECCCCccccchhccHHHHHHHHHH
Confidence            479999999999999999999987643211 11111112122222232  3578999999643311          1 11


Q ss_pred             ccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCC
Q 040295          117 PISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGIS  196 (289)
Q Consensus       117 ~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~  196 (289)
                      ..++.+|++|+|+|++++.+..... ++..+... ..|+++|+||+|+.....   .....+                  
T Consensus        80 ~~~~~~d~vi~v~d~~~~~~~~~~~-~~~~~~~~-~~~~iiv~nK~Dl~~~~~---~~~~~~------------------  136 (174)
T cd01895          80 KAIERADVVLLVIDATEGITEQDLR-IAGLILEE-GKALVIVVNKWDLVEKDS---KTMKEF------------------  136 (174)
T ss_pred             HHHhhcCeEEEEEeCCCCcchhHHH-HHHHHHhc-CCCEEEEEeccccCCccH---HHHHHH------------------
Confidence            2456899999999999887766543 33333332 358899999999964310   001111                  


Q ss_pred             cccCCCCCCCCCCcHHHHHHHHHHHHH----cCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          197 ETEGSSLLGDEEPSWEIRRSCLEWCTE----HRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       197 ~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                                          ...+...    ...+++++||+++            .|+.++++.+.+
T Consensus       137 --------------------~~~~~~~~~~~~~~~~~~~Sa~~~------------~~i~~~~~~l~~  172 (174)
T cd01895         137 --------------------KKEIRRKLPFLDYAPIVFISALTG------------QGVDKLFDAIDE  172 (174)
T ss_pred             --------------------HHHHHhhcccccCCceEEEeccCC------------CCHHHHHHHHHH
Confidence                                1112222    2367999999999            999999999876

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.

>cd04163 Era Era subfamily

Probab=99.74  E-value=5.2e-17  Score=133.86  Aligned_cols=156  Identities=15%  Similarity=0.087  Sum_probs=98.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc--------ccccccc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI--------RSLPISD  120 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~--------~~~~~~~  120 (289)
                      ..+|+++|++|+|||||++++.+..+................+ .......+.+|||||......        .....+.
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   81 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGI-YTDDDAQIIFVDTPGIHKPKKKLGERMVKAAWSALK   81 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCceEeccCCCCceeceEEEE-EEcCCeEEEEEECCCCCcchHHHHHHHHHHHHHHHH
Confidence            3689999999999999999999876532211111111111111 111235789999999653321        2234577


Q ss_pred             CccEEEEEEeCCCHhhHHHHH-HHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCccc
Q 040295          121 QLTALVMVFNLNDLSTLDALK-HWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETE  199 (289)
Q Consensus       121 ~ad~vIlV~Dv~~~~S~~~l~-~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~  199 (289)
                      .+|++++|+|.+++  +.... .+...+... ..|+++|+||+|+....    +.....                     
T Consensus        82 ~~d~i~~v~d~~~~--~~~~~~~~~~~~~~~-~~~~iiv~nK~Dl~~~~----~~~~~~---------------------  133 (168)
T cd04163          82 DVDLVLFVVDASEP--IGEGDEFILELLKKS-KTPVILVLNKIDLVKDK----EDLLPL---------------------  133 (168)
T ss_pred             hCCEEEEEEECCCc--cCchHHHHHHHHHHh-CCCEEEEEEchhccccH----HHHHHH---------------------
Confidence            89999999999987  22222 223333333 34788899999996311    111111                     


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          200 GSSLLGDEEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                       ...+....+ .+++++|++++            .|++++++.|.+.|
T Consensus       134 -----------------~~~~~~~~~~~~~~~~s~~~~------------~~~~~l~~~l~~~~  168 (168)
T cd04163         134 -----------------LEKLKELGPFAEIFPISALKG------------ENVDELLEEIVKYL  168 (168)
T ss_pred             -----------------HHHHHhccCCCceEEEEeccC------------CChHHHHHHHHhhC
Confidence                             334444443 57999999999            99999999998754

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.

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

Probab=99.74  E-value=3.7e-17  Score=143.29  Aligned_cols=158  Identities=16%  Similarity=0.136  Sum_probs=102.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCC--C-CCC--CCCCcceEEeeEEee---------cC----------------c----
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVN--F-EDA--SDSSSELLVNGWTIN---------TK----------------Y----   95 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~--~-~~~--~~~t~~~~~~~~~i~---------~~----------------~----   95 (289)
                      +.|+++|+.|+|||||+..+.+..  + ...  ...+....+......         ..                +    
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETK   80 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCccc
Confidence            468999999999999999997542  1 111  111222111111111         00                0    


Q ss_pred             ceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCH----hhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCch
Q 040295           96 YTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDL----STLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVH  171 (289)
Q Consensus        96 ~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~----~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~  171 (289)
                      ....+.+|||||++.|.......+..+|++++|+|++++    .+++.+..|    ...+.+|+++|+||+|+....   
T Consensus        81 ~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~----~~~~~~~iiivvNK~Dl~~~~---  153 (203)
T cd01888          81 LVRHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAAL----EIMGLKHIIIVQNKIDLVKEE---  153 (203)
T ss_pred             cccEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHH----HHcCCCcEEEEEEchhccCHH---
Confidence            125789999999998876555667788999999999863    444444433    233345788999999996321   


Q ss_pred             hHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHc---CCeEEEeecCCCcccccccCCCCc
Q 040295          172 AEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEH---RIEYIEACASNVDFDKCLSIDGDS  248 (289)
Q Consensus       172 ~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~ie~Sa~~~~~~~~~~~~~~~  248 (289)
                       +..                                    ...+.+++++..+   +++++++||++|            
T Consensus       154 -~~~------------------------------------~~~~~i~~~~~~~~~~~~~i~~vSA~~g------------  184 (203)
T cd01888         154 -QAL------------------------------------ENYEQIKKFVKGTIAENAPIIPISAQLK------------  184 (203)
T ss_pred             -HHH------------------------------------HHHHHHHHHHhccccCCCcEEEEeCCCC------------
Confidence             000                                    1112244555443   567999999999            


Q ss_pred             hhHHHHHHHHHHhcc
Q 040295          249 QGVERLYGALSAHMW  263 (289)
Q Consensus       249 ~~i~~l~~~L~~~~~  263 (289)
                      .|++++|+.|...+.
T Consensus       185 ~gi~~L~~~l~~~l~  199 (203)
T cd01888         185 YNIDVLLEYIVKKIP  199 (203)
T ss_pred             CCHHHHHHHHHHhCC
Confidence            999999999987653

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

>PRK00089 era GTPase Era; Reviewed

Probab=99.74  E-value=9.6e-17  Score=147.87  Aligned_cols=157  Identities=15%  Similarity=0.169  Sum_probs=102.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCC--CCCcceEEeeEEeecCcceEEEEEEEcCCchhhh--------ccccccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDAS--DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFS--------IRSLPIS  119 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~--~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~--------~~~~~~~  119 (289)
                      -.|+|+|++|||||||+|++++..+....  ..|......... ...  ...+.+|||||.....        ......+
T Consensus         6 g~V~iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~~~i~~i~-~~~--~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~   82 (292)
T PRK00089          6 GFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRHRIRGIV-TED--DAQIIFVDTPGIHKPKRALNRAMNKAAWSSL   82 (292)
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCceeecCCCCCcccccEEEEE-EcC--CceEEEEECCCCCCchhHHHHHHHHHHHHHH
Confidence            35999999999999999999988764322  222222222211 112  2679999999974322        1222356


Q ss_pred             cCccEEEEEEeCCCHhhHHHHHHHH-HHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcc
Q 040295          120 DQLTALVMVFNLNDLSTLDALKHWV-PSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISET  198 (289)
Q Consensus       120 ~~ad~vIlV~Dv~~~~S~~~l~~~~-~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~  198 (289)
                      ..+|++++|+|+++.  +.....++ ..+. ....|+++|+||+|+....    +...                      
T Consensus        83 ~~~D~il~vvd~~~~--~~~~~~~i~~~l~-~~~~pvilVlNKiDl~~~~----~~l~----------------------  133 (292)
T PRK00089         83 KDVDLVLFVVDADEK--IGPGDEFILEKLK-KVKTPVILVLNKIDLVKDK----EELL----------------------  133 (292)
T ss_pred             hcCCEEEEEEeCCCC--CChhHHHHHHHHh-hcCCCEEEEEECCcCCCCH----HHHH----------------------
Confidence            789999999999873  22222222 2333 2234899999999996321    1111                      


Q ss_pred             cCCCCCCCCCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          199 EGSSLLGDEEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                                      .....+....+ .+++++||+++            .|++++++.|...+.++.
T Consensus       134 ----------------~~~~~l~~~~~~~~i~~iSA~~~------------~gv~~L~~~L~~~l~~~~  174 (292)
T PRK00089        134 ----------------PLLEELSELMDFAEIVPISALKG------------DNVDELLDVIAKYLPEGP  174 (292)
T ss_pred             ----------------HHHHHHHhhCCCCeEEEecCCCC------------CCHHHHHHHHHHhCCCCC
Confidence                            12556666555 46999999999            999999999999876554

>PRK11058 GTPase HflX; Provisional

Probab=99.73  E-value=5.9e-17  Score=157.10  Aligned_cols=153  Identities=18%  Similarity=0.197  Sum_probs=103.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCC--CCCCcceEEeeEEeecCcceEEEEEEEcCCchh---------hhcccccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDA--SDSSSELLVNGWTINTKYYTADVSLWMAHLHEE---------FSIRSLPI  118 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~--~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~---------~~~~~~~~  118 (289)
                      ++|+|+|.+|||||||+|+|.+.++...  ...|.........+...   ..+.+|||+|..+         |... ...
T Consensus       198 p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~---~~~~l~DTaG~~r~lp~~lve~f~~t-l~~  273 (426)
T PRK11058        198 PTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADV---GETVLADTVGFIRHLPHDLVAAFKAT-LQE  273 (426)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCC---CeEEEEecCcccccCCHHHHHHHHHH-HHH
Confidence            6899999999999999999998775422  12333333323333221   2578999999733         2221 233


Q ss_pred             ccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCC
Q 040295          119 SDQLTALVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGIS  196 (289)
Q Consensus       119 ~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~  196 (289)
                      ++.+|++|+|+|++++.+++.+..|...+....  ..|+|+|+||+|+.+..      ...+                  
T Consensus       274 ~~~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~~~------~~~~------------------  329 (426)
T PRK11058        274 TRQATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDDF------EPRI------------------  329 (426)
T ss_pred             hhcCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCCch------hHHH------------------
Confidence            678999999999999988888765544443332  34899999999995320      0001                  


Q ss_pred             cccCCCCCCCCCCcHHHHHHHHHHHHHcCCe-EEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          197 ETEGSSLLGDEEPSWEIRRSCLEWCTEHRIE-YIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       197 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                           .  ....+++ ++++||++|            .|+++++++|...+...
T Consensus       330 ---------------------~--~~~~~~~~~v~ISAktG------------~GIdeL~e~I~~~l~~~  364 (426)
T PRK11058        330 ---------------------D--RDEENKPIRVWLSAQTG------------AGIPLLFQALTERLSGE  364 (426)
T ss_pred             ---------------------H--HHhcCCCceEEEeCCCC------------CCHHHHHHHHHHHhhhc
Confidence                                 0  0123444 588999999            99999999999887543

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.72  E-value=1e-16  Score=161.01  Aligned_cols=155  Identities=15%  Similarity=0.126  Sum_probs=110.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC---CCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV---NFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~---~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      +.|+++|++++|||||+++|.+.   .+.+++..+.+.++....+...+  ..+.+||+||++.|......++.++|++|
T Consensus         1 ~~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~--~~v~~iDtPGhe~f~~~~~~g~~~aD~aI   78 (581)
T TIGR00475         1 MIIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD--YRLGFIDVPGHEKFISNAIAGGGGIDAAL   78 (581)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC--EEEEEEECCCHHHHHHHHHhhhccCCEEE
Confidence            35899999999999999999963   33334444444443322333333  67999999999999877777788999999


Q ss_pred             EEEeCCC---HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          127 MVFNLND---LSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       127 lV~Dv~~---~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      +|+|+++   +++++.+. +   +...+.+++++|+||+|+.+.      .  .+                         
T Consensus        79 LVVDa~~G~~~qT~ehl~-i---l~~lgi~~iIVVlNK~Dlv~~------~--~~-------------------------  121 (581)
T TIGR00475        79 LVVDADEGVMTQTGEHLA-V---LDLLGIPHTIVVITKADRVNE------E--EI-------------------------  121 (581)
T ss_pred             EEEECCCCCcHHHHHHHH-H---HHHcCCCeEEEEEECCCCCCH------H--HH-------------------------
Confidence            9999997   66766654 2   333344458999999999642      1  11                         


Q ss_pred             CCCCCCcHHHHHHHHHHHHHc----CCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEH----RIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~----~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                             ......+.+++..+    +++++++||++|            .|+++++..|...+
T Consensus       122 -------~~~~~ei~~~l~~~~~~~~~~ii~vSA~tG------------~GI~eL~~~L~~l~  165 (581)
T TIGR00475       122 -------KRTEMFMKQILNSYIFLKNAKIFKTSAKTG------------QGIGELKKELKNLL  165 (581)
T ss_pred             -------HHHHHHHHHHHHHhCCCCCCcEEEEeCCCC------------CCchhHHHHHHHHH
Confidence                   11122355666554    468999999999            99999999887654

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.

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.72  E-value=9.8e-17  Score=160.94  Aligned_cols=113  Identities=16%  Similarity=0.227  Sum_probs=81.6

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ....+|+|+|++++|||||+++|.+..+......++........+...+. ..+.+|||||++.|..++...++.+|++|
T Consensus        85 ~r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~-~~i~~iDTPGhe~F~~~r~rga~~aDiaI  163 (587)
T TIGR00487        85 ERPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDG-KMITFLDTPGHEAFTSMRARGAKVTDIVV  163 (587)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCC-cEEEEEECCCCcchhhHHHhhhccCCEEE
Confidence            35578999999999999999999988876544333333322223322221 16899999999999988888899999999


Q ss_pred             EEEeCCC---HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCC
Q 040295          127 MVFNLND---LSTLDALKHWVPSIDLQKFEILLCIGNKVDLL  165 (289)
Q Consensus       127 lV~Dv~~---~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~  165 (289)
                      +|||.++   +++++.+.    .... ...|+++++||+|+.
T Consensus       164 LVVda~dgv~~qT~e~i~----~~~~-~~vPiIVviNKiDl~  200 (587)
T TIGR00487       164 LVVAADDGVMPQTIEAIS----HAKA-ANVPIIVAINKIDKP  200 (587)
T ss_pred             EEEECCCCCCHhHHHHHH----HHHH-cCCCEEEEEECcccc
Confidence            9999986   45554432    2222 234799999999995

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.

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.71  E-value=2.1e-16  Score=161.36  Aligned_cols=161  Identities=15%  Similarity=0.175  Sum_probs=110.0

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcc--eEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCcc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSE--LLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLT  123 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~--~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad  123 (289)
                      ..+...|+|+|+.++|||||+++|....+......+..  ...+...+...+....+.+|||||++.|..++..+++.+|
T Consensus       241 ~~r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~rg~~~aD  320 (742)
T CHL00189        241 INRPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTD  320 (742)
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHHHHHHCC
Confidence            34557899999999999999999998877543222222  1223333333334578999999999999988888899999


Q ss_pred             EEEEEEeCCC---HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          124 ALVMVFNLND---LSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       124 ~vIlV~Dv~~---~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      ++|+|+|+++   +++++.+..    +.. ...|+|+|+||+|+....  .....+.+.                     
T Consensus       321 iaILVVDA~dGv~~QT~E~I~~----~k~-~~iPiIVViNKiDl~~~~--~e~v~~eL~---------------------  372 (742)
T CHL00189        321 IAILIIAADDGVKPQTIEAINY----IQA-ANVPIIVAINKIDKANAN--TERIKQQLA---------------------  372 (742)
T ss_pred             EEEEEEECcCCCChhhHHHHHH----HHh-cCceEEEEEECCCccccC--HHHHHHHHH---------------------
Confidence            9999999987   456655543    222 234899999999995321  000011110                     


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcC--CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHR--IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                     ....+...++  ++++++||++|            .|++++++.|...
T Consensus       373 ---------------~~~ll~e~~g~~vpvv~VSAktG------------~GIdeLle~I~~l  408 (742)
T CHL00189        373 ---------------KYNLIPEKWGGDTPMIPISASQG------------TNIDKLLETILLL  408 (742)
T ss_pred             ---------------HhccchHhhCCCceEEEEECCCC------------CCHHHHHHhhhhh
Confidence                           0001122333  68999999999            9999999998764

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.71  E-value=2.2e-16  Score=152.75  Aligned_cols=155  Identities=14%  Similarity=0.071  Sum_probs=107.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCC-CcceEEeeEEeecCcceEEEEEEEcCCchh----hhcccccc---cc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFED-ASDS-SSELLVNGWTINTKYYTADVSLWMAHLHEE----FSIRSLPI---SD  120 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~-t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~----~~~~~~~~---~~  120 (289)
                      ..|+++|.+|||||||++++++.+... .+.. |....+..+.+..   ...+.+||+||.-.    ...+...+   ++
T Consensus       159 adVglVG~pNaGKSTLLn~Lt~ak~kIa~ypfTTl~PnlG~v~~~~---~~~~~laD~PGliega~~~~gLg~~fLrhie  235 (424)
T PRK12297        159 ADVGLVGFPNVGKSTLLSVVSNAKPKIANYHFTTLVPNLGVVETDD---GRSFVMADIPGLIEGASEGVGLGHQFLRHIE  235 (424)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHcCCCccccCCcceeceEEEEEEEeC---CceEEEEECCCCcccccccchHHHHHHHHHh
Confidence            379999999999999999999876321 1222 2222222222221   24689999999632    22222333   45


Q ss_pred             CccEEEEEEeCCCH---hhHHHHHHHHHHhhhcC----CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCC
Q 040295          121 QLTALVMVFNLNDL---STLDALKHWVPSIDLQK----FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQS  193 (289)
Q Consensus       121 ~ad~vIlV~Dv~~~---~S~~~l~~~~~~i~~~~----~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~  193 (289)
                      .++++|+|+|+++.   +.++.+..|...+..+.    ..|++||+||+|+...        ...               
T Consensus       236 r~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~~--------~e~---------------  292 (424)
T PRK12297        236 RTRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPEA--------EEN---------------  292 (424)
T ss_pred             hCCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcCC--------HHH---------------
Confidence            68999999999864   67788888888776653    3489999999998321        111               


Q ss_pred             CCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          194 GISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                             +..++...+.+++++||+++            +|+++++++|.+.+...
T Consensus       293 -----------------------l~~l~~~l~~~i~~iSA~tg------------eGI~eL~~~L~~~l~~~  329 (424)
T PRK12297        293 -----------------------LEEFKEKLGPKVFPISALTG------------QGLDELLYAVAELLEET  329 (424)
T ss_pred             -----------------------HHHHHHHhCCcEEEEeCCCC------------CCHHHHHHHHHHHHHhC
Confidence                                   35566666678999999999            99999999998876443

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

Probab=99.70  E-value=1.2e-16  Score=140.14  Aligned_cols=118  Identities=19%  Similarity=0.261  Sum_probs=89.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCc-cEEEEEE
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQL-TALVMVF  129 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~a-d~vIlV~  129 (289)
                      +|+++|++|||||||+++|..+.+...+.++ .................+.+||+||+++++.....+++.+ +++|+|+
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~~t~~s~-~~~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~Vv   80 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYRSTVTSI-EPNVATFILNSEGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVV   80 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCccCcE-eecceEEEeecCCCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEE
Confidence            6899999999999999999999876655443 2222222222223346799999999999988888888998 9999999


Q ss_pred             eCCCH-hhHHHHHHHHHHhhh----c-CCCeEEEEeeCCCCCCCCC
Q 040295          130 NLNDL-STLDALKHWVPSIDL----Q-KFEILLCIGNKVDLLPGHP  169 (289)
Q Consensus       130 Dv~~~-~S~~~l~~~~~~i~~----~-~~~~iivvgnK~Dl~~~~~  169 (289)
                      |.++. .++..+..|+..+..    . ...|+++|+||+|+....+
T Consensus        81 D~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a~~  126 (203)
T cd04105          81 DSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTAKP  126 (203)
T ss_pred             ECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhcccCC
Confidence            99987 788887777655422    1 3459999999999976543

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

>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.70  E-value=3.2e-16  Score=128.13  Aligned_cols=171  Identities=20%  Similarity=0.227  Sum_probs=127.5

Q ss_pred             hhhhhheecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEE
Q 040295           25 LSFVRVLIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWM  104 (289)
Q Consensus        25 ~~~~~~~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~D  104 (289)
                      +|++--..||.++            ++|+++|-.++||||++.++.-+. +....+|.|+....++    ++.+++.+||
T Consensus         5 ~sk~~~k~f~~KE------------~~ilmlGLd~aGKTtiLyKLkl~~-~~~~ipTvGFnvetVt----ykN~kfNvwd   67 (180)
T KOG0071|consen    5 MSKLLSKIFGNKE------------MRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVT----YKNVKFNVWD   67 (180)
T ss_pred             HHHHHHHHhCccc------------ceEEEEecccCCceehhhHHhcCC-CcccccccceeEEEEE----eeeeEEeeee
Confidence            4555555666654            699999999999999999998777 3567788887765544    3467899999


Q ss_pred             cCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhc
Q 040295          105 AHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKR  181 (289)
Q Consensus       105 t~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~  181 (289)
                      .+|++..+.+|.+|+.+..++|||.|..+.+..+++++-+..+-..   ..-++++.+||.|+.....+. +....+   
T Consensus        68 vGGqd~iRplWrhYy~gtqglIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~~pq-ei~d~l---  143 (180)
T KOG0071|consen   68 VGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDAMKPQ-EIQDKL---  143 (180)
T ss_pred             ccCchhhhHHHHhhccCCceEEEEEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCcccccccCHH-HHHHHh---
Confidence            9999999999999999999999999999998899888665555322   334899999999995433221 111111   


Q ss_pred             ccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          182 EESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       182 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                             .           .+. ++....-...+||.++            .|+.+-|.+|+..
T Consensus       144 -----------------------e-----------Le~-~r~~~W~vqp~~a~~g------------dgL~eglswlsnn  176 (180)
T KOG0071|consen  144 -----------------------E-----------LER-IRDRNWYVQPSCALSG------------DGLKEGLSWLSNN  176 (180)
T ss_pred             -----------------------c-----------ccc-ccCCccEeeccccccc------------hhHHHHHHHHHhh
Confidence                                   0           111 2223344678999999            9999999999876


Q ss_pred             cc
Q 040295          262 MW  263 (289)
Q Consensus       262 ~~  263 (289)
                      +-
T Consensus       177 ~~  178 (180)
T KOG0071|consen  177 LK  178 (180)
T ss_pred             cc
Confidence            53

>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=99.70  E-value=1.3e-16  Score=134.70  Aligned_cols=148  Identities=16%  Similarity=0.115  Sum_probs=97.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccc------cccc--cC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRS------LPIS--DQ  121 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~------~~~~--~~  121 (289)
                      |+|+++|.||||||||+|++++.+......+....+...-.+...+  ..+.+.|+||...+....      ..++  ..
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~~--~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~   78 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKLGD--QQVELVDLPGIYSLSSKSEEERVARDYLLSEK   78 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETT--EEEEEEE----SSSSSSSHHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEecC--ceEEEEECCCcccCCCCCcHHHHHHHHHhhcC
Confidence            6899999999999999999999885433233333333333333332  579999999965443322      2333  57


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          122 LTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       122 ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      .|++|+|.|.++.+.--.+   ...+...+ .|+++|.||+|+...        +.+                       
T Consensus        79 ~D~ii~VvDa~~l~r~l~l---~~ql~e~g-~P~vvvlN~~D~a~~--------~g~-----------------------  123 (156)
T PF02421_consen   79 PDLIIVVVDATNLERNLYL---TLQLLELG-IPVVVVLNKMDEAER--------KGI-----------------------  123 (156)
T ss_dssp             SSEEEEEEEGGGHHHHHHH---HHHHHHTT-SSEEEEEETHHHHHH--------TTE-----------------------
T ss_pred             CCEEEEECCCCCHHHHHHH---HHHHHHcC-CCEEEEEeCHHHHHH--------cCC-----------------------
Confidence            9999999999875433333   33333333 489999999999531        111                       


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHH
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGAL  258 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L  258 (289)
                         ..         ....+....|++.+.+||+++            +|++++++++
T Consensus       124 ---~i---------d~~~Ls~~Lg~pvi~~sa~~~------------~g~~~L~~~I  156 (156)
T PF02421_consen  124 ---EI---------DAEKLSERLGVPVIPVSARTG------------EGIDELKDAI  156 (156)
T ss_dssp             ---EE----------HHHHHHHHTS-EEEEBTTTT------------BTHHHHHHHH
T ss_pred             ---EE---------CHHHHHHHhCCCEEEEEeCCC------------cCHHHHHhhC
Confidence               01         157888888999999999999            9999999875

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 ....

>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]

Probab=99.70  E-value=3.1e-17  Score=134.97  Aligned_cols=113  Identities=19%  Similarity=0.202  Sum_probs=95.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      ...+.++|-.++|||||++....+.+.+...+|.|...+..    ....+.+.+||.+||.+|++++..|+++++++++|
T Consensus        20 emel~lvGLq~sGKtt~Vn~ia~g~~~edmiptvGfnmrk~----tkgnvtiklwD~gGq~rfrsmWerycR~v~aivY~   95 (186)
T KOG0075|consen   20 EMELSLVGLQNSGKTTLVNVIARGQYLEDMIPTVGFNMRKV----TKGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVYV   95 (186)
T ss_pred             eeeEEEEeeccCCcceEEEEEeeccchhhhcccccceeEEe----ccCceEEEEEecCCCccHHHHHHHHhhcCcEEEEE
Confidence            36799999999999999999999999999999999776543    33457899999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhh---hcCCCeEEEEeeCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSID---LQKFEILLCIGNKVDLL  165 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~---~~~~~~iivvgnK~Dl~  165 (289)
                      .|..+++.++..++-+..+-   .....|++|.|||.|+.
T Consensus        96 VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~  135 (186)
T KOG0075|consen   96 VDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLP  135 (186)
T ss_pred             eecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCc
Confidence            99999998887775444442   22344999999999994

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.70  E-value=4.8e-16  Score=128.51  Aligned_cols=152  Identities=15%  Similarity=0.089  Sum_probs=98.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCc----------hhhhcccccccc
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLH----------EEFSIRSLPISD  120 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~----------e~~~~~~~~~~~  120 (289)
                      +|+++|++|||||||++.+.++.+......+.+.......+....   .+.+|||||.          +.+......|+.
T Consensus         1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~   77 (170)
T cd01876           1 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNVND---KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLE   77 (170)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEccC---eEEEecCCCccccccCHHHHHHHHHHHHHHHH
Confidence            489999999999999999997666555545544433222222222   6899999984          234444444443


Q ss_pred             ---CccEEEEEEeCCCH--hhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCC
Q 040295          121 ---QLTALVMVFNLNDL--STLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGI  195 (289)
Q Consensus       121 ---~ad~vIlV~Dv~~~--~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~  195 (289)
                         .++++++++|.++.  .....+..|+....    .|+++|+||+|+....     ..+..                 
T Consensus        78 ~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~~~----~~vi~v~nK~D~~~~~-----~~~~~-----------------  131 (170)
T cd01876          78 NRENLKGVVLLIDSRHGPTEIDLEMLDWLEELG----IPFLVVLTKADKLKKS-----ELAKA-----------------  131 (170)
T ss_pred             hChhhhEEEEEEEcCcCCCHhHHHHHHHHHHcC----CCEEEEEEchhcCChH-----HHHHH-----------------
Confidence               45789999998865  33334445655442    4789999999996421     11111                 


Q ss_pred             CcccCCCCCCCCCCcHHHHHHHHHHHH--HcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          196 SETEGSSLLGDEEPSWEIRRSCLEWCT--EHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                        ......+..  ....+++++||+++            .++.++++.|.+.
T Consensus       132 ------------------~~~~~~~l~~~~~~~~~~~~Sa~~~------------~~~~~l~~~l~~~  169 (170)
T cd01876         132 ------------------LKEIKKELKLFEIDPPIILFSSLKG------------QGIDELRALIEKW  169 (170)
T ss_pred             ------------------HHHHHHHHHhccCCCceEEEecCCC------------CCHHHHHHHHHHh
Confidence                              111223332  33457999999999            9999999999875

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.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.69  E-value=3.6e-16  Score=160.78  Aligned_cols=158  Identities=16%  Similarity=0.238  Sum_probs=107.6

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ..+...|+|+|+.++|||||+++|....+.......+........+...+  ..+.||||||++.|..++...++.+|++
T Consensus       287 ~~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~~--~~ItfiDTPGhe~F~~m~~rga~~aDia  364 (787)
T PRK05306        287 VPRPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETNG--GKITFLDTPGHEAFTAMRARGAQVTDIV  364 (787)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEECC--EEEEEEECCCCccchhHHHhhhhhCCEE
Confidence            45668899999999999999999998776544332222222222233332  4689999999999998888888999999


Q ss_pred             EEEEeCCC---HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          126 VMVFNLND---LSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       126 IlV~Dv~~---~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      |||||+++   +++++.+.    ..... ..|+||++||+|+.....  ......+                        
T Consensus       365 ILVVdAddGv~~qT~e~i~----~a~~~-~vPiIVviNKiDl~~a~~--e~V~~eL------------------------  413 (787)
T PRK05306        365 VLVVAADDGVMPQTIEAIN----HAKAA-GVPIIVAINKIDKPGANP--DRVKQEL------------------------  413 (787)
T ss_pred             EEEEECCCCCCHhHHHHHH----HHHhc-CCcEEEEEECccccccCH--HHHHHHH------------------------
Confidence            99999987   55555442    12222 347999999999943110  0001111                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcC--CeEEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHR--IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~--~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                                  .....++..++  ++++++||++|            .|++++|+.|..
T Consensus       414 ------------~~~~~~~e~~g~~vp~vpvSAktG------------~GI~eLle~I~~  449 (787)
T PRK05306        414 ------------SEYGLVPEEWGGDTIFVPVSAKTG------------EGIDELLEAILL  449 (787)
T ss_pred             ------------HHhcccHHHhCCCceEEEEeCCCC------------CCchHHHHhhhh
Confidence                        00112233344  68999999999            999999999875

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.69  E-value=3.7e-16  Score=151.59  Aligned_cols=147  Identities=17%  Similarity=0.079  Sum_probs=99.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCcceEEeeEEeecCcceEEEEEEEcCCchh--------hhcccccccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFED-ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEE--------FSIRSLPISD  120 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~--------~~~~~~~~~~  120 (289)
                      ++|+|+|.+|||||||+++|.+..... ...+..+.+.....+...+  ..+.+|||||++.        +......+++
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~   79 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLG--REFILIDTGGIEPDDDGFEKQIREQAELAIE   79 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeCCCCCCcccceEEEEEECC--cEEEEEECCCCCCcchhHHHHHHHHHHHHHH
Confidence            589999999999999999999876421 1112222222222333333  5799999999876        2222345678


Q ss_pred             CccEEEEEEeCCCHhhHH--HHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcc
Q 040295          121 QLTALVMVFNLNDLSTLD--ALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISET  198 (289)
Q Consensus       121 ~ad~vIlV~Dv~~~~S~~--~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~  198 (289)
                      .+|++|+|+|.+++.+..  .+..|+...    ..|+++|+||+|+...       .. .                    
T Consensus        80 ~ad~il~vvd~~~~~~~~~~~~~~~l~~~----~~piilv~NK~D~~~~-------~~-~--------------------  127 (435)
T PRK00093         80 EADVILFVVDGRAGLTPADEEIAKILRKS----NKPVILVVNKVDGPDE-------EA-D--------------------  127 (435)
T ss_pred             hCCEEEEEEECCCCCCHHHHHHHHHHHHc----CCcEEEEEECccCccc-------hh-h--------------------
Confidence            899999999998754432  344554432    4589999999997421       00 0                    


Q ss_pred             cCCCCCCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          199 EGSSLLGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                        +.++ ...++ +++++||++|            .|+.++|+.+...
T Consensus       128 ------------------~~~~-~~lg~~~~~~iSa~~g------------~gv~~l~~~I~~~  160 (435)
T PRK00093        128 ------------------AYEF-YSLGLGEPYPISAEHG------------RGIGDLLDAILEE  160 (435)
T ss_pred             ------------------HHHH-HhcCCCCCEEEEeeCC------------CCHHHHHHHHHhh
Confidence                              2233 24566 4899999999            9999999999873

>cd00880 Era_like Era (E

Probab=99.69  E-value=5.8e-16  Score=125.73  Aligned_cols=154  Identities=18%  Similarity=0.156  Sum_probs=100.4

Q ss_pred             EEcCCCCCHHHHHHHHhcCCCCC-CCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccc-------cccccCccEE
Q 040295           54 IIGSSNVGKRTILSRLLSVNFED-ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRS-------LPISDQLTAL  125 (289)
Q Consensus        54 ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~-------~~~~~~ad~v  125 (289)
                      |+|++|+|||||++++.+..+.. .................. ....+.+|||||+..+....       ..+++.+|++
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~i   79 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELG-PLGPVVLIDTPGIDEAGGLGREREELARRVLERADLI   79 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEec-CCCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEE
Confidence            58999999999999999876542 111111111111121111 03568999999987654332       2467889999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      ++|+|.+++....... |...... ...|+++|+||+|+.....     ....                           
T Consensus        80 l~v~~~~~~~~~~~~~-~~~~~~~-~~~~~ivv~nK~D~~~~~~-----~~~~---------------------------  125 (163)
T cd00880          80 LFVVDADLRADEEEEK-LLELLRE-RGKPVLLVLNKIDLLPEEE-----EEEL---------------------------  125 (163)
T ss_pred             EEEEeCCCCCCHHHHH-HHHHHHh-cCCeEEEEEEccccCChhh-----HHHH---------------------------
Confidence            9999999887776665 3333333 3347899999999975321     0100                           


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                             .+..........+++++++||+++            .|++++++.|.+.
T Consensus       126 -------~~~~~~~~~~~~~~~~~~~sa~~~------------~~v~~l~~~l~~~  162 (163)
T cd00880         126 -------LELRLLILLLLLGLPVIAVSALTG------------EGIDELREALIEA  162 (163)
T ss_pred             -------HHHHHhhcccccCCceEEEeeecc------------CCHHHHHHHHHhh
Confidence                   000123334445678999999999            9999999999875

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

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.68  E-value=6.1e-16  Score=149.60  Aligned_cols=149  Identities=15%  Similarity=0.118  Sum_probs=100.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCC-CCCCcceEEeeEEeecCcceEEEEEEEcCCc--------hhhhccccccccC
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDA-SDSSSELLVNGWTINTKYYTADVSLWMAHLH--------EEFSIRSLPISDQ  121 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~-~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~--------e~~~~~~~~~~~~  121 (289)
                      +|+|+|.+|||||||+|+|++...... ..+....+.....+...+  ..+.+|||||.        +.+......+++.
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~~~--~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~   78 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWGG--REFILIDTGGIEEDDDGLDKQIREQAEIAIEE   78 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceecCCCCcccCceEEEEEECC--eEEEEEECCCCCCcchhHHHHHHHHHHHHHhh
Confidence            589999999999999999998764211 111221122222333332  35999999996        3344444566889


Q ss_pred             ccEEEEEEeCCCHhhHHH--HHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCccc
Q 040295          122 LTALVMVFNLNDLSTLDA--LKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETE  199 (289)
Q Consensus       122 ad~vIlV~Dv~~~~S~~~--l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~  199 (289)
                      +|++++|+|.+++.+...  +..|+..    ...|+++|+||+|+....        ..                     
T Consensus        79 ad~vl~vvD~~~~~~~~d~~i~~~l~~----~~~piilVvNK~D~~~~~--------~~---------------------  125 (429)
T TIGR03594        79 ADVILFVVDGREGLTPEDEEIAKWLRK----SGKPVILVANKIDGKKED--------AV---------------------  125 (429)
T ss_pred             CCEEEEEEeCCCCCCHHHHHHHHHHHH----hCCCEEEEEECccCCccc--------cc---------------------
Confidence            999999999987544432  3344432    235899999999985321        00                     


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          200 GSSLLGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                       ..+ ....++ +++++||++|            .|+.++++++...+..
T Consensus       126 -----------------~~~-~~~lg~~~~~~vSa~~g------------~gv~~ll~~i~~~l~~  161 (429)
T TIGR03594       126 -----------------AAE-FYSLGFGEPIPISAEHG------------RGIGDLLDAILELLPE  161 (429)
T ss_pred             -----------------HHH-HHhcCCCCeEEEeCCcC------------CChHHHHHHHHHhcCc
Confidence                             222 234577 6999999999            9999999999987644

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.67  E-value=8e-16  Score=149.24  Aligned_cols=160  Identities=17%  Similarity=0.129  Sum_probs=102.9

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCcceEEeeEEeecCcceEEEEEEEcCCchh----------hhccc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFED-ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEE----------FSIRS  115 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~----------~~~~~  115 (289)
                      ...++|+|+|.+|+|||||+++|++.+... ...+....+.....+...  ...+.+|||||...          |....
T Consensus       171 ~~~~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~--~~~~~lvDT~G~~~~~~~~~~~e~~~~~~  248 (435)
T PRK00093        171 DEPIKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERD--GQKYTLIDTAGIRRKGKVTEGVEKYSVIR  248 (435)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEEC--CeeEEEEECCCCCCCcchhhHHHHHHHHH
Confidence            346999999999999999999999876422 112222222222222223  34578999999532          21111


Q ss_pred             -cccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCC
Q 040295          116 -LPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSG  194 (289)
Q Consensus       116 -~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~  194 (289)
                       ..+++.+|++|+|+|++++.+.+... +...+.. ...|+++|+||+|+...     +....+                
T Consensus       249 ~~~~~~~ad~~ilViD~~~~~~~~~~~-i~~~~~~-~~~~~ivv~NK~Dl~~~-----~~~~~~----------------  305 (435)
T PRK00093        249 TLKAIERADVVLLVIDATEGITEQDLR-IAGLALE-AGRALVIVVNKWDLVDE-----KTMEEF----------------  305 (435)
T ss_pred             HHHHHHHCCEEEEEEeCCCCCCHHHHH-HHHHHHH-cCCcEEEEEECccCCCH-----HHHHHH----------------
Confidence             23577899999999999887776654 2333333 34588999999999632     111111                


Q ss_pred             CCcccCCCCCCCCCCcHHHHHHH-HHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          195 ISETEGSSLLGDEEPSWEIRRSC-LEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                         .+.. ..+.....++++++||+++            .|++++++.+.+..
T Consensus       306 -------------------~~~~~~~l~~~~~~~i~~~SA~~~------------~gv~~l~~~i~~~~  343 (435)
T PRK00093        306 -------------------KKELRRRLPFLDYAPIVFISALTG------------QGVDKLLEAIDEAY  343 (435)
T ss_pred             -------------------HHHHHHhcccccCCCEEEEeCCCC------------CCHHHHHHHHHHHH
Confidence                               1111 1222223478999999999            99999999987644

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.67  E-value=1.3e-15  Score=153.53  Aligned_cols=160  Identities=17%  Similarity=0.161  Sum_probs=110.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCC--CC-----CCC------CCCcceEEe--eEEeec---CcceEEEEEEEcCCch
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVN--FE-----DAS------DSSSELLVN--GWTINT---KYYTADVSLWMAHLHE  109 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~--~~-----~~~------~~t~~~~~~--~~~i~~---~~~~~~l~I~Dt~G~e  109 (289)
                      ..-+|+|+|+.++|||||+.+|+...  +.     ..+      ..+.+.++.  ...+..   ++..+.+.+|||||+.
T Consensus         6 ~iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~   85 (600)
T PRK05433          6 NIRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHV   85 (600)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcH
Confidence            34579999999999999999998632  11     011      011122221  111111   3446889999999999


Q ss_pred             hhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCc
Q 040295          110 EFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPD  189 (289)
Q Consensus       110 ~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~  189 (289)
                      .|...+..+++.+|++|+|+|+++....+....|.....  ...|+|+|+||+|+....      ...+           
T Consensus        86 dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~~--~~lpiIvViNKiDl~~a~------~~~v-----------  146 (600)
T PRK05433         86 DFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALE--NDLEIIPVLNKIDLPAAD------PERV-----------  146 (600)
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH--CCCCEEEEEECCCCCccc------HHHH-----------
Confidence            998888888999999999999998766666666654332  234789999999984311      0111           


Q ss_pred             ccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCe---EEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          190 FCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIE---YIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                                 ..++....+++   ++++||++|            .|+++++++|...+.+.
T Consensus       147 ---------------------------~~ei~~~lg~~~~~vi~iSAktG------------~GI~~Ll~~I~~~lp~P  186 (600)
T PRK05433        147 ---------------------------KQEIEDVIGIDASDAVLVSAKTG------------IGIEEVLEAIVERIPPP  186 (600)
T ss_pred             ---------------------------HHHHHHHhCCCcceEEEEecCCC------------CCHHHHHHHHHHhCccc
Confidence                                       23444444553   899999999            99999999999876543

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.67  E-value=1.7e-15  Score=145.44  Aligned_cols=158  Identities=11%  Similarity=0.027  Sum_probs=107.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCcc-eEEeeEEeecCcceEEEEEEEcCCchhhhc----c---cccccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFED-ASDSSSE-LLVNGWTINTKYYTADVSLWMAHLHEEFSI----R---SLPISD  120 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~-~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~----~---~~~~~~  120 (289)
                      ..|+|+|.+|||||||+|++++.+... .+..|+. ..+..+... +  ...+.++||||...-.+    +   ....++
T Consensus       160 adValVG~PNaGKSTLln~Lt~~k~~vs~~p~TT~~p~~Giv~~~-~--~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~  236 (390)
T PRK12298        160 ADVGLLGLPNAGKSTFIRAVSAAKPKVADYPFTTLVPNLGVVRVD-D--ERSFVVADIPGLIEGASEGAGLGIRFLKHLE  236 (390)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhCCcccccCCCCCccCcEEEEEEeC-C--CcEEEEEeCCCccccccchhhHHHHHHHHHH
Confidence            469999999999999999999876421 1222222 222222221 1  23589999999742111    1   113467


Q ss_pred             CccEEEEEEeCC---CHhhHHHHHHHHHHhhhcC----CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCC
Q 040295          121 QLTALVMVFNLN---DLSTLDALKHWVPSIDLQK----FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQS  193 (289)
Q Consensus       121 ~ad~vIlV~Dv~---~~~S~~~l~~~~~~i~~~~----~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~  193 (289)
                      .++++++|+|++   ..+.++.+..|+..+....    ..|+|+|+||+|+....     .   +               
T Consensus       237 radvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~-----e---l---------------  293 (390)
T PRK12298        237 RCRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDEE-----E---A---------------  293 (390)
T ss_pred             hCCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCChH-----H---H---------------
Confidence            899999999998   5567788888888877653    35889999999995321     1   1               


Q ss_pred             CCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC--CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          194 GISETEGSSLLGDEEPSWEIRRSCLEWCTEHR--IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                          ...+..+....+  .+++.+||+++            .|++++++.|.+.+...
T Consensus       294 --------------------~~~l~~l~~~~~~~~~Vi~ISA~tg------------~GIdeLl~~I~~~L~~~  335 (390)
T PRK12298        294 --------------------EERAKAIVEALGWEGPVYLISAASG------------LGVKELCWDLMTFIEEN  335 (390)
T ss_pred             --------------------HHHHHHHHHHhCCCCCEEEEECCCC------------cCHHHHHHHHHHHhhhC
Confidence                                111445555544  36899999999            99999999999877544

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.66  E-value=1.7e-15  Score=155.67  Aligned_cols=159  Identities=16%  Similarity=0.077  Sum_probs=104.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCC--CCCCCCcceEEeeEEeecCcceEEEEEEEcCCch----------hhhccc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFE--DASDSSSELLVNGWTINTKYYTADVSLWMAHLHE----------EFSIRS  115 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~--~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e----------~~~~~~  115 (289)
                      ..+||+|+|.+|||||||+++|++.++.  ..+..|. .+.....+..++.  .+.+|||||..          .|..+.
T Consensus       449 ~~~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT-~d~~~~~~~~~~~--~~~liDTaG~~~~~~~~~~~e~~~~~r  525 (712)
T PRK09518        449 GLRRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTT-RDPVDEIVEIDGE--DWLFIDTAGIKRRQHKLTGAEYYSSLR  525 (712)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCccccccCCCCCCC-cCcceeEEEECCC--EEEEEECCCcccCcccchhHHHHHHHH
Confidence            4589999999999999999999998752  2222222 2222223333433  46799999953          232221


Q ss_pred             -cccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCC
Q 040295          116 -LPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSG  194 (289)
Q Consensus       116 -~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~  194 (289)
                       ...++.+|++|+|+|+++..+++.+..| ..+.. ...|+|+|+||+|+.+..     ..+.+                
T Consensus       526 ~~~~i~~advvilViDat~~~s~~~~~i~-~~~~~-~~~piIiV~NK~DL~~~~-----~~~~~----------------  582 (712)
T PRK09518        526 TQAAIERSELALFLFDASQPISEQDLKVM-SMAVD-AGRALVLVFNKWDLMDEF-----RRQRL----------------  582 (712)
T ss_pred             HHHHhhcCCEEEEEEECCCCCCHHHHHHH-HHHHH-cCCCEEEEEEchhcCChh-----HHHHH----------------
Confidence             2346889999999999998888877533 34433 345899999999996421     11111                


Q ss_pred             CCcccCCCCCCCCCCcHHHHHHHHHHHHH-cCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          195 ISETEGSSLLGDEEPSWEIRRSCLEWCTE-HRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                         .+.+...... ...+.+++||++|            .|++++++.+.+.+.
T Consensus       583 -------------------~~~~~~~l~~~~~~~ii~iSAktg------------~gv~~L~~~i~~~~~  621 (712)
T PRK09518        583 -------------------ERLWKTEFDRVTWARRVNLSAKTG------------WHTNRLAPAMQEALE  621 (712)
T ss_pred             -------------------HHHHHHhccCCCCCCEEEEECCCC------------CCHHHHHHHHHHHHH
Confidence                               0011111111 1246799999999            999999999988654

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.66  E-value=2e-15  Score=128.65  Aligned_cols=156  Identities=15%  Similarity=0.131  Sum_probs=118.9

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCC--------C-C---CCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFED--------A-S---DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI  113 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~--------~-~---~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~  113 (289)
                      .....||+|.|+.++||||+++++.......        . .   ..|...++.+..+..+   ..+.++|||||++|+-
T Consensus         7 k~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~~~~---~~v~LfgtPGq~RF~f   83 (187)
T COG2229           7 KMIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELDED---TGVHLFGTPGQERFKF   83 (187)
T ss_pred             cccceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceEEcCc---ceEEEecCCCcHHHHH
Confidence            3445899999999999999999998766311        1 1   1344445554444332   4689999999999999


Q ss_pred             cccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCC
Q 040295          114 RSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQS  193 (289)
Q Consensus       114 ~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~  193 (289)
                      ++..+.+++.++|++.|.+.+..| +....+..+...+..|+++.+||.||.+..+++ .                    
T Consensus        84 m~~~l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~~~ip~vVa~NK~DL~~a~ppe-~--------------------  141 (187)
T COG2229          84 MWEILSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSRNPIPVVVAINKQDLFDALPPE-K--------------------  141 (187)
T ss_pred             HHHHHhCCcceEEEEEecCCCcch-HHHHHHHHHhhccCCCEEEEeeccccCCCCCHH-H--------------------
Confidence            999999999999999999999999 666677777776667999999999997643321 1                    


Q ss_pred             CCCcccCCCCCCCCCCcHHHHHHHHHHHHH--cCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          194 GISETEGSSLLGDEEPSWEIRRSCLEWCTE--HRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                             +.+....  ...+.|+.+|.++            +++.+.+..|.-.
T Consensus       142 -----------------------i~e~l~~~~~~~~vi~~~a~e~------------~~~~~~L~~ll~~  176 (187)
T COG2229         142 -----------------------IREALKLELLSVPVIEIDATEG------------EGARDQLDVLLLK  176 (187)
T ss_pred             -----------------------HHHHHHhccCCCceeeeecccc------------hhHHHHHHHHHhh
Confidence                                   2333333  3788999999999            9999988887665

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.66  E-value=8.5e-16  Score=149.08  Aligned_cols=149  Identities=18%  Similarity=0.176  Sum_probs=96.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcC--CCCC-----------------------------CCCCCcceEEeeEEeecCcc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSV--NFED-----------------------------ASDSSSELLVNGWTINTKYY   96 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~--~~~~-----------------------------~~~~t~~~~~~~~~i~~~~~   96 (289)
                      +.++|+++|+.++|||||+.+|+..  .+..                             +.......+.....+..  .
T Consensus         6 ~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~--~   83 (426)
T TIGR00483         6 EHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFET--D   83 (426)
T ss_pred             ceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEcc--C
Confidence            3488999999999999999999862  1110                             01112222332223332  3


Q ss_pred             eEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHH--HHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHH
Q 040295           97 TADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDAL--KHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEY  174 (289)
Q Consensus        97 ~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l--~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~  174 (289)
                      ...+.+|||||++.|.......++.+|++|+|+|+++.+++...  ..++......+.+++|+|+||+|+....    +.
T Consensus        84 ~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~~~~~iIVviNK~Dl~~~~----~~  159 (426)
T TIGR00483        84 KYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLARTLGINQLIVAINKMDSVNYD----EE  159 (426)
T ss_pred             CeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHHHHcCCCeEEEEEEChhccCcc----HH
Confidence            46799999999998866555567889999999999987543211  1122222333445899999999996311    00


Q ss_pred             HHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC-----CeEEEeecCCC
Q 040295          175 RRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR-----IEYIEACASNV  236 (289)
Q Consensus       175 ~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~ie~Sa~~~  236 (289)
                                                        ...+..+++..+++..+     ++++++||++|
T Consensus       160 ----------------------------------~~~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g  192 (426)
T TIGR00483       160 ----------------------------------EFEAIKKEVSNLIKKVGYNPDTVPFIPISAWNG  192 (426)
T ss_pred             ----------------------------------HHHHHHHHHHHHHHHcCCCcccceEEEeecccc
Confidence                                              01122344677777665     57999999999

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.

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.66  E-value=5.4e-16  Score=151.18  Aligned_cols=165  Identities=21%  Similarity=0.241  Sum_probs=120.6

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ....++|+++|+.||||||||-.++..+|.+...+-......+..+...  .+...|.||...+.-+.....-++.|+++
T Consensus         6 t~kdVRIvliGD~G~GKtSLImSL~~eef~~~VP~rl~~i~IPadvtPe--~vpt~ivD~ss~~~~~~~l~~EirkA~vi   83 (625)
T KOG1707|consen    6 TLKDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVPRRLPRILIPADVTPE--NVPTSIVDTSSDSDDRLCLRKEIRKADVI   83 (625)
T ss_pred             CccceEEEEECCCCccHHHHHHHHHhhhccccccccCCccccCCccCcC--cCceEEEecccccchhHHHHHHHhhcCEE
Confidence            3445899999999999999999999999987765555433222222222  23478899964443333334567899999


Q ss_pred             EEEEeCCCHhhHHHHH-HHHHHhhhcCCC----eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          126 VMVFNLNDLSTLDALK-HWVPSIDLQKFE----ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~-~~~~~i~~~~~~----~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      ++||+++++++++.+. .|++.++...++    |||+||||+|+........+.                          
T Consensus        84 ~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~s~e~--------------------------  137 (625)
T KOG1707|consen   84 CLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENNSDEV--------------------------  137 (625)
T ss_pred             EEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccccchhH--------------------------
Confidence            9999999999999998 899999888633    999999999997643211000                          


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcC-Ce-EEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHR-IE-YIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                     ....+...+. ++ .|+|||++.            .++.++|-...+.++..
T Consensus       138 ---------------~~~pim~~f~EiEtciecSA~~~------------~n~~e~fYyaqKaVihP  177 (625)
T KOG1707|consen  138 ---------------NTLPIMIAFAEIETCIECSALTL------------ANVSELFYYAQKAVIHP  177 (625)
T ss_pred             ---------------HHHHHHHHhHHHHHHHhhhhhhh------------hhhHhhhhhhhheeecc
Confidence                           1334444443 43 799999999            99999999988877654

>cd04167 Snu114p Snu114p subfamily

Probab=99.65  E-value=3.7e-15  Score=131.38  Aligned_cols=113  Identities=15%  Similarity=0.151  Sum_probs=78.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCC-----------C------CCcceEE--eeEE--eec-CcceEEEEEEEcCCc
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDAS-----------D------SSSELLV--NGWT--INT-KYYTADVSLWMAHLH  108 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~-----------~------~t~~~~~--~~~~--i~~-~~~~~~l~I~Dt~G~  108 (289)
                      +|+|+|+.++|||||+++|+........           .      ...+..+  ....  ... .+..+.+.+|||||+
T Consensus         2 nv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG~   81 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPGH   81 (213)
T ss_pred             cEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCCC
Confidence            5899999999999999999975543210           0      0011111  1111  111 244678999999999


Q ss_pred             hhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCC
Q 040295          109 EEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLL  165 (289)
Q Consensus       109 e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~  165 (289)
                      +.|......+++.+|++|+|+|+++..++.. ..|+......+ .|+++|+||+|+.
T Consensus        82 ~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~~~~~-~p~iiviNK~D~~  136 (213)
T cd04167          82 VNFMDEVAAALRLSDGVVLVVDVVEGVTSNT-ERLIRHAILEG-LPIVLVINKIDRL  136 (213)
T ss_pred             cchHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHHcC-CCEEEEEECcccC
Confidence            9987777778899999999999987766643 33444443333 5789999999986

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.

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.65  E-value=2.8e-15  Score=150.36  Aligned_cols=112  Identities=15%  Similarity=0.179  Sum_probs=82.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCC----CCCCcceEEeeEEeecC------------cceEEEEEEEcCCchhhhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDA----SDSSSELLVNGWTINTK------------YYTADVSLWMAHLHEEFSI  113 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~----~~~t~~~~~~~~~i~~~------------~~~~~l~I~Dt~G~e~~~~  113 (289)
                      .-|+|+|++++|||||+++|.+..+...    .+++++..+.+......            .....+.+|||||++.|..
T Consensus         5 piV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f~~   84 (590)
T TIGR00491         5 PIVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAFTN   84 (590)
T ss_pred             CEEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhHHH
Confidence            4699999999999999999998876533    33444544433221100            0012388999999999999


Q ss_pred             cccccccCccEEEEEEeCCC---HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          114 RSLPISDQLTALVMVFNLND---LSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       114 ~~~~~~~~ad~vIlV~Dv~~---~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ++..+++.+|++++|||+++   +++++.+..+    +. ...|+++++||+|+.+
T Consensus        85 l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~~l----~~-~~vpiIVv~NK~Dl~~  135 (590)
T TIGR00491        85 LRKRGGALADLAILIVDINEGFKPQTQEALNIL----RM-YKTPFVVAANKIDRIP  135 (590)
T ss_pred             HHHHHHhhCCEEEEEEECCcCCCHhHHHHHHHH----HH-cCCCEEEEEECCCccc
Confidence            88888999999999999987   6777666533    22 2347999999999975

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.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.65  E-value=2.3e-15  Score=147.77  Aligned_cols=157  Identities=15%  Similarity=0.070  Sum_probs=101.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCC-CcceEEeeEEeecCcceEEEEEEEcCCchh----hhccc---cccc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFED-ASDS-SSELLVNGWTINTKYYTADVSLWMAHLHEE----FSIRS---LPIS  119 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~-t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~----~~~~~---~~~~  119 (289)
                      ..+|+|+|.+|||||||+++|++..... .+.. |......  .+...  ...+.+|||||.-.    ...+.   -..+
T Consensus       159 ~adV~LVG~PNAGKSTLln~Ls~akpkIadypfTTl~P~lG--vv~~~--~~~f~laDtPGliegas~g~gLg~~fLrhi  234 (500)
T PRK12296        159 VADVGLVGFPSAGKSSLISALSAAKPKIADYPFTTLVPNLG--VVQAG--DTRFTVADVPGLIPGASEGKGLGLDFLRHI  234 (500)
T ss_pred             cceEEEEEcCCCCHHHHHHHHhcCCccccccCcccccceEE--EEEEC--CeEEEEEECCCCccccchhhHHHHHHHHHH
Confidence            3679999999999999999999875432 2222 2222222  22222  24689999999521    11111   1235


Q ss_pred             cCccEEEEEEeCCCH----hhHHHHHHHHHHhhhc-------------CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcc
Q 040295          120 DQLTALVMVFNLNDL----STLDALKHWVPSIDLQ-------------KFEILLCIGNKVDLLPGHPVHAEYRRRLLKRE  182 (289)
Q Consensus       120 ~~ad~vIlV~Dv~~~----~S~~~l~~~~~~i~~~-------------~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~  182 (289)
                      ..++++|+|+|+++.    +.++.+..|...+..+             ...|+|||+||+|+...        +.+    
T Consensus       235 eradvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da--------~el----  302 (500)
T PRK12296        235 ERCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDA--------REL----  302 (500)
T ss_pred             HhcCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhh--------HHH----
Confidence            679999999999753    3455555555444332             23589999999999421        111    


Q ss_pred             cCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          183 ESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                                     ...........+++++++||+++            .|+++++.+|.+.+
T Consensus       303 -------------------------------~e~l~~~l~~~g~~Vf~ISA~tg------------eGLdEL~~~L~ell  339 (500)
T PRK12296        303 -------------------------------AEFVRPELEARGWPVFEVSAASR------------EGLRELSFALAELV  339 (500)
T ss_pred             -------------------------------HHHHHHHHHHcCCeEEEEECCCC------------CCHHHHHHHHHHHH
Confidence                                           00022233445789999999999            99999999998876


Q ss_pred             cc
Q 040295          263 WP  264 (289)
Q Consensus       263 ~~  264 (289)
                      -.
T Consensus       340 ~~  341 (500)
T PRK12296        340 EE  341 (500)
T ss_pred             Hh
Confidence            43

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.65  E-value=1.4e-15  Score=156.14  Aligned_cols=156  Identities=17%  Similarity=0.112  Sum_probs=101.4

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchh--------hhccccc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEE--------FSIRSLP  117 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~--------~~~~~~~  117 (289)
                      .....+|+|+|.+|||||||+|+|++..+.. ...+.+.+..............+.+|||||.+.        +......
T Consensus       272 ~~~~~~V~IvG~~nvGKSSL~n~l~~~~~~i-v~~~pGvT~d~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~  350 (712)
T PRK09518        272 PKAVGVVAIVGRPNVGKSTLVNRILGRREAV-VEDTPGVTRDRVSYDAEWAGTDFKLVDTGGWEADVEGIDSAIASQAQI  350 (712)
T ss_pred             cccCcEEEEECCCCCCHHHHHHHHhCCCcee-ecCCCCeeEEEEEEEEEECCEEEEEEeCCCcCCCCccHHHHHHHHHHH
Confidence            3445789999999999999999999876421 222333332222211111234689999999763        2223345


Q ss_pred             cccCccEEEEEEeCCCHhhHHHHH-HHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCC
Q 040295          118 ISDQLTALVMVFNLNDLSTLDALK-HWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGIS  196 (289)
Q Consensus       118 ~~~~ad~vIlV~Dv~~~~S~~~l~-~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~  196 (289)
                      +++.+|++|+|+|.++..+  ... .|...++. ...|+|+|+||+|+....       ...                  
T Consensus       351 ~~~~aD~iL~VvDa~~~~~--~~d~~i~~~Lr~-~~~pvIlV~NK~D~~~~~-------~~~------------------  402 (712)
T PRK09518        351 AVSLADAVVFVVDGQVGLT--STDERIVRMLRR-AGKPVVLAVNKIDDQASE-------YDA------------------  402 (712)
T ss_pred             HHHhCCEEEEEEECCCCCC--HHHHHHHHHHHh-cCCCEEEEEECcccccch-------hhH------------------
Confidence            6789999999999986422  222 34455544 345899999999984310       000                  


Q ss_pred             cccCCCCCCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          197 ETEGSSLLGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       197 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                          ...+.  .++ ..+++||++|            .||.++|++|+..+..
T Consensus       403 --------------------~~~~~--lg~~~~~~iSA~~g------------~GI~eLl~~i~~~l~~  437 (712)
T PRK09518        403 --------------------AEFWK--LGLGEPYPISAMHG------------RGVGDLLDEALDSLKV  437 (712)
T ss_pred             --------------------HHHHH--cCCCCeEEEECCCC------------CCchHHHHHHHHhccc
Confidence                                12222  233 3579999999            9999999999987754

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.65  E-value=1.3e-15  Score=153.18  Aligned_cols=146  Identities=15%  Similarity=0.073  Sum_probs=102.8

Q ss_pred             cCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcc------ccccc--cCccEEEE
Q 040295           56 GSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIR------SLPIS--DQLTALVM  127 (289)
Q Consensus        56 G~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~------~~~~~--~~ad~vIl  127 (289)
                      |++|||||||+|++.+.++.....++.+.+.....+..++  .++.+|||||++.+...      ...++  ..+|++++
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~~--~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~   78 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQG--EDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVN   78 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEECC--eEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEE
Confidence            8999999999999998876444444444444444444443  35899999999887654      22333  37899999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |+|.++.+.   ...+...+... ..|+++|+||+|+....        .+                             
T Consensus        79 VvDat~ler---~l~l~~ql~~~-~~PiIIVlNK~Dl~~~~--------~i-----------------------------  117 (591)
T TIGR00437        79 VVDASNLER---NLYLTLQLLEL-GIPMILALNLVDEAEKK--------GI-----------------------------  117 (591)
T ss_pred             EecCCcchh---hHHHHHHHHhc-CCCEEEEEehhHHHHhC--------CC-----------------------------
Confidence            999987432   22333333332 35899999999994311        11                             


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                            ....+.+++..+++++++||++|            .|++++++.+.+..
T Consensus       118 ------~~d~~~L~~~lg~pvv~tSA~tg------------~Gi~eL~~~i~~~~  154 (591)
T TIGR00437       118 ------RIDEEKLEERLGVPVVPTSATEG------------RGIERLKDAIRKAI  154 (591)
T ss_pred             ------hhhHHHHHHHcCCCEEEEECCCC------------CCHHHHHHHHHHHh
Confidence                  01156788888999999999999            99999999998753

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.

>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=99.64  E-value=4.7e-15  Score=132.99  Aligned_cols=89  Identities=20%  Similarity=0.219  Sum_probs=57.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhh----c---cccccccCc
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFED-ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFS----I---RSLPISDQL  122 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~----~---~~~~~~~~a  122 (289)
                      +|+++|++|||||||+++|.+..... .+..+. .......+...  ...+++|||||+....    .   ....+++.+
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v~~~~~tT-~~~~~g~~~~~--~~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~a   78 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEVAAYEFTT-LTCVPGVLEYK--GAKIQLLDLPGIIEGAADGKGRGRQVIAVARTA   78 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCCCcc-ccceEEEEEEC--CeEEEEEECCCcccccccchhHHHHHHHhhccC
Confidence            79999999999999999999876322 222222 11112222223  3579999999975332    1   112467899


Q ss_pred             cEEEEEEeCCCHh-hHHHHHH
Q 040295          123 TALVMVFNLNDLS-TLDALKH  142 (289)
Q Consensus       123 d~vIlV~Dv~~~~-S~~~l~~  142 (289)
                      |++++|+|++++. ..+.+.+
T Consensus        79 d~il~V~D~t~~~~~~~~~~~   99 (233)
T cd01896          79 DLILMVLDATKPEGHREILER   99 (233)
T ss_pred             CEEEEEecCCcchhHHHHHHH
Confidence            9999999998765 3443333

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.

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.63  E-value=2.4e-15  Score=132.31  Aligned_cols=113  Identities=16%  Similarity=0.137  Sum_probs=71.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCC-------------------------------CCCCcceEEeeEEeecCcceEE
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDA-------------------------------SDSSSELLVNGWTINTKYYTAD   99 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~-------------------------------~~~t~~~~~~~~~i~~~~~~~~   99 (289)
                      +|+|+|.+|+|||||+++|+...-...                               .......+.....+...  ...
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~--~~~   78 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTP--KRK   78 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecC--Cce
Confidence            589999999999999999986432110                               00111111111122222  346


Q ss_pred             EEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          100 VSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       100 l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      +.+|||||++.|.......++.+|++|+|+|++++..-+. ......+...+.+++|+|.||+|+..
T Consensus        79 ~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~-~~~~~~~~~~~~~~iIvviNK~D~~~  144 (208)
T cd04166          79 FIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQT-RRHSYILSLLGIRHVVVAVNKMDLVD  144 (208)
T ss_pred             EEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHhH-HHHHHHHHHcCCCcEEEEEEchhccc
Confidence            8899999999886555566789999999999986532111 11222233334456888999999953

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.

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.61  E-value=3.9e-15  Score=143.74  Aligned_cols=159  Identities=19%  Similarity=0.197  Sum_probs=103.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCC---CCC--CCCcceEEeeE--------------Eeec--Cc------ceEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFE---DAS--DSSSELLVNGW--------------TINT--KY------YTADV  100 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~---~~~--~~t~~~~~~~~--------------~i~~--~~------~~~~l  100 (289)
                      +.++|+++|..++|||||+++|.+....   ++.  ..|....+...              +...  ++      ....+
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            4589999999999999999999753221   111  11111111100              0000  00      13578


Q ss_pred             EEEEcCCchhhhccccccccCccEEEEEEeCCCH----hhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHH
Q 040295          101 SLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDL----STLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRR  176 (289)
Q Consensus       101 ~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~----~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r  176 (289)
                      .+|||||++.|...+......+|++|+|+|.+++    ++.+.+.    .+...+.+++++|+||+|+.+.     +...
T Consensus        83 ~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~----~l~~~gi~~iIVvvNK~Dl~~~-----~~~~  153 (406)
T TIGR03680        83 SFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLM----ALEIIGIKNIVIVQNKIDLVSK-----EKAL  153 (406)
T ss_pred             EEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHH----HHHHcCCCeEEEEEEccccCCH-----HHHH
Confidence            9999999999977666667788999999999853    3444333    3344455678899999999642     1100


Q ss_pred             HhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHc---CCeEEEeecCCCcccccccCCCCchhHHH
Q 040295          177 RLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEH---RIEYIEACASNVDFDKCLSIDGDSQGVER  253 (289)
Q Consensus       177 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~  253 (289)
                                                         +...++..+....   +++++++||+++            .|+++
T Consensus       154 -----------------------------------~~~~~i~~~l~~~~~~~~~ii~vSA~~g------------~gi~~  186 (406)
T TIGR03680       154 -----------------------------------ENYEEIKEFVKGTVAENAPIIPVSALHN------------ANIDA  186 (406)
T ss_pred             -----------------------------------HHHHHHHhhhhhcccCCCeEEEEECCCC------------CChHH
Confidence                                               0111233444433   578999999999            99999


Q ss_pred             HHHHHHHhc
Q 040295          254 LYGALSAHM  262 (289)
Q Consensus       254 l~~~L~~~~  262 (289)
                      ++++|...+
T Consensus       187 L~e~L~~~l  195 (406)
T TIGR03680       187 LLEAIEKFI  195 (406)
T ss_pred             HHHHHHHhC
Confidence            999998754

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.61  E-value=1.8e-14  Score=145.60  Aligned_cols=155  Identities=20%  Similarity=0.190  Sum_probs=105.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCC---CCCCC--CCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           51 GILIIGSSNVGKRTILSRLLSVN---FEDAS--DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~---~~~~~--~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      -|+++|+.++|||||+++|.+.+   +.++.  ..|+...+...... ++  ..+.+|||||++.|.......+.++|++
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~-~g--~~i~~IDtPGhe~fi~~m~~g~~~~D~~   78 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQP-DG--RVLGFIDVPGHEKFLSNMLAGVGGIDHA   78 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecC-CC--cEEEEEECCCHHHHHHHHHHHhhcCCEE
Confidence            48899999999999999998633   33333  22332222222211 22  3479999999999966666678899999


Q ss_pred             EEEEeCCC---HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          126 VMVFNLND---LSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       126 IlV~Dv~~---~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      ++|+|+++   +++.+.+.    .+...+.+++|||.||+|+.+.        ..+                        
T Consensus        79 lLVVda~eg~~~qT~ehl~----il~~lgi~~iIVVlNKiDlv~~--------~~~------------------------  122 (614)
T PRK10512         79 LLVVACDDGVMAQTREHLA----ILQLTGNPMLTVALTKADRVDE--------ARI------------------------  122 (614)
T ss_pred             EEEEECCCCCcHHHHHHHH----HHHHcCCCeEEEEEECCccCCH--------HHH------------------------
Confidence            99999986   55555553    2333444567889999999631        111                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcC---CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHR---IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~---~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                              ......+..++...+   +++|++||++|            .|++++++.|....-+
T Consensus       123 --------~~v~~ei~~~l~~~~~~~~~ii~VSA~tG------------~gI~~L~~~L~~~~~~  167 (614)
T PRK10512        123 --------AEVRRQVKAVLREYGFAEAKLFVTAATEG------------RGIDALREHLLQLPER  167 (614)
T ss_pred             --------HHHHHHHHHHHHhcCCCCCcEEEEeCCCC------------CCCHHHHHHHHHhhcc
Confidence                    122233566666555   57999999999            9999999999875433

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.61  E-value=2.1e-14  Score=144.30  Aligned_cols=114  Identities=15%  Similarity=0.196  Sum_probs=80.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCC----CCCCcceEEeeEEeec--Ccce-----E-----EEEEEEcCCchhh
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDA----SDSSSELLVNGWTINT--KYYT-----A-----DVSLWMAHLHEEF  111 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~----~~~t~~~~~~~~~i~~--~~~~-----~-----~l~I~Dt~G~e~~  111 (289)
                      +...|+|+|++++|||||+++|.+..+...    ++++.+..+.+.....  .+..     .     .+.+|||||++.|
T Consensus         5 R~p~V~i~Gh~~~GKTSLl~~l~~~~v~~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e~f   84 (586)
T PRK04004          5 RQPIVVVLGHVDHGKTTLLDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHEAF   84 (586)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCcccccCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChHHH
Confidence            446799999999999999999987654322    2234443333221110  0111     1     2689999999999


Q ss_pred             hccccccccCccEEEEEEeCCC---HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          112 SIRSLPISDQLTALVMVFNLND---LSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       112 ~~~~~~~~~~ad~vIlV~Dv~~---~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ..++...++.+|++|+|+|+++   +++++.+..+    .. ...|+++++||+|+.+
T Consensus        85 ~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~~----~~-~~vpiIvviNK~D~~~  137 (586)
T PRK04004         85 TNLRKRGGALADIAILVVDINEGFQPQTIEAINIL----KR-RKTPFVVAANKIDRIP  137 (586)
T ss_pred             HHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHHH----HH-cCCCEEEEEECcCCch
Confidence            9888778889999999999997   7777776533    22 2347899999999864

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.61  E-value=4.7e-15  Score=143.82  Aligned_cols=117  Identities=18%  Similarity=0.143  Sum_probs=74.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCC-------------------------------CCCCCcceEEeeEEeecCcc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFED-------------------------------ASDSSSELLVNGWTINTKYY   96 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~-------------------------------~~~~t~~~~~~~~~i~~~~~   96 (289)
                      +.++|+++|+.++|||||+++|+...-..                               +..+....+.....+..  .
T Consensus         5 ~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~--~   82 (425)
T PRK12317          5 PHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFET--D   82 (425)
T ss_pred             CEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEec--C
Confidence            44789999999999999999998432110                               00111111221222222  3


Q ss_pred             eEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHH-HHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295           97 TADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALK-HWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        97 ~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~-~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      .+.+.+|||||++.|.......++.+|++|+|+|++++..+.... .++......+.+++++|+||+|+..
T Consensus        83 ~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~~~~~iivviNK~Dl~~  153 (425)
T PRK12317         83 KYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTLGINQLIVAINKMDAVN  153 (425)
T ss_pred             CeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHcCCCeEEEEEEcccccc
Confidence            467999999999988654445577899999999998732222211 2222333444457899999999963

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.60  E-value=1.4e-14  Score=149.37  Aligned_cols=153  Identities=16%  Similarity=0.063  Sum_probs=106.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccc----------ccc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRS----------LPI  118 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~----------~~~  118 (289)
                      .++|+++|.+|||||||+|++.+.+....  ...+.+.............++.+|||||+..+....          ..+
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~~vg--n~pGvTve~k~g~~~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~   80 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQRVG--NWAGVTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHY   80 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCccC--CCCCceEeeEEEEEEcCceEEEEEECCCccccccccccccHHHHHHHHH
Confidence            47899999999999999999998765322  223333322222223334578999999998775421          123


Q ss_pred             c--cCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCC
Q 040295          119 S--DQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGIS  196 (289)
Q Consensus       119 ~--~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~  196 (289)
                      +  ..+|++|+|+|.++.+.-   ..|...+... ..|+++|.||+|+.....        +                  
T Consensus        81 l~~~~aD~vI~VvDat~ler~---l~l~~ql~e~-giPvIvVlNK~Dl~~~~~--------i------------------  130 (772)
T PRK09554         81 ILSGDADLLINVVDASNLERN---LYLTLQLLEL-GIPCIVALNMLDIAEKQN--------I------------------  130 (772)
T ss_pred             HhccCCCEEEEEecCCcchhh---HHHHHHHHHc-CCCEEEEEEchhhhhccC--------c------------------
Confidence            2  478999999999875442   2344444443 348999999999853211        1                  


Q ss_pred             cccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          197 ETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       197 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                       ....+.+.+..|++++++||+++            .|++++++.+....
T Consensus       131 -----------------~id~~~L~~~LG~pVvpiSA~~g------------~GIdeL~~~I~~~~  167 (772)
T PRK09554        131 -----------------RIDIDALSARLGCPVIPLVSTRG------------RGIEALKLAIDRHQ  167 (772)
T ss_pred             -----------------HHHHHHHHHHhCCCEEEEEeecC------------CCHHHHHHHHHHhh
Confidence                             11256777888999999999999            99999999987753

>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]

Probab=99.60  E-value=4.8e-15  Score=121.44  Aligned_cols=119  Identities=18%  Similarity=0.219  Sum_probs=96.1

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||+++|-.++|||||++++.+.+. ....+|.|+....+....   ++++.+||.+|+...+..|..|+.+.|++|
T Consensus        15 ~rEirilllGldnAGKTT~LKqL~sED~-~hltpT~GFn~k~v~~~g---~f~LnvwDiGGqr~IRpyWsNYyenvd~lI   90 (185)
T KOG0074|consen   15 RREIRILLLGLDNAGKTTFLKQLKSEDP-RHLTPTNGFNTKKVEYDG---TFHLNVWDIGGQRGIRPYWSNYYENVDGLI   90 (185)
T ss_pred             cceEEEEEEecCCCcchhHHHHHccCCh-hhccccCCcceEEEeecC---cEEEEEEecCCccccchhhhhhhhccceEE
Confidence            4569999999999999999999988774 456778887665544332   478999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHh-hhc--CCCeEEEEeeCCCCCCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSI-DLQ--KFEILLCIGNKVDLLPGHP  169 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i-~~~--~~~~iivvgnK~Dl~~~~~  169 (289)
                      +|.|.+|..-|+++..-+-.+ ...  ..-|+++.+||.|++...+
T Consensus        91 yVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdlltaa~  136 (185)
T KOG0074|consen   91 YVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLTAAK  136 (185)
T ss_pred             EEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHhhcc
Confidence            999999999999887544444 222  2238999999999986554

>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=99.60  E-value=1.2e-14  Score=125.60  Aligned_cols=157  Identities=20%  Similarity=0.192  Sum_probs=104.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCC--------------------CCCCcceEEeeEEeecCcceEEEEEEEcCCc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDA--------------------SDSSSELLVNGWTINTKYYTADVSLWMAHLH  108 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~--------------------~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~  108 (289)
                      ...|+++|+.++|||||+.+|+.......                    ...|.......  .........+.++||||+
T Consensus         3 ~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~--~~~~~~~~~i~~iDtPG~   80 (188)
T PF00009_consen    3 IRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFIS--FEKNENNRKITLIDTPGH   80 (188)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEE--EEBTESSEEEEEEEESSS
T ss_pred             EEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhccccccccccc--ccccccccceeecccccc
Confidence            36899999999999999999996442110                    12222222222  221244567999999999


Q ss_pred             hhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCC
Q 040295          109 EEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADP  188 (289)
Q Consensus       109 e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~  188 (289)
                      ..|.......++.+|++|+|+|..+....... ..+..+...+. |+++|.||+|+..     .+..+.+          
T Consensus        81 ~~f~~~~~~~~~~~D~ailvVda~~g~~~~~~-~~l~~~~~~~~-p~ivvlNK~D~~~-----~~~~~~~----------  143 (188)
T PF00009_consen   81 EDFIKEMIRGLRQADIAILVVDANDGIQPQTE-EHLKILRELGI-PIIVVLNKMDLIE-----KELEEII----------  143 (188)
T ss_dssp             HHHHHHHHHHHTTSSEEEEEEETTTBSTHHHH-HHHHHHHHTT--SEEEEEETCTSSH-----HHHHHHH----------
T ss_pred             cceeecccceecccccceeeeecccccccccc-ccccccccccc-ceEEeeeeccchh-----hhHHHHH----------
Confidence            98877666678899999999999865333222 22333444444 5888999999961     1111111          


Q ss_pred             cccCCCCCcccCCCCCCCCCCcHHHHHHHH-HHHHHc------CCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          189 DFCQSGISETEGSSLLGDEEPSWEIRRSCL-EWCTEH------RIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~------~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                                ++.. .+.+..      .++++.+||++|            .|++++++.|.+.
T Consensus       144 --------------------------~~~~~~l~~~~~~~~~~~~~vi~~Sa~~g------------~gi~~Ll~~l~~~  185 (188)
T PF00009_consen  144 --------------------------EEIKEKLLKEYGENGEEIVPVIPISALTG------------DGIDELLEALVEL  185 (188)
T ss_dssp             --------------------------HHHHHHHHHHTTSTTTSTEEEEEEBTTTT------------BTHHHHHHHHHHH
T ss_pred             --------------------------HHHHHHhccccccCccccceEEEEecCCC------------CCHHHHHHHHHHh
Confidence                                      1122 344333      257999999999            9999999999875


Q ss_pred             c
Q 040295          262 M  262 (289)
Q Consensus       262 ~  262 (289)
                      +
T Consensus       186 ~  186 (188)
T PF00009_consen  186 L  186 (188)
T ss_dssp             S
T ss_pred             C
Confidence            4

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 ....

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.59  E-value=2e-14  Score=139.03  Aligned_cols=161  Identities=19%  Similarity=0.193  Sum_probs=101.3

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCC--C-CC--CCCCcceEEeeEEee----------------cC------cceEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNF--E-DA--SDSSSELLVNGWTIN----------------TK------YYTAD   99 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~--~-~~--~~~t~~~~~~~~~i~----------------~~------~~~~~   99 (289)
                      .+.++|+++|+.++|||||+.+|.+...  . ++  ...|....+....+.                .+      .....
T Consensus         7 ~~~~ni~v~Gh~d~GKSTL~~~L~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (411)
T PRK04000          7 QPEVNIGMVGHVDHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETELLRR   86 (411)
T ss_pred             CCcEEEEEEccCCCCHHHHHHHhhCeecccCHhHHhcCcEEEecccccccccccccCccccccccccccccccccccccE
Confidence            4558999999999999999999965311  1 11  112222111111110                00      11257


Q ss_pred             EEEEEcCCchhhhccccccccCccEEEEEEeCCC----HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHH
Q 040295          100 VSLWMAHLHEEFSIRSLPISDQLTALVMVFNLND----LSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYR  175 (289)
Q Consensus       100 l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~----~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~  175 (289)
                      +.+|||||++.|..........+|++++|+|+++    +.+++.+..    +...+.+++++|+||+|+.+..     ..
T Consensus        87 i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~----l~~~~i~~iiVVlNK~Dl~~~~-----~~  157 (411)
T PRK04000         87 VSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKEHLMA----LDIIGIKNIVIVQNKIDLVSKE-----RA  157 (411)
T ss_pred             EEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHHHH----HHHcCCCcEEEEEEeeccccch-----hH
Confidence            8999999999886533333456799999999995    344444432    2334445788899999996421     00


Q ss_pred             HHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHc---CCeEEEeecCCCcccccccCCCCchhHH
Q 040295          176 RRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEH---RIEYIEACASNVDFDKCLSIDGDSQGVE  252 (289)
Q Consensus       176 r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~ie~Sa~~~~~~~~~~~~~~~~~i~  252 (289)
                      .                                   ...+.+..++..+   +++++++||+++            .|++
T Consensus       158 ~-----------------------------------~~~~~i~~~l~~~~~~~~~ii~vSA~~g------------~gI~  190 (411)
T PRK04000        158 L-----------------------------------ENYEQIKEFVKGTVAENAPIIPVSALHK------------VNID  190 (411)
T ss_pred             H-----------------------------------HHHHHHHHHhccccCCCCeEEEEECCCC------------cCHH
Confidence            0                                   0111234444432   578999999999            9999


Q ss_pred             HHHHHHHHhcc
Q 040295          253 RLYGALSAHMW  263 (289)
Q Consensus       253 ~l~~~L~~~~~  263 (289)
                      ++++.|...+.
T Consensus       191 ~L~~~L~~~l~  201 (411)
T PRK04000        191 ALIEAIEEEIP  201 (411)
T ss_pred             HHHHHHHHhCC
Confidence            99999988654

>COG1159 Era GTPase [General function prediction only]

Probab=99.58  E-value=3e-14  Score=130.04  Aligned_cols=167  Identities=16%  Similarity=0.143  Sum_probs=110.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCC--CCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc--------cccccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDAS--DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI--------RSLPIS  119 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~--~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~--------~~~~~~  119 (289)
                      -.|+|+|.||||||||+|++++.+....+  .+|+...........   ..++.+.||||...-+.        .....+
T Consensus         7 GfVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR~~I~GI~t~~---~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl   83 (298)
T COG1159           7 GFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVTTD---NAQIIFVDTPGIHKPKHALGELMNKAARSAL   83 (298)
T ss_pred             EEEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhhhheeEEEEcC---CceEEEEeCCCCCCcchHHHHHHHHHHHHHh
Confidence            45999999999999999999999875432  233333333333222   46799999999643222        123447


Q ss_pred             cCccEEEEEEeCCCHhhHHHHHHH-HHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcc
Q 040295          120 DQLTALVMVFNLNDLSTLDALKHW-VPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISET  198 (289)
Q Consensus       120 ~~ad~vIlV~Dv~~~~S~~~l~~~-~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~  198 (289)
                      ..+|+++||.|.++.  +..-..| ++.++. ...|+|++.||+|......    ....+                    
T Consensus        84 ~dvDlilfvvd~~~~--~~~~d~~il~~lk~-~~~pvil~iNKID~~~~~~----~l~~~--------------------  136 (298)
T COG1159          84 KDVDLILFVVDADEG--WGPGDEFILEQLKK-TKTPVILVVNKIDKVKPKT----VLLKL--------------------  136 (298)
T ss_pred             ccCcEEEEEEecccc--CCccHHHHHHHHhh-cCCCeEEEEEccccCCcHH----HHHHH--------------------
Confidence            789999999999864  2222233 334444 3348999999999975311    00111                    


Q ss_pred             cCCCCCCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcccccCCCCCC
Q 040295          199 EGSSLLGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKITE  276 (289)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~~~~~~~  276 (289)
                                        .........+ +.+++||++|            .|++.+.+.+...+-++-.+...+..+.
T Consensus       137 ------------------~~~~~~~~~f~~ivpiSA~~g------------~n~~~L~~~i~~~Lpeg~~~yp~d~itD  185 (298)
T COG1159         137 ------------------IAFLKKLLPFKEIVPISALKG------------DNVDTLLEIIKEYLPEGPWYYPEDQITD  185 (298)
T ss_pred             ------------------HHHHHhhCCcceEEEeecccc------------CCHHHHHHHHHHhCCCCCCcCChhhccC
Confidence                              3334444445 6999999999            9999999999998877765555444443

>PRK10218 GTP-binding protein; Provisional

Probab=99.58  E-value=5.8e-14  Score=141.37  Aligned_cols=118  Identities=17%  Similarity=0.176  Sum_probs=82.4

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhc--CCCCCCC------------CCCcceEEeeEEeecCcceEEEEEEEcCCchhhh
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLS--VNFEDAS------------DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFS  112 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~--~~~~~~~------------~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~  112 (289)
                      ...-+|+|+|+.++|||||+++|+.  +.|....            ..+.+..+........+..+++.+|||||+..|.
T Consensus         3 ~~iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~df~   82 (607)
T PRK10218          3 EKLRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFG   82 (607)
T ss_pred             CCceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcchhH
Confidence            3446899999999999999999997  3332211            2234444433333334456789999999999998


Q ss_pred             ccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          113 IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       113 ~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ..+..+++.+|++|+|+|+++....+.. .++......+. |+|+|.||+|+..
T Consensus        83 ~~v~~~l~~aDg~ILVVDa~~G~~~qt~-~~l~~a~~~gi-p~IVviNKiD~~~  134 (607)
T PRK10218         83 GEVERVMSMVDSVLLVVDAFDGPMPQTR-FVTKKAFAYGL-KPIVVINKVDRPG  134 (607)
T ss_pred             HHHHHHHHhCCEEEEEEecccCccHHHH-HHHHHHHHcCC-CEEEEEECcCCCC
Confidence            8888899999999999999875333322 22333333333 5688999999853

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

Probab=99.56  E-value=4.1e-14  Score=117.48  Aligned_cols=135  Identities=16%  Similarity=0.233  Sum_probs=96.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCc----hhhhccccccccCccEEE
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLH----EEFSIRSLPISDQLTALV  126 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~----e~~~~~~~~~~~~ad~vI  126 (289)
                      ||+++|+.|||||||+++|.+.+.  .+..|....|..            .+.||||.    ..|+...-.....||.++
T Consensus         3 rimliG~~g~GKTTL~q~L~~~~~--~~~KTq~i~~~~------------~~IDTPGEyiE~~~~y~aLi~ta~dad~V~   68 (143)
T PF10662_consen    3 RIMLIGPSGSGKTTLAQALNGEEI--RYKKTQAIEYYD------------NTIDTPGEYIENPRFYHALIVTAQDADVVL   68 (143)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCCC--CcCccceeEecc------------cEEECChhheeCHHHHHHHHHHHhhCCEEE
Confidence            799999999999999999988775  344444433322            34688884    234333335566899999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      +|.|.+++.+.     +=+.+...-.+|+|-|.+|+|+..+       ...+                            
T Consensus        69 ll~dat~~~~~-----~pP~fa~~f~~pvIGVITK~Dl~~~-------~~~i----------------------------  108 (143)
T PF10662_consen   69 LLQDATEPRSV-----FPPGFASMFNKPVIGVITKIDLPSD-------DANI----------------------------  108 (143)
T ss_pred             EEecCCCCCcc-----CCchhhcccCCCEEEEEECccCccc-------hhhH----------------------------
Confidence            99999976432     1122323334589999999999632       1111                            


Q ss_pred             CCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHH
Q 040295          207 EEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALS  259 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~  259 (289)
                              +.+.+|++..|+ +.|++|+.+|            +||+++.++|.
T Consensus       109 --------~~a~~~L~~aG~~~if~vS~~~~------------eGi~eL~~~L~  142 (143)
T PF10662_consen  109 --------ERAKKWLKNAGVKEIFEVSAVTG------------EGIEELKDYLE  142 (143)
T ss_pred             --------HHHHHHHHHcCCCCeEEEECCCC------------cCHHHHHHHHh
Confidence                    237899999998 4899999999            99999999874

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

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.56  E-value=4.9e-14  Score=141.83  Aligned_cols=170  Identities=14%  Similarity=0.179  Sum_probs=107.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC--CCCCCC------------CCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcccc
Q 040295           51 GILIIGSSNVGKRTILSRLLSV--NFEDAS------------DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSL  116 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~--~~~~~~------------~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~  116 (289)
                      .|+|+|+.++|||||+.+|+..  .+....            ....+.++........+..+++.+|||||+..|.....
T Consensus         3 NIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh~DF~~ev~   82 (594)
T TIGR01394         3 NIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGHADFGGEVE   82 (594)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCHHHHHHHHH
Confidence            5999999999999999999863  332211            01112222222222233357899999999999988778


Q ss_pred             ccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCC
Q 040295          117 PISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGIS  196 (289)
Q Consensus       117 ~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~  196 (289)
                      .+++.+|++|+|+|.++. .+.....|+..+...+. |+|+|+||+|+.....     . .+                  
T Consensus        83 ~~l~~aD~alLVVDa~~G-~~~qT~~~l~~a~~~~i-p~IVviNKiD~~~a~~-----~-~v------------------  136 (594)
T TIGR01394        83 RVLGMVDGVLLLVDASEG-PMPQTRFVLKKALELGL-KPIVVINKIDRPSARP-----D-EV------------------  136 (594)
T ss_pred             HHHHhCCEEEEEEeCCCC-CcHHHHHHHHHHHHCCC-CEEEEEECCCCCCcCH-----H-HH------------------
Confidence            889999999999999863 23334456666655444 6788999999853211     0 00                  


Q ss_pred             cccCCCCCCCCCCcHHHHHHHHHHH-------HHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          197 ETEGSSLLGDEEPSWEIRRSCLEWC-------TEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       197 ~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                       ..++..+.       ....++++.+||++|.--..+  .....|+..+|+.++..+.+.
T Consensus       137 -----------------~~ei~~l~~~~g~~~e~l~~pvl~~SA~~g~~~~~~--~~~~~gi~~Lld~Iv~~lP~P  193 (594)
T TIGR01394       137 -----------------VDEVFDLFAELGADDEQLDFPIVYASGRAGWASLDL--DDPSDNMAPLFDAIVRHVPAP  193 (594)
T ss_pred             -----------------HHHHHHHHHhhccccccccCcEEechhhcCcccccC--cccccCHHHHHHHHHHhCCCC
Confidence                             11122222       123578999999998110000  112248999999999877544

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.

>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.55  E-value=4e-15  Score=125.61  Aligned_cols=159  Identities=17%  Similarity=0.120  Sum_probs=118.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCC-------CCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNF-------EDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQL  122 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~-------~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~a  122 (289)
                      +-|+|+|..++|||||+.+....-.       .....+|.+.......+.    ...+.+||..||+..++++..||..+
T Consensus        18 y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig~i~v~----~~~l~fwdlgGQe~lrSlw~~yY~~~   93 (197)
T KOG0076|consen   18 YSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIGTIEVC----NAPLSFWDLGGQESLRSLWKKYYWLA   93 (197)
T ss_pred             hhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeecceeec----cceeEEEEcCChHHHHHHHHHHHHHh
Confidence            6699999999999999998753211       123566777666555544    24689999999999999999999999


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCccc
Q 040295          123 TALVMVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETE  199 (289)
Q Consensus       123 d~vIlV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~  199 (289)
                      |++|+++|.++++.|+....-+..+..+   ..-|+++.+||.|+...        ..+                     
T Consensus        94 H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~--------~~~---------------------  144 (197)
T KOG0076|consen   94 HGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNA--------MEA---------------------  144 (197)
T ss_pred             ceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhh--------hhH---------------------
Confidence            9999999999999999988776666433   33389999999999432        111                     


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHHHHc---CCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          200 GSSLLGDEEPSWEIRRSCLEWCTEH---RIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                 .+++. ....+...   .+++..+||.+|            +||++-..++++.+-.+
T Consensus       145 -----------~El~~-~~~~~e~~~~rd~~~~pvSal~g------------egv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  145 -----------AELDG-VFGLAELIPRRDNPFQPVSALTG------------EGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             -----------HHHHH-HhhhhhhcCCccCccccchhhhc------------ccHHHHHHHHHHHHhhc
Confidence                       01111 11112222   356889999999            99999999999987666

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.54  E-value=1.9e-13  Score=119.55  Aligned_cols=116  Identities=12%  Similarity=0.129  Sum_probs=74.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCC------CCC--------CCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFE------DAS--------DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIR  114 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~------~~~--------~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~  114 (289)
                      .++|+++|..++|||||+++|+.....      ..+        ...-+................+.+.||||+..|...
T Consensus         2 ~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~~~~~   81 (195)
T cd01884           2 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYIKN   81 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEecCCCeEEEEEECcCHHHHHHH
Confidence            378999999999999999999864100      000        001111111112222233456889999999888665


Q ss_pred             ccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCC
Q 040295          115 SLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLL  165 (289)
Q Consensus       115 ~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~  165 (289)
                      ....+..+|++++|+|.+..-.-+ ....+..+...+.+++|+|.||+|+.
T Consensus        82 ~~~~~~~~D~~ilVvda~~g~~~~-~~~~~~~~~~~~~~~iIvviNK~D~~  131 (195)
T cd01884          82 MITGAAQMDGAILVVSATDGPMPQ-TREHLLLARQVGVPYIVVFLNKADMV  131 (195)
T ss_pred             HHHHhhhCCEEEEEEECCCCCcHH-HHHHHHHHHHcCCCcEEEEEeCCCCC
Confidence            556678899999999998642211 22233345555555588899999996

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.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.54  E-value=1.4e-13  Score=123.80  Aligned_cols=195  Identities=14%  Similarity=0.135  Sum_probs=111.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCC--------CC--------CCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcc
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFED--------AS--------DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIR  114 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~--------~~--------~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~  114 (289)
                      .|+++|+.|+|||||+++++...-..        ..        ....+..+............++.+|||||+..|...
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~~~i~liDTPG~~~f~~~   80 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWEDTKVNLIDTPGHMDFIAE   80 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECCEEEEEEeCCCccchHHH
Confidence            48999999999999999998642110        00        001111111111122233567999999999998877


Q ss_pred             ccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccC----CCCCcc
Q 040295          115 SLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREES----SADPDF  190 (289)
Q Consensus       115 ~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~----~~~~~~  190 (289)
                      ...+++.+|++|+|+|+++.... ....|...+... ..|+++++||+|+.... . .+....+...-..    ...|..
T Consensus        81 ~~~~l~~aD~~IlVvd~~~g~~~-~~~~~~~~~~~~-~~P~iivvNK~D~~~a~-~-~~~~~~i~~~~~~~~~~~~~p~~  156 (237)
T cd04168          81 VERSLSVLDGAILVISAVEGVQA-QTRILWRLLRKL-NIPTIIFVNKIDRAGAD-L-EKVYQEIKEKLSSDIVPMQKVGL  156 (237)
T ss_pred             HHHHHHHhCeEEEEEeCCCCCCH-HHHHHHHHHHHc-CCCEEEEEECccccCCC-H-HHHHHHHHHHHCCCeEEEECCcE
Confidence            77889999999999999976543 233444545444 34788899999996422 1 1111111110000    012211


Q ss_pred             cCCCCCc-c-----------cCC-----CCC-CCCCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhH
Q 040295          191 CQSGISE-T-----------EGS-----SLL-GDEEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGV  251 (289)
Q Consensus       191 ~~~~~~~-~-----------~~~-----~~~-~~~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i  251 (289)
                      . ..+.. .           |..     .+. ..+-..+++......-..... +|.+..||.++            .|+
T Consensus       157 ~-~~~~~~~~~~~~l~e~vae~dd~l~e~yl~~~~~~~~el~~~l~~~~~~~~~~Pv~~gsa~~~------------~Gv  223 (237)
T cd04168         157 A-PNICETNEIDDEFWETLAEGDDELLEKYLEGGPIEELELDNELSARIAKRKVFPVYHGSALKG------------IGI  223 (237)
T ss_pred             e-eeeeeeeeccHHHHHHHhcCCHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCeEEEEEccccCC------------cCH
Confidence            0 00100 0           000     001 112233455555544444444 48888999999            999


Q ss_pred             HHHHHHHHHhc
Q 040295          252 ERLYGALSAHM  262 (289)
Q Consensus       252 ~~l~~~L~~~~  262 (289)
                      .++++.+.+.+
T Consensus       224 ~~ll~~~~~~~  234 (237)
T cd04168         224 EELLEGITKLF  234 (237)
T ss_pred             HHHHHHHHHhc
Confidence            99999998854

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.

>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=99.53  E-value=5.8e-13  Score=119.37  Aligned_cols=168  Identities=14%  Similarity=0.195  Sum_probs=110.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCC---CCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc-----cccccccCc
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDA---SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI-----RSLPISDQL  122 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~---~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~-----~~~~~~~~a  122 (289)
                      ||+++|++++||||+.+.+..+-.+.+   ..+|...+........   .+.+++||.|||..+-.     .....++++
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve~~~v~~~~---~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v   77 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTIDVEKSHVRFLS---FLPLNIWDCPGQDDFMENYFNSQREEIFSNV   77 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGGGG-----SEEEEEEECTT---SCEEEEEEE-SSCSTTHTTHTCCHHHHHCTE
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcCCceEEEEecCC---CcEEEEEEcCCccccccccccccHHHHHhcc
Confidence            799999999999999988876543222   2345554433332222   35799999999975532     335668999


Q ss_pred             cEEEEEEeCCCHhhHHHH---HHHHHHhhhcCCC-eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcc
Q 040295          123 TALVMVFNLNDLSTLDAL---KHWVPSIDLQKFE-ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISET  198 (289)
Q Consensus       123 d~vIlV~Dv~~~~S~~~l---~~~~~~i~~~~~~-~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~  198 (289)
                      .++|+|+|+...+-.+.+   ...+..+...++. .+.|..+|+|+++      +..|.-                    
T Consensus        78 ~~LIyV~D~qs~~~~~~l~~~~~~i~~l~~~sp~~~v~vfiHK~D~l~------~~~r~~--------------------  131 (232)
T PF04670_consen   78 GVLIYVFDAQSDDYDEDLAYLSDCIEALRQYSPNIKVFVFIHKMDLLS------EDEREE--------------------  131 (232)
T ss_dssp             SEEEEEEETT-STCHHHHHHHHHHHHHHHHHSTT-EEEEEEE-CCCS-------HHHHHH--------------------
T ss_pred             CEEEEEEEcccccHHHHHHHHHHHHHHHHHhCCCCeEEEEEeecccCC------HHHHHH--------------------
Confidence            999999999844444444   4445555555665 7888899999975      233333                    


Q ss_pred             cCCCCCCCCCCcHHHHHHHHHHHHHcC---CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCccccc
Q 040295          199 EGSSLLGDEEPSWEIRRSCLEWCTEHR---IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKS  270 (289)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~  270 (289)
                                ......+.+...+...+   +.++-||-.+             +.+-+.+..+++.+.|+...-+
T Consensus       132 ----------~~~~~~~~i~~~~~~~~~~~~~~~~TSI~D-------------~Sly~A~S~Ivq~LiP~~~~le  183 (232)
T PF04670_consen  132 ----------IFRDIQQRIRDELEDLGIEDITFFLTSIWD-------------ESLYEAWSKIVQKLIPNLSTLE  183 (232)
T ss_dssp             ----------HHHHHHHHHHHHHHHTT-TSEEEEEE-TTS-------------THHHHHHHHHHHTTSTTHCCCC
T ss_pred             ----------HHHHHHHHHHHHhhhccccceEEEeccCcC-------------cHHHHHHHHHHHHHcccHHHHH
Confidence                      34455666777777777   7788888876             6999999999999998875443

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.

>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.52  E-value=2.3e-14  Score=117.79  Aligned_cols=160  Identities=18%  Similarity=0.164  Sum_probs=115.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ...+|+++|-.|+|||+++.++.-++. ....||++......    .+++.++++||..|+...+.+|+.|+.+.+++|+
T Consensus        17 ~e~rililgldGaGkttIlyrlqvgev-vttkPtigfnve~v----~yKNLk~~vwdLggqtSirPyWRcYy~dt~avIy   91 (182)
T KOG0072|consen   17 REMRILILGLDGAGKTTILYRLQVGEV-VTTKPTIGFNVETV----PYKNLKFQVWDLGGQTSIRPYWRCYYADTDAVIY   91 (182)
T ss_pred             cceEEEEeeccCCCeeEEEEEcccCcc-cccCCCCCcCcccc----ccccccceeeEccCcccccHHHHHHhcccceEEE
Confidence            457999999999999999999987775 45567777544332    3357789999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHH-Hhhhc--CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVP-SIDLQ--KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~-~i~~~--~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |+|.+|.+........+- .++..  ..-.++|++||.|.... ....+....+                          
T Consensus        92 VVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~-~t~~E~~~~L--------------------------  144 (182)
T KOG0072|consen   92 VVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGA-LTRSEVLKML--------------------------  144 (182)
T ss_pred             EEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhh-hhHHHHHHHh--------------------------
Confidence            999999888776664333 33222  22378889999998421 1111111111                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                  ...-.++.-+.+|++||.+|            +|++..++||.+.+.
T Consensus       145 ------------~l~~Lk~r~~~Iv~tSA~kg------------~Gld~~~DWL~~~l~  179 (182)
T KOG0072|consen  145 ------------GLQKLKDRIWQIVKTSAVKG------------EGLDPAMDWLQRPLK  179 (182)
T ss_pred             ------------ChHHHhhheeEEEeeccccc------------cCCcHHHHHHHHHHh
Confidence                        11112222267999999999            999999999988654

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.52  E-value=1.4e-13  Score=122.05  Aligned_cols=112  Identities=18%  Similarity=0.132  Sum_probs=70.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCC---------------------------C----CCCCCcceEEeeEEeecCcceEE
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFE---------------------------D----ASDSSSELLVNGWTINTKYYTAD   99 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~---------------------------~----~~~~t~~~~~~~~~i~~~~~~~~   99 (289)
                      .|+|+|+.++|||||+.+|+...-.                           +    +.......+.....+.  .....
T Consensus         1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~--~~~~~   78 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFE--TEKYR   78 (219)
T ss_pred             CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEe--eCCeE
Confidence            3899999999999999999742110                           0    0011111111111222  23467


Q ss_pred             EEEEEcCCchhhhccccccccCccEEEEEEeCCCHh-------hHHHHHHHHHHhhhcCCCeEEEEeeCCCCC
Q 040295          100 VSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLS-------TLDALKHWVPSIDLQKFEILLCIGNKVDLL  165 (289)
Q Consensus       100 l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~-------S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~  165 (289)
                      +.+|||||+..|.......++.+|++|+|+|+++..       ..+....| ......+.+|+|+|.||+|+.
T Consensus        79 i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~iiivvNK~Dl~  150 (219)
T cd01883          79 FTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHA-LLARTLGVKQLIVAVNKMDDV  150 (219)
T ss_pred             EEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHH-HHHHHcCCCeEEEEEEccccc
Confidence            999999999877655555577899999999998742       11222222 223344446899999999996

EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.52  E-value=2.2e-13  Score=131.12  Aligned_cols=167  Identities=13%  Similarity=0.085  Sum_probs=101.4

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcC------C-C---------CCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchh
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSV------N-F---------EDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEE  110 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~------~-~---------~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~  110 (289)
                      .+.++|+++|..++|||||+++|++.      . +         ..+.......+.....+  ......+.+|||||++.
T Consensus        10 ~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~~~--~~~~~~~~liDtpGh~~   87 (394)
T TIGR00485        10 KPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEY--ETENRHYAHVDCPGHAD   87 (394)
T ss_pred             CceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEEEE--cCCCEEEEEEECCchHH
Confidence            34588999999999999999999742      0 0         00111222222222222  22345789999999998


Q ss_pred             hhccccccccCccEEEEEEeCCC---HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCC
Q 040295          111 FSIRSLPISDQLTALVMVFNLND---LSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSAD  187 (289)
Q Consensus       111 ~~~~~~~~~~~ad~vIlV~Dv~~---~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~  187 (289)
                      |..........+|++++|+|+++   +++.+.+    ..+...+.+++|+|.||+|+.+..      +  .         
T Consensus        88 f~~~~~~~~~~~D~~ilVvda~~g~~~qt~e~l----~~~~~~gi~~iIvvvNK~Dl~~~~------~--~---------  146 (394)
T TIGR00485        88 YVKNMITGAAQMDGAILVVSATDGPMPQTREHI----LLARQVGVPYIVVFLNKCDMVDDE------E--L---------  146 (394)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHH----HHHHHcCCCEEEEEEEecccCCHH------H--H---------
Confidence            86544444567899999999987   3333332    234444555677789999996421      1  1         


Q ss_pred             CcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC-----CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          188 PDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR-----IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       188 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                            .+.+..++..++..++     ++++++||+++.--. .+   -..++.+++++|...+
T Consensus       147 ----------------------~~~~~~~i~~~l~~~~~~~~~~~ii~vSa~~g~~g~-~~---~~~~~~~ll~~l~~~~  200 (394)
T TIGR00485       147 ----------------------LELVEMEVRELLSEYDFPGDDTPIIRGSALKALEGD-AE---WEAKILELMDAVDEYI  200 (394)
T ss_pred             ----------------------HHHHHHHHHHHHHhcCCCccCccEEECccccccccC-Cc---hhHhHHHHHHHHHhcC
Confidence                                  0112234667777665     689999999871000 00   0025677777776543

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.

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.51  E-value=6.3e-13  Score=115.91  Aligned_cols=171  Identities=15%  Similarity=0.145  Sum_probs=99.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcce-EE--eeEEeecCcceEEEEEEEcCCchhhhccccc-----cccC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSEL-LV--NGWTINTKYYTADVSLWMAHLHEEFSIRSLP-----ISDQ  121 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~-~~--~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~-----~~~~  121 (289)
                      +||+|+|++|||||||+|.+.+..+......+.+. ..  ....+... ....+.+|||||..........     .+..
T Consensus         2 ~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~-~~~~l~l~DtpG~~~~~~~~~~~l~~~~~~~   80 (197)
T cd04104           2 LNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHP-KFPNVTLWDLPGIGSTAFPPDDYLEEMKFSE   80 (197)
T ss_pred             eEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeecC-CCCCceEEeCCCCCcccCCHHHHHHHhCccC
Confidence            68999999999999999999987654322222221 00  00011111 1236899999997533222222     2567


Q ss_pred             ccEEEEEEeCCCHhhHHHHH-HHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          122 LTALVMVFNLNDLSTLDALK-HWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       122 ad~vIlV~Dv~~~~S~~~l~-~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      +|++++|.+-    .|.... .|+..++.. ..|+++|+||+|+.....    ...+.                      
T Consensus        81 ~d~~l~v~~~----~~~~~d~~~~~~l~~~-~~~~ilV~nK~D~~~~~~----~~~~~----------------------  129 (197)
T cd04104          81 YDFFIIISST----RFSSNDVKLAKAIQCM-GKKFYFVRTKVDRDLSNE----QRSKP----------------------  129 (197)
T ss_pred             cCEEEEEeCC----CCCHHHHHHHHHHHHh-CCCEEEEEecccchhhhh----hcccc----------------------
Confidence            8888888432    244333 455555554 457899999999953210    00000                      


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCC---eEEEeecC--CCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRI---EYIEACAS--NVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~---~~ie~Sa~--~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                       +....+.-..++++.+.......+.   ++|-+|+.  .+            +++.++.+.++..+-..
T Consensus       130 -~~~~~~~~l~~i~~~~~~~~~~~~~~~p~v~~vS~~~~~~------------~~~~~l~~~~~~~l~~~  186 (197)
T cd04104         130 -RSFNREQVLQEIRDNCLENLQEAGVSEPPVFLVSNFDPSD------------YDFPKLRETLLKDLPAH  186 (197)
T ss_pred             -ccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEEeCCChhh------------cChHHHHHHHHHHhhHH
Confidence             0000111234455556666555443   48889998  45            89999999998876543

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

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.50  E-value=2.6e-13  Score=130.12  Aligned_cols=162  Identities=17%  Similarity=0.141  Sum_probs=103.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCch----------hhhccc-c
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHE----------EFSIRS-L  116 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e----------~~~~~~-~  116 (289)
                      ..+||+|+|.||||||||+|++++++....+ +..|.+.....+......-++.+.||+|..          .|.... .
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~-~~aGTTRD~I~~~~e~~~~~~~liDTAGiRrk~ki~e~~E~~Sv~rt~  255 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERVIVS-DIAGTTRDSIDIEFERDGRKYVLIDTAGIRRKGKITESVEKYSVARTL  255 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceEEec-CCCCccccceeeeEEECCeEEEEEECCCCCcccccccceEEEeehhhH
Confidence            4699999999999999999999999864322 222322223333333223468899999953          332211 1


Q ss_pred             ccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCC
Q 040295          117 PISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGIS  196 (289)
Q Consensus       117 ~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~  196 (289)
                      ..+..++.+++|.|.+.+-+-+... ....+.. ...++++|.||+|+.....      .                    
T Consensus       256 ~aI~~a~vvllviDa~~~~~~qD~~-ia~~i~~-~g~~~vIvvNKWDl~~~~~------~--------------------  307 (444)
T COG1160         256 KAIERADVVLLVIDATEGISEQDLR-IAGLIEE-AGRGIVIVVNKWDLVEEDE------A--------------------  307 (444)
T ss_pred             hHHhhcCEEEEEEECCCCchHHHHH-HHHHHHH-cCCCeEEEEEccccCCchh------h--------------------
Confidence            2256789999999999875554443 2233333 3347888999999976311      0                    


Q ss_pred             cccCCCCCCCCCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          197 ETEGSSLLGDEEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       197 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                  -.++.++.+.......+ .+.+.+||+++            .++.++|+++....
T Consensus       308 ------------~~~~~k~~i~~~l~~l~~a~i~~iSA~~~------------~~i~~l~~~i~~~~  350 (444)
T COG1160         308 ------------TMEEFKKKLRRKLPFLDFAPIVFISALTG------------QGLDKLFEAIKEIY  350 (444)
T ss_pred             ------------HHHHHHHHHHHHhccccCCeEEEEEecCC------------CChHHHHHHHHHHH
Confidence                        11223333444444444 47999999999            99999999887543

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.50  E-value=2.5e-13  Score=130.52  Aligned_cols=157  Identities=20%  Similarity=0.134  Sum_probs=105.0

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCC-CCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccc--------
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDA-SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRS--------  115 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~-~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~--------  115 (289)
                      -...++|++|+|.||||||||+|.|++.+.... ..+.+.-+...-.+..+|  +.+.+.||+|...-....        
T Consensus       213 ilr~G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i~G--~pv~l~DTAGiRet~d~VE~iGIeRs  290 (454)
T COG0486         213 ILREGLKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINLNG--IPVRLVDTAGIRETDDVVERIGIERA  290 (454)
T ss_pred             hhhcCceEEEECCCCCcHHHHHHHHhcCCceEecCCCCCccceEEEEEEECC--EEEEEEecCCcccCccHHHHHHHHHH
Confidence            356679999999999999999999999886422 222233334444555564  458999999974332221        


Q ss_pred             cccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCC
Q 040295          116 LPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGI  195 (289)
Q Consensus       116 ~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~  195 (289)
                      ...+++||.+++|+|.+.+.+-+... .+.  .....+|+++|.||.||.....                          
T Consensus       291 ~~~i~~ADlvL~v~D~~~~~~~~d~~-~~~--~~~~~~~~i~v~NK~DL~~~~~--------------------------  341 (454)
T COG0486         291 KKAIEEADLVLFVLDASQPLDKEDLA-LIE--LLPKKKPIIVVLNKADLVSKIE--------------------------  341 (454)
T ss_pred             HHHHHhCCEEEEEEeCCCCCchhhHH-HHH--hcccCCCEEEEEechhcccccc--------------------------
Confidence            23467899999999999862222211 111  2333458999999999964311                          


Q ss_pred             CcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          196 SETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                           ........+.+++.+||+++            +|++.+.++|.+.+...
T Consensus       342 ---------------------~~~~~~~~~~~~i~iSa~t~------------~Gl~~L~~~i~~~~~~~  378 (454)
T COG0486         342 ---------------------LESEKLANGDAIISISAKTG------------EGLDALREAIKQLFGKG  378 (454)
T ss_pred             ---------------------cchhhccCCCceEEEEecCc------------cCHHHHHHHHHHHHhhc
Confidence                                 01111123446899999999            99999999998876554

>cd01850 CDC_Septin CDC/Septin

Probab=99.50  E-value=4.4e-13  Score=123.23  Aligned_cols=115  Identities=16%  Similarity=0.200  Sum_probs=75.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCC----------CCCCcceEEeeEEeecCcceEEEEEEEcCCchhh-------
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDA----------SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF-------  111 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~----------~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~-------  111 (289)
                      .++|+++|.+|+|||||+|+|++..+...          ..+|.........+..++..+.+.+|||||...+       
T Consensus         4 ~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~~~~   83 (276)
T cd01850           4 QFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNSDCW   83 (276)
T ss_pred             EEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccccccchhhH
Confidence            47999999999999999999999876543          3445555555566666777889999999994221       


Q ss_pred             -------------------hcccccccc--CccEEEEEEeCCCHhhHHHH-HHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          112 -------------------SIRSLPISD--QLTALVMVFNLNDLSTLDAL-KHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       112 -------------------~~~~~~~~~--~ad~vIlV~Dv~~~~S~~~l-~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                                         .......+.  .+|+++++.+.+.. .+... ...+..+..  ..|+|+|+||+|+..
T Consensus        84 ~~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~-~l~~~D~~~lk~l~~--~v~vi~VinK~D~l~  157 (276)
T cd01850          84 KPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGH-GLKPLDIEFMKRLSK--RVNIIPVIAKADTLT  157 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCC-CCCHHHHHHHHHHhc--cCCEEEEEECCCcCC
Confidence                               111113333  36677777776531 22221 223333432  347889999999974

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.

>PRK12735 elongation factor Tu; Reviewed

Probab=99.49  E-value=6.3e-13  Score=127.99  Aligned_cols=170  Identities=12%  Similarity=0.066  Sum_probs=101.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcC-------CCC-----C----CCCCCcceEEeeEEeecCcceEEEEEEEcCCchhh
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSV-------NFE-----D----ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF  111 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~-------~~~-----~----~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~  111 (289)
                      +.++|+++|..++|||||+++|++.       .+.     +    +.......+.....+  ......+.++||||++.|
T Consensus        11 ~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~--~~~~~~i~~iDtPGh~~f   88 (396)
T PRK12735         11 PHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEY--ETANRHYAHVDCPGHADY   88 (396)
T ss_pred             CeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEE--cCCCcEEEEEECCCHHHH
Confidence            4478999999999999999999862       110     0    011111111111122  222346889999999988


Q ss_pred             hccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCccc
Q 040295          112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFC  191 (289)
Q Consensus       112 ~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~  191 (289)
                      ......-+..+|++++|+|+++...-+ ....+..+...+.+.++++.||+|+...     +...               
T Consensus        89 ~~~~~~~~~~aD~~llVvda~~g~~~q-t~e~l~~~~~~gi~~iivvvNK~Dl~~~-----~~~~---------------  147 (396)
T PRK12735         89 VKNMITGAAQMDGAILVVSAADGPMPQ-TREHILLARQVGVPYIVVFLNKCDMVDD-----EELL---------------  147 (396)
T ss_pred             HHHHHhhhccCCEEEEEEECCCCCchh-HHHHHHHHHHcCCCeEEEEEEecCCcch-----HHHH---------------
Confidence            655555577899999999998642222 1233334444455456678999999631     1111               


Q ss_pred             CCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC-----CeEEEeecCCCccc-ccccCCCCchhHHHHHHHHHHhc
Q 040295          192 QSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR-----IEYIEACASNVDFD-KCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       192 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~ie~Sa~~~~~~-~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                         +.+..++..++..++     ++++++||+++.=. ..+..+   .++.+++++|...+
T Consensus       148 -------------------~~~~~ei~~~l~~~~~~~~~~~ii~~Sa~~g~n~~~~~~w~---~~~~~Ll~~l~~~~  202 (396)
T PRK12735        148 -------------------ELVEMEVRELLSKYDFPGDDTPIIRGSALKALEGDDDEEWE---AKILELMDAVDSYI  202 (396)
T ss_pred             -------------------HHHHHHHHHHHHHcCCCcCceeEEecchhccccCCCCCccc---ccHHHHHHHHHhcC
Confidence                               112223556666554     57899999997110 001111   36788888887754

>PRK12736 elongation factor Tu; Reviewed

Probab=99.48  E-value=8.9e-13  Score=126.90  Aligned_cols=167  Identities=16%  Similarity=0.091  Sum_probs=102.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCC----------------CCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhh
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFE----------------DASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF  111 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~----------------~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~  111 (289)
                      +.++|+++|+.++|||||+++|++....                .+.......+.....+  ......+.++||||++.|
T Consensus        11 ~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~--~~~~~~i~~iDtPGh~~f   88 (394)
T PRK12736         11 PHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEY--ETEKRHYAHVDCPGHADY   88 (394)
T ss_pred             CeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEe--cCCCcEEEEEECCCHHHH
Confidence            3478999999999999999999863110                0011112222221222  222346789999999988


Q ss_pred             hccccccccCccEEEEEEeCCCH---hhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCC
Q 040295          112 SIRSLPISDQLTALVMVFNLNDL---STLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADP  188 (289)
Q Consensus       112 ~~~~~~~~~~ad~vIlV~Dv~~~---~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~  188 (289)
                      ......-...+|++++|+|.++.   .+.+.+    ..+...+.+.+|++.||+|+....     .   +          
T Consensus        89 ~~~~~~~~~~~d~~llVvd~~~g~~~~t~~~~----~~~~~~g~~~~IvviNK~D~~~~~-----~---~----------  146 (394)
T PRK12736         89 VKNMITGAAQMDGAILVVAATDGPMPQTREHI----LLARQVGVPYLVVFLNKVDLVDDE-----E---L----------  146 (394)
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCCchhHHHHH----HHHHHcCCCEEEEEEEecCCcchH-----H---H----------
Confidence            65444446778999999999863   333333    334444555578899999996311     1   1          


Q ss_pred             cccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC-----CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          189 DFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR-----IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                           .+.+..++..++...+     ++++.+||+++.- .....+   .++.++++.|...+-
T Consensus       147 ---------------------~~~i~~~i~~~l~~~~~~~~~~~ii~vSa~~g~~-~~~~~~---~~i~~Ll~~l~~~lp  201 (394)
T PRK12736        147 ---------------------LELVEMEVRELLSEYDFPGDDIPVIRGSALKALE-GDPKWE---DAIMELMDAVDEYIP  201 (394)
T ss_pred             ---------------------HHHHHHHHHHHHHHhCCCcCCccEEEeecccccc-CCCcch---hhHHHHHHHHHHhCC
Confidence                                 0112223556665555     4799999999710 000111   368899998887654

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.47  E-value=6.7e-13  Score=118.34  Aligned_cols=113  Identities=15%  Similarity=0.056  Sum_probs=76.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCC----------------C--CCCcceEEeeEEeec------CcceEEEEEEEcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDA----------------S--DSSSELLVNGWTINT------KYYTADVSLWMAH  106 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~----------------~--~~t~~~~~~~~~i~~------~~~~~~l~I~Dt~  106 (289)
                      .|+|+|+.++|||||+.+|+...-...                .  ..|+.....+.....      ++..+.+.+||||
T Consensus         2 NvaiiGhvd~GKTTL~d~Ll~~~g~i~~~~~g~~~~~D~~~~E~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDTP   81 (222)
T cd01885           2 NICIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYMDSREDEQERGITMKSSAISLYFEYEEEDKADGNEYLINLIDSP   81 (222)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCccccCCceeeccCCHHHHHhccccccceEEEEEecCcccccCCCceEEEEECCC
Confidence            589999999999999999985431100                0  001111111111111      1336789999999


Q ss_pred             CchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCC
Q 040295          107 LHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLL  165 (289)
Q Consensus       107 G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~  165 (289)
                      |++.|......+++.+|++|+|+|++...+.+....|.... ..+ .|+++|+||+|+.
T Consensus        82 G~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l~~~~-~~~-~p~ilviNKiD~~  138 (222)
T cd01885          82 GHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTETVLRQAL-KER-VKPVLVINKIDRL  138 (222)
T ss_pred             CccccHHHHHHHHHhcCeeEEEEECCCCCCHHHHHHHHHHH-HcC-CCEEEEEECCCcc
Confidence            99999888888899999999999999876665544333322 222 3788899999985

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

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.46  E-value=1.3e-12  Score=113.47  Aligned_cols=118  Identities=14%  Similarity=0.077  Sum_probs=78.7

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCC----------chhhhcc
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHL----------HEEFSIR  114 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G----------~e~~~~~  114 (289)
                      .......|+++|.||||||||||.+++++-......|.|.+....-.....   .+.+.|.||          ++.+..+
T Consensus        20 P~~~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~---~~~lVDlPGYGyAkv~k~~~e~w~~~   96 (200)
T COG0218          20 PEDDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDD---ELRLVDLPGYGYAKVPKEVKEKWKKL   96 (200)
T ss_pred             CCCCCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecC---cEEEEeCCCcccccCCHHHHHHHHHH
Confidence            344567899999999999999999999875445555555433221122221   278999998          3566666


Q ss_pred             ccccccC---ccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCC
Q 040295          115 SLPISDQ---LTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPG  167 (289)
Q Consensus       115 ~~~~~~~---ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~  167 (289)
                      ...|++.   ..+++++.|..++..-.+. ..++.+...+. |+++|+||+|.++.
T Consensus        97 i~~YL~~R~~L~~vvlliD~r~~~~~~D~-em~~~l~~~~i-~~~vv~tK~DKi~~  150 (200)
T COG0218          97 IEEYLEKRANLKGVVLLIDARHPPKDLDR-EMIEFLLELGI-PVIVVLTKADKLKK  150 (200)
T ss_pred             HHHHHhhchhheEEEEEEECCCCCcHHHH-HHHHHHHHcCC-CeEEEEEccccCCh
Confidence            6667543   5699999999876444333 22333333222 78889999999874

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.44  E-value=6.2e-13  Score=127.49  Aligned_cols=148  Identities=18%  Similarity=0.145  Sum_probs=97.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCC-CCCcceEEeeEEeecCcceEEEEEEEcCCchhhh-----cc----ccccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDAS-DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFS-----IR----SLPIS  119 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~-~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~-----~~----~~~~~  119 (289)
                      ..|+|+|.||||||||+|||++....-.. .+.+.-+.........+  ..+.+.||+|.+...     ..    ....+
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr~y~~~~~~~--~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai   81 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLG--REFILIDTGGLDDGDEDELQELIREQALIAI   81 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCccCCccceeEEcC--ceEEEEECCCCCcCCchHHHHHHHHHHHHHH
Confidence            57999999999999999999998753221 11111111111222222  348999999976432     11    12336


Q ss_pred             cCccEEEEEEeCCCHhhH--HHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCc
Q 040295          120 DQLTALVMVFNLNDLSTL--DALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISE  197 (289)
Q Consensus       120 ~~ad~vIlV~Dv~~~~S~--~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~  197 (289)
                      ..||++|||+|....-+-  +.+.+|+   + ...+|+|+|+||+|-...        ...                   
T Consensus        82 ~eADvilfvVD~~~Git~~D~~ia~~L---r-~~~kpviLvvNK~D~~~~--------e~~-------------------  130 (444)
T COG1160          82 EEADVILFVVDGREGITPADEEIAKIL---R-RSKKPVILVVNKIDNLKA--------EEL-------------------  130 (444)
T ss_pred             HhCCEEEEEEeCCCCCCHHHHHHHHHH---H-hcCCCEEEEEEcccCchh--------hhh-------------------
Confidence            789999999998764222  2333333   3 344589999999998521        111                   


Q ss_pred             ccCCCCCCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          198 TEGSSLLGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       198 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                         +.+ .-+.|+ +++.+||..|            .|+.++++++.+.+
T Consensus       131 -------------------~~e-fyslG~g~~~~ISA~Hg------------~Gi~dLld~v~~~l  164 (444)
T COG1160         131 -------------------AYE-FYSLGFGEPVPISAEHG------------RGIGDLLDAVLELL  164 (444)
T ss_pred             -------------------HHH-HHhcCCCCceEeehhhc------------cCHHHHHHHHHhhc
Confidence                               222 234576 5899999999            99999999999976

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

Probab=99.43  E-value=1.8e-12  Score=118.53  Aligned_cols=122  Identities=15%  Similarity=0.089  Sum_probs=79.0

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchh------------hh
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEE------------FS  112 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~------------~~  112 (289)
                      ...+...|+|+|.||||||||.|.+++.+....+...........-+-.. ...++.++||||.-.            +-
T Consensus        68 e~~k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~ilgi~ts-~eTQlvf~DTPGlvs~~~~r~~~l~~s~l  146 (379)
T KOG1423|consen   68 EAQKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRILGIITS-GETQLVFYDTPGLVSKKMHRRHHLMMSVL  146 (379)
T ss_pred             hcceEEEEEEEcCCCcchhhhhhHhhCCccccccccccceeeeeeEEEec-CceEEEEecCCcccccchhhhHHHHHHhh
Confidence            34566889999999999999999999999766544443333322222222 235899999999411            11


Q ss_pred             ccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCC
Q 040295          113 IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGH  168 (289)
Q Consensus       113 ~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~  168 (289)
                      +....-+..||++++|+|++++...-.- ..+..++.....|=|+|-||+|..+..
T Consensus       147 q~~~~a~q~AD~vvVv~Das~tr~~l~p-~vl~~l~~ys~ips~lvmnkid~~k~k  201 (379)
T KOG1423|consen  147 QNPRDAAQNADCVVVVVDASATRTPLHP-RVLHMLEEYSKIPSILVMNKIDKLKQK  201 (379)
T ss_pred             hCHHHHHhhCCEEEEEEeccCCcCccCh-HHHHHHHHHhcCCceeeccchhcchhh
Confidence            1112335679999999999963322111 233444555555667789999998643

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.42  E-value=4.4e-12  Score=113.21  Aligned_cols=114  Identities=17%  Similarity=0.146  Sum_probs=70.1

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCC----------------CC-------cceEEeeEEee-------------cC
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASD----------------SS-------SELLVNGWTIN-------------TK   94 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~----------------~t-------~~~~~~~~~i~-------------~~   94 (289)
                      ||+++|+.++|||||+++|..+.|.....                .|       .+.+.....++             ..
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~~~~~~~~~~~~~~~E~~~g~t~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNEILGFDSDGEVVNYPDNHLSESDIEICE   80 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCCCCCeEEeehhhhhhhhhcCchhhhhhhhcccCCCCceecCCCCccccccceeee
Confidence            68999999999999999999876643211                00       00000000000             00


Q ss_pred             cceEEEEEEEcCCchhhhccccccc--cCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295           95 YYTADVSLWMAHLHEEFSIRSLPIS--DQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        95 ~~~~~l~I~Dt~G~e~~~~~~~~~~--~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      .....+.+.||||++.|.......+  ..+|++++|+|......- .-..++..+...+. |+++|.||+|+.+
T Consensus        81 ~~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~-~d~~~l~~l~~~~i-p~ivvvNK~D~~~  152 (224)
T cd04165          81 KSSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGIIG-MTKEHLGLALALNI-PVFVVVTKIDLAP  152 (224)
T ss_pred             eCCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCcH-HHHHHHHHHHHcCC-CEEEEEECccccC
Confidence            1134688999999998854332223  368999999998765332 22234444444443 6888999999964

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

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.40  E-value=5.4e-12  Score=123.33  Aligned_cols=149  Identities=14%  Similarity=0.178  Sum_probs=97.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCC--C-----------------------------CCCCCCcceEEeeEEeecCcce
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNF--E-----------------------------DASDSSSELLVNGWTINTKYYT   97 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~--~-----------------------------~~~~~t~~~~~~~~~i~~~~~~   97 (289)
                      .+.|+++|+.++|||||+.+|+...-  .                             ++.......+....  ......
T Consensus         7 ~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~--~~~~~~   84 (447)
T PLN00043          7 HINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALW--KFETTK   84 (447)
T ss_pred             eEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEE--EecCCC
Confidence            47799999999999999999874211  0                             00111111111111  122334


Q ss_pred             EEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHH-------HHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCc
Q 040295           98 ADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLD-------ALKHWVPSIDLQKFEILLCIGNKVDLLPGHPV  170 (289)
Q Consensus        98 ~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~-------~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~  170 (289)
                      ..+.+.||||++.|-......+..+|++|+|+|+++ ..|+       .....+......+.+++|++.||+|+...   
T Consensus        85 ~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~-G~~e~g~~~~~qT~eh~~~~~~~gi~~iIV~vNKmD~~~~---  160 (447)
T PLN00043         85 YYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTT-GGFEAGISKDGQTREHALLAFTLGVKQMICCCNKMDATTP---  160 (447)
T ss_pred             EEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEccc-CceecccCCCchHHHHHHHHHHcCCCcEEEEEEcccCCch---
Confidence            578999999999998777788899999999999986 3332       22333333445566678989999998521   


Q ss_pred             hhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC-----CeEEEeecCCC
Q 040295          171 HAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR-----IEYIEACASNV  236 (289)
Q Consensus       171 ~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~ie~Sa~~~  236 (289)
                        ++.+.                               ..+++..+++.++...|     ++|+++||++|
T Consensus       161 --~~~~~-------------------------------~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G  198 (447)
T PLN00043        161 --KYSKA-------------------------------RYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEG  198 (447)
T ss_pred             --hhhHH-------------------------------HHHHHHHHHHHHHHHcCCCcccceEEEEecccc
Confidence              01000                               12344455788888776     56999999999

>cd04169 RF3 RF3 subfamily

Probab=99.40  E-value=3.7e-12  Score=116.57  Aligned_cols=114  Identities=18%  Similarity=0.186  Sum_probs=74.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCC-CCC---------CCC----------cceEEeeEEeecCcceEEEEEEEcCCchh
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFE-DAS---------DSS----------SELLVNGWTINTKYYTADVSLWMAHLHEE  110 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~-~~~---------~~t----------~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~  110 (289)
                      .|+|+|++|+|||||+++++...-. ...         ..+          -+..+............++.+|||||+..
T Consensus         4 ni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~~~~~i~liDTPG~~d   83 (267)
T cd04169           4 TFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRDCVINLLDTPGHED   83 (267)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEeeCCEEEEEEECCCchH
Confidence            5999999999999999999853211 000         000          01111111122233457899999999998


Q ss_pred             hhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          111 FSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       111 ~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      |.......++.+|++|+|+|.++..... ...++..... ...|+++++||+|+..
T Consensus        84 f~~~~~~~l~~aD~~IlVvda~~g~~~~-~~~i~~~~~~-~~~P~iivvNK~D~~~  137 (267)
T cd04169          84 FSEDTYRTLTAVDSAVMVIDAAKGVEPQ-TRKLFEVCRL-RGIPIITFINKLDREG  137 (267)
T ss_pred             HHHHHHHHHHHCCEEEEEEECCCCccHH-HHHHHHHHHh-cCCCEEEEEECCccCC
Confidence            8765666788999999999998653322 2233333333 3447899999999854

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.

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.39  E-value=3.9e-12  Score=122.92  Aligned_cols=114  Identities=18%  Similarity=0.113  Sum_probs=71.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCC-------------CCC--------------------CcceEEeeEEeecCcc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDA-------------SDS--------------------SSELLVNGWTINTKYY   96 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~-------------~~~--------------------t~~~~~~~~~i~~~~~   96 (289)
                      ++|+|+|+.++|||||+.+|+...-...             ...                    ....+.....+..  .
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~~--~   78 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFST--D   78 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEcc--C
Confidence            4899999999999999999975431110             000                    0111111111112  2


Q ss_pred             eEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295           97 TADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        97 ~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ..++.++||||++.|......-+..+|++|+|+|.+....-+....|. .+...+.+++++|.||+|+..
T Consensus        79 ~~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~~-~~~~~~~~~iivviNK~D~~~  147 (406)
T TIGR02034        79 KRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTRRHSY-IASLLGIRHVVLAVNKMDLVD  147 (406)
T ss_pred             CeEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccHHHHH-HHHHcCCCcEEEEEEeccccc
Confidence            357899999999988654445678899999999997542211111121 223334457888999999963

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).

>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=99.38  E-value=7.1e-13  Score=114.41  Aligned_cols=116  Identities=19%  Similarity=0.283  Sum_probs=72.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccc---cccCccEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLP---ISDQLTALV  126 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~---~~~~ad~vI  126 (289)
                      -.|+|+|++|+|||+|+.+|..+.+...+++. .... ...+ .....-.+.+.|+||+++.+.....   +...+.++|
T Consensus         4 ~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS~-e~n~-~~~~-~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~II   80 (181)
T PF09439_consen    4 PTVLLVGPSGSGKTALFSQLVNGKTVPTVTSM-ENNI-AYNV-NNSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKGII   80 (181)
T ss_dssp             -EEEEE-STTSSHHHHHHHHHHSS---B---S-SEEE-ECCG-SSTCGTCECEEEETT-HCCCHHHHHHHHHHGGEEEEE
T ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCcCCeeccc-cCCc-eEEe-ecCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCEEE
Confidence            46999999999999999999999766554443 2221 1111 1222335899999999988763333   477899999


Q ss_pred             EEEeCC-CHhhHHHHHHHHHHh----h-hcCCCeEEEEeeCCCCCCCC
Q 040295          127 MVFNLN-DLSTLDALKHWVPSI----D-LQKFEILLCIGNKVDLLPGH  168 (289)
Q Consensus       127 lV~Dv~-~~~S~~~l~~~~~~i----~-~~~~~~iivvgnK~Dl~~~~  168 (289)
                      ||.|.+ ....+..+.+++-.+    . ..+.+|+++++||.|+....
T Consensus        81 fvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A~  128 (181)
T PF09439_consen   81 FVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTAK  128 (181)
T ss_dssp             EEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT--
T ss_pred             EEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccccccC
Confidence            999997 455666666555544    2 12444999999999997643

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.

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=99.37  E-value=5.4e-13  Score=105.87  Aligned_cols=86  Identities=19%  Similarity=0.234  Sum_probs=66.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCC-CCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASD-SSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~-~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      +||+++|+.|+|||+|+.++....|...+. +|.+                           +..+...+.+.++++++|
T Consensus         1 ~kvv~~G~~gvGKt~l~~~~~~~~~~~~~~~~t~~---------------------------~~~~~~~~~~s~~~~~~v   53 (124)
T smart00010        1 FKVVGIGDSGVGKVGKSARFVQFPFDYVPTVFTIG---------------------------IDVYDPTSYESFDVVLQC   53 (124)
T ss_pred             CEEEEECCCChhHHHHHHHHhcCCccccCceehhh---------------------------hhhccccccCCCCEEEEE
Confidence            589999999999999999998777754333 3332                           333344667789999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcC-C-CeEEEEeeCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQK-F-EILLCIGNKVDL  164 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~-~-~~iivvgnK~Dl  164 (289)
                      |+.+..++++.+  |...+.... . .|++++|||.|+
T Consensus        54 ~~~~~~~s~~~~--~~~~i~~~~k~dl~~~~~~nk~dl   89 (124)
T smart00010       54 WRVDDRDSADNK--NVPEVLVGNKSDLPILVGGNRDVL   89 (124)
T ss_pred             EEccCHHHHHHH--hHHHHHhcCCCCCcEEEEeechhh
Confidence            999999999876  877765442 2 378889999998

SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily.

>PRK13351 elongation factor G; Reviewed

Probab=99.37  E-value=5.3e-12  Score=129.44  Aligned_cols=115  Identities=19%  Similarity=0.108  Sum_probs=81.6

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCC--------C------------CCCCCcceEEeeEEeecCcceEEEEEEEcC
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFE--------D------------ASDSSSELLVNGWTINTKYYTADVSLWMAH  106 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~--------~------------~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~  106 (289)
                      +...+|+|+|+.++|||||+++|+...-.        .            .+..|+.....  .+..  ....+.+||||
T Consensus         6 ~~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~--~~~~--~~~~i~liDtP   81 (687)
T PRK13351          6 MQIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAAT--SCDW--DNHRINLIDTP   81 (687)
T ss_pred             ccccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceE--EEEE--CCEEEEEEECC
Confidence            34578999999999999999999853210        0            01112222111  2222  24679999999


Q ss_pred             CchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCC
Q 040295          107 LHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPG  167 (289)
Q Consensus       107 G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~  167 (289)
                      |+..|......+++.+|++|+|+|.++....+....|. .+... ..|+++|+||+|+...
T Consensus        82 G~~df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~~-~~~~~-~~p~iiviNK~D~~~~  140 (687)
T PRK13351         82 GHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVWR-QADRY-GIPRLIFINKMDRVGA  140 (687)
T ss_pred             CcHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHH-HHHhc-CCCEEEEEECCCCCCC
Confidence            99999887788899999999999999887776665553 33333 3478889999999753

>CHL00071 tufA elongation factor Tu

Probab=99.37  E-value=1.3e-11  Score=119.43  Aligned_cols=118  Identities=13%  Similarity=0.093  Sum_probs=74.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCC------C--------CCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFED------A--------SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI  113 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~------~--------~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~  113 (289)
                      +.++|+++|++++|||||+++|++..-..      .        ....-+................+.+.||||+..|..
T Consensus        11 ~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~~iDtPGh~~~~~   90 (409)
T CHL00071         11 PHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYETENRHYAHVDCPGHADYVK   90 (409)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEccCCeEEEEEECCChHHHHH
Confidence            34789999999999999999999642100      0        000112111111111222334678999999988865


Q ss_pred             cccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          114 RSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       114 ~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ....-+..+|++++|+|......- .-...+..+...+.+.+|++.||+|+.+
T Consensus        91 ~~~~~~~~~D~~ilVvda~~g~~~-qt~~~~~~~~~~g~~~iIvvvNK~D~~~  142 (409)
T CHL00071         91 NMITGAAQMDGAILVVSAADGPMP-QTKEHILLAKQVGVPNIVVFLNKEDQVD  142 (409)
T ss_pred             HHHHHHHhCCEEEEEEECCCCCcH-HHHHHHHHHHHcCCCEEEEEEEccCCCC
Confidence            555567789999999999854221 1222333344445545888999999964

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

Probab=99.36  E-value=1.7e-12  Score=118.34  Aligned_cols=112  Identities=16%  Similarity=0.071  Sum_probs=74.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCC------CC------------CcceEEeeEEeecCcceEEEEEEEcCCchhhh
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDAS------DS------------SSELLVNGWTINTKYYTADVSLWMAHLHEEFS  112 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~------~~------------t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~  112 (289)
                      +|+|+|++|+|||||+++++........      ..            ..........+..  ..+.+.+|||||+..|.
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~--~~~~i~liDtPG~~~f~   78 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEW--KGHKINLIDTPGYADFV   78 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEE--CCEEEEEEECcCHHHHH
Confidence            4899999999999999999753211100      00            0011111112222  24578999999998887


Q ss_pred             ccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          113 IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       113 ~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ......++.+|++|+|+|.+..........|. .+... ..|+++|+||+|+..
T Consensus        79 ~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~~-~~~~~-~~p~iivvNK~D~~~  130 (268)
T cd04170          79 GETRAALRAADAALVVVSAQSGVEVGTEKLWE-FADEA-GIPRIIFINKMDRER  130 (268)
T ss_pred             HHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHH-HHHHc-CCCEEEEEECCccCC
Confidence            76777889999999999999765554444443 23333 347888999999853

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

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.36  E-value=8.9e-12  Score=122.65  Aligned_cols=117  Identities=16%  Similarity=0.096  Sum_probs=72.1

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCC-------------CCCC--------------------cceEEeeEEeec
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDA-------------SDSS--------------------SELLVNGWTINT   93 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~-------------~~~t--------------------~~~~~~~~~i~~   93 (289)
                      ...++|+|+|+.++|||||+.+|+...-...             ...+                    ...+......  
T Consensus        25 ~~~~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~~--  102 (474)
T PRK05124         25 KSLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYF--  102 (474)
T ss_pred             cCceEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEEe--
Confidence            3448999999999999999999986532110             0000                    1111111111  


Q ss_pred             CcceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295           94 KYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        94 ~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ......+.++||||++.|......-+..+|++|+|+|.+....-.....| ..+...+.+++|+|.||+|+..
T Consensus       103 ~~~~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~-~l~~~lg~~~iIvvvNKiD~~~  174 (474)
T PRK05124        103 STEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHS-FIATLLGIKHLVVAVNKMDLVD  174 (474)
T ss_pred             ccCCcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchHHH-HHHHHhCCCceEEEEEeecccc
Confidence            22245788999999998854443446889999999999754211111111 1122233457889999999963

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.35  E-value=1.3e-11  Score=115.63  Aligned_cols=81  Identities=17%  Similarity=0.040  Sum_probs=55.6

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCC------CCCCCcceEEeeEEee---------------cCc-ceEEEEEEEcCCc-
Q 040295           52 ILIIGSSNVGKRTILSRLLSVNFED------ASDSSSELLVNGWTIN---------------TKY-YTADVSLWMAHLH-  108 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~~~~~~------~~~~t~~~~~~~~~i~---------------~~~-~~~~l~I~Dt~G~-  108 (289)
                      |+|+|.+|||||||+++|++..+..      ...++.+..+......               .++ ..+.+++|||||+ 
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGlv   80 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGLV   80 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCCC
Confidence            5799999999999999999887531      1233333333211000               112 3467999999997 


Q ss_pred             ---hhhhcccccc---ccCccEEEEEEeCC
Q 040295          109 ---EEFSIRSLPI---SDQLTALVMVFNLN  132 (289)
Q Consensus       109 ---e~~~~~~~~~---~~~ad~vIlV~Dv~  132 (289)
                         +.+..+.+.+   ++.||++++|+|++
T Consensus        81 ~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~  110 (318)
T cd01899          81 PGAHEGKGLGNKFLDDLRDADALIHVVDAS  110 (318)
T ss_pred             CCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence               5555555554   88999999999997

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.

>PRK00049 elongation factor Tu; Reviewed

Probab=99.34  E-value=3.1e-11  Score=116.34  Aligned_cols=116  Identities=11%  Similarity=0.094  Sum_probs=73.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCC----------------CCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhh
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFE----------------DASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF  111 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~----------------~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~  111 (289)
                      +.++|+++|..++|||||+++|++....                ++.......+.....+  ......+.+.||||+..|
T Consensus        11 ~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~--~~~~~~i~~iDtPG~~~f   88 (396)
T PRK00049         11 PHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEY--ETEKRHYAHVDCPGHADY   88 (396)
T ss_pred             CEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEE--cCCCeEEEEEECCCHHHH
Confidence            4478999999999999999999873100                0011111112211122  222356789999999888


Q ss_pred             hccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       112 ~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      .......+..+|++++|+|......-+ ...++..+...+.+.+|++.||+|+.+
T Consensus        89 ~~~~~~~~~~aD~~llVVDa~~g~~~q-t~~~~~~~~~~g~p~iiVvvNK~D~~~  142 (396)
T PRK00049         89 VKNMITGAAQMDGAILVVSAADGPMPQ-TREHILLARQVGVPYIVVFLNKCDMVD  142 (396)
T ss_pred             HHHHHhhhccCCEEEEEEECCCCCchH-HHHHHHHHHHcCCCEEEEEEeecCCcc
Confidence            665556678899999999998642222 223334444444444556899999963

>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=99.34  E-value=1.6e-11  Score=97.53  Aligned_cols=103  Identities=15%  Similarity=0.184  Sum_probs=64.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCC---CCCCCcceEEeeEEeecCcceEEEEEEEcCCchh----------hhccccc
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFED---ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEE----------FSIRSLP  117 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~---~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~----------~~~~~~~  117 (289)
                      +|+|+|.+|||||||+|.|++.+...   ....|....+....+  .  ...+.++||||...          +......
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~~~~~~~~~~--~--~~~~~~vDtpG~~~~~~~~~~~~~~~~~~~~   76 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTRDPVYGQFEY--N--NKKFILVDTPGINDGESQDNDGKEIRKFLEQ   76 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSSSEEEEEEEE--T--TEEEEEEESSSCSSSSHHHHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHhccccccccccccceeeeeeeeeee--c--eeeEEEEeCCCCcccchhhHHHHHHHHHHHH
Confidence            69999999999999999999864321   122222222222222  3  23467999999631          1122223


Q ss_pred             cccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeC
Q 040295          118 ISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNK  161 (289)
Q Consensus       118 ~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK  161 (289)
                       +..+|++|+|+|.+++.. +....++..++  ..+|+++|.||
T Consensus        77 -~~~~d~ii~vv~~~~~~~-~~~~~~~~~l~--~~~~~i~v~NK  116 (116)
T PF01926_consen   77 -ISKSDLIIYVVDASNPIT-EDDKNILRELK--NKKPIILVLNK  116 (116)
T ss_dssp             -HCTESEEEEEEETTSHSH-HHHHHHHHHHH--TTSEEEEEEES
T ss_pred             -HHHCCEEEEEEECCCCCC-HHHHHHHHHHh--cCCCEEEEEcC
Confidence             478999999999887422 22233334443  56689999998

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 ....

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.34  E-value=1.5e-11  Score=122.45  Aligned_cols=118  Identities=19%  Similarity=0.226  Sum_probs=76.7

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCC--CCCC------------------CCCCcceEEeeEEeecCcceEEEEEEEcC
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVN--FEDA------------------SDSSSELLVNGWTINTKYYTADVSLWMAH  106 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~--~~~~------------------~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~  106 (289)
                      ...-+|+|+|++++|||||+++|+...  ....                  ....-+..+...........+.+.+||||
T Consensus         8 ~~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~~~inliDTP   87 (526)
T PRK00741          8 AKRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRDCLINLLDTP   87 (526)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECCEEEEEEECC
Confidence            455689999999999999999997411  1000                  00001111111112223335679999999


Q ss_pred             CchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          107 LHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       107 G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      |++.|......+++.+|++|+|+|.++...- ....++..... ...|+++++||+|+..
T Consensus        88 G~~df~~~~~~~l~~aD~aIlVvDa~~gv~~-~t~~l~~~~~~-~~iPiiv~iNK~D~~~  145 (526)
T PRK00741         88 GHEDFSEDTYRTLTAVDSALMVIDAAKGVEP-QTRKLMEVCRL-RDTPIFTFINKLDRDG  145 (526)
T ss_pred             CchhhHHHHHHHHHHCCEEEEEEecCCCCCH-HHHHHHHHHHh-cCCCEEEEEECCcccc
Confidence            9999877666778999999999999865322 22333333333 3447999999999854

>PLN03126 Elongation factor Tu; Provisional

Probab=99.33  E-value=2.1e-11  Score=120.05  Aligned_cols=117  Identities=14%  Similarity=0.079  Sum_probs=75.5

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCC------CCC----------CCCCCcceEEeeEEeecCcceEEEEEEEcCCchh
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVN------FED----------ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEE  110 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~------~~~----------~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~  110 (289)
                      .+.++|+++|+.++|||||+++|+...      ...          +.......+.....+..+  ...+.++||||++.
T Consensus        79 k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~--~~~i~liDtPGh~~  156 (478)
T PLN03126         79 KPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETE--NRHYAHVDCPGHAD  156 (478)
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecC--CcEEEEEECCCHHH
Confidence            345789999999999999999999521      100          111111111111122222  34688999999998


Q ss_pred             hhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          111 FSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       111 ~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      |-.....-+..+|++++|+|..+...-+. ..++..+...+.+.+|++.||+|+.+
T Consensus       157 f~~~~~~g~~~aD~ailVVda~~G~~~qt-~e~~~~~~~~gi~~iIvvvNK~Dl~~  211 (478)
T PLN03126        157 YVKNMITGAAQMDGAILVVSGADGPMPQT-KEHILLAKQVGVPNMVVFLNKQDQVD  211 (478)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCCcHHH-HHHHHHHHHcCCCeEEEEEecccccC
Confidence            86655555778999999999886532222 23334455555555888999999964

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.33  E-value=1.2e-11  Score=125.84  Aligned_cols=115  Identities=15%  Similarity=0.075  Sum_probs=71.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCC-------------CCCC-cceE-------------------EeeEEeecCc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDA-------------SDSS-SELL-------------------VNGWTINTKY   95 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~-------------~~~t-~~~~-------------------~~~~~i~~~~   95 (289)
                      .++|+|+|++++|||||+++|+...-...             ...| ....                   .....+.  .
T Consensus        24 ~~~i~iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~~~--~  101 (632)
T PRK05506         24 LLRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRYFA--T  101 (632)
T ss_pred             eeEEEEECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeEEc--c
Confidence            37899999999999999999997542111             0000 0001                   0001111  1


Q ss_pred             ceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295           96 YTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        96 ~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ...++.++||||++.|.......+..+|++++|+|++....-+... ....+...+.+++|||.||+|+.+
T Consensus       102 ~~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t~e-~~~~~~~~~~~~iivvvNK~D~~~  171 (632)
T PRK05506        102 PKRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQTRR-HSFIASLLGIRHVVLAVNKMDLVD  171 (632)
T ss_pred             CCceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccCHH-HHHHHHHhCCCeEEEEEEeccccc
Confidence            2346789999999988654445578899999999997542211111 111233334467889999999963

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.29  E-value=6.5e-11  Score=118.32  Aligned_cols=155  Identities=14%  Similarity=0.088  Sum_probs=110.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccc------cccc--c
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRS------LPIS--D  120 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~------~~~~--~  120 (289)
                      ..+|+++|.||||||||+|++++.+-....-+...++...-.....++  ++++.|.||...+....      +.|+  .
T Consensus         3 ~~~valvGNPNvGKTtlFN~LTG~~q~VgNwpGvTVEkkeg~~~~~~~--~i~ivDLPG~YSL~~~S~DE~Var~~ll~~   80 (653)
T COG0370           3 KLTVALVGNPNVGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKYKGH--EIEIVDLPGTYSLTAYSEDEKVARDFLLEG   80 (653)
T ss_pred             cceEEEecCCCccHHHHHHHHhccCceecCCCCeeEEEEEEEEEecCc--eEEEEeCCCcCCCCCCCchHHHHHHHHhcC
Confidence            467999999999999999999998765555566666655555555544  48999999976554332      3342  3


Q ss_pred             CccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          121 QLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       121 ~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      .+|++|-|.|.++.+.--.+--   ++...+. |++++.|++|..+        ++-+                      
T Consensus        81 ~~D~ivnVvDAtnLeRnLyltl---QLlE~g~-p~ilaLNm~D~A~--------~~Gi----------------------  126 (653)
T COG0370          81 KPDLIVNVVDATNLERNLYLTL---QLLELGI-PMILALNMIDEAK--------KRGI----------------------  126 (653)
T ss_pred             CCCEEEEEcccchHHHHHHHHH---HHHHcCC-CeEEEeccHhhHH--------hcCC----------------------
Confidence            5799999999998743322221   2222222 6999999999953        2222                      


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                          ..+         ...+.+..|+|.++++|++|            .|++++...+.+..-.
T Consensus       127 ----~ID---------~~~L~~~LGvPVv~tvA~~g------------~G~~~l~~~i~~~~~~  165 (653)
T COG0370         127 ----RID---------IEKLSKLLGVPVVPTVAKRG------------EGLEELKRAIIELAES  165 (653)
T ss_pred             ----ccc---------HHHHHHHhCCCEEEEEeecC------------CCHHHHHHHHHHhccc
Confidence                111         67888899999999999999            9999999999874433

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.28  E-value=9.6e-11  Score=108.36  Aligned_cols=115  Identities=15%  Similarity=0.162  Sum_probs=81.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCcceEEeeEEeecCcceEEEEEEEcCCch--hhhccc----c---c
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFED-ASDSSSELLVNGWTINTKYYTADVSLWMAHLHE--EFSIRS----L---P  117 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e--~~~~~~----~---~  117 (289)
                      ....|+|+|.||||||||++.+.+.+... .|..|+.--+..+-   ......+++.||||.=  .+...+    +   .
T Consensus       167 ~~pTivVaG~PNVGKSSlv~~lT~AkpEvA~YPFTTK~i~vGhf---e~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~A  243 (346)
T COG1084         167 DLPTIVVAGYPNVGKSSLVRKLTTAKPEVAPYPFTTKGIHVGHF---ERGYLRIQVIDTPGLLDRPLEERNEIERQAILA  243 (346)
T ss_pred             CCCeEEEecCCCCcHHHHHHHHhcCCCccCCCCccccceeEeee---ecCCceEEEecCCcccCCChHHhcHHHHHHHHH
Confidence            45789999999999999999999988643 35555443322221   2223579999999951  111111    1   1


Q ss_pred             cccCccEEEEEEeCCC--HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCC
Q 040295          118 ISDQLTALVMVFNLND--LSTLDALKHWVPSIDLQKFEILLCIGNKVDLL  165 (289)
Q Consensus       118 ~~~~ad~vIlV~Dv~~--~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~  165 (289)
                      .-.-+++++|+||.+.  .-+.+....++..++..-..|+++|.||+|+.
T Consensus       244 L~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~~p~v~V~nK~D~~  293 (346)
T COG1084         244 LRHLAGVILFLFDPSETCGYSLEEQISLLEEIKELFKAPIVVVINKIDIA  293 (346)
T ss_pred             HHHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcCCCeEEEEeccccc
Confidence            1123679999999974  56667778888999887778999999999995

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.26  E-value=1.3e-10  Score=119.31  Aligned_cols=117  Identities=16%  Similarity=0.094  Sum_probs=78.4

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCC-C---C--------------CCCcceEEeeEEeecCcceEEEEEEEcCC
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFED-A---S--------------DSSSELLVNGWTINTKYYTADVSLWMAHL  107 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~-~---~--------------~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G  107 (289)
                      .+..-+|+|+|+.++|||||+++|+...-.. .   .              ...+........+..+  ..++.+|||||
T Consensus         7 ~~~irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~--~~~i~liDTPG   84 (689)
T TIGR00484         7 LNRFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWK--GHRINIIDTPG   84 (689)
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEEC--CeEEEEEECCC
Confidence            3445689999999999999999997422110 0   0              1111111222222222  46799999999


Q ss_pred             chhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          108 HEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       108 ~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      +..|.......++.+|++|+|+|.++....+....|. .+...+ .|+++|+||+|+..
T Consensus        85 ~~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~~~~~-~~~~~~-~p~ivviNK~D~~~  141 (689)
T TIGR00484        85 HVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSETVWR-QANRYE-VPRIAFVNKMDKTG  141 (689)
T ss_pred             CcchhHHHHHHHHHhCEEEEEEeCCCCCChhHHHHHH-HHHHcC-CCEEEEEECCCCCC
Confidence            9988776677889999999999998765554443332 343333 46788999999975

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.

>COG2262 HflX GTPases [General function prediction only]

Probab=99.25  E-value=1.4e-10  Score=110.01  Aligned_cols=153  Identities=17%  Similarity=0.126  Sum_probs=105.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCC--CCCCCcceEEeeEEeecCcceEEEEEEEcCCc---------hhhhcccc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFED--ASDSSSELLVNGWTINTKYYTADVSLWMAHLH---------EEFSIRSL  116 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~--~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~---------e~~~~~~~  116 (289)
                      ..+.|.++|-.|+|||||+|++.+.....  ..-.|.........+..   ...+.+.||.|-         +.|++-. 
T Consensus       191 ~~p~vaLvGYTNAGKSTL~N~LT~~~~~~~d~LFATLdpttR~~~l~~---g~~vlLtDTVGFI~~LP~~LV~AFksTL-  266 (411)
T COG2262         191 GIPLVALVGYTNAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGD---GRKVLLTDTVGFIRDLPHPLVEAFKSTL-  266 (411)
T ss_pred             CCCeEEEEeeccccHHHHHHHHhccCeeccccccccccCceeEEEeCC---CceEEEecCccCcccCChHHHHHHHHHH-
Confidence            34789999999999999999999876542  23445555544444443   235888999983         4555433 


Q ss_pred             ccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhc--CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCC
Q 040295          117 PISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQ--KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSG  194 (289)
Q Consensus       117 ~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~--~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~  194 (289)
                      .-...+|.++.|.|.++|...+.+..-..-+...  ...|+|+|.||+|+.....       .+                
T Consensus       267 EE~~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~~~~-------~~----------------  323 (411)
T COG2262         267 EEVKEADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLEDEE-------IL----------------  323 (411)
T ss_pred             HHhhcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccCchh-------hh----------------
Confidence            2356799999999999997777776444444333  2258999999999875310       11                


Q ss_pred             CCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          195 ISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                             ..+..... ..+.+||+++            +|++.+++.|...+-
T Consensus       324 -----------------------~~~~~~~~-~~v~iSA~~~------------~gl~~L~~~i~~~l~  356 (411)
T COG2262         324 -----------------------AELERGSP-NPVFISAKTG------------EGLDLLRERIIELLS  356 (411)
T ss_pred             -----------------------hhhhhcCC-CeEEEEeccC------------cCHHHHHHHHHHHhh
Confidence                                   11111112 4789999999            999999999988664

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

Probab=99.24  E-value=7.1e-11  Score=108.31  Aligned_cols=112  Identities=18%  Similarity=0.071  Sum_probs=72.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCC------------------CCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhh
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFE------------------DASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFS  112 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~------------------~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~  112 (289)
                      .|+|+|++|+|||||+++++...-.                  .+.............+..  ...++.+|||||+..|.
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~--~~~~i~liDTPG~~df~   78 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFW--KDHRINIIDTPGHVDFT   78 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEE--CCEEEEEEECCCcHHHH
Confidence            4899999999999999999742110                  000111111111112222  24678999999999887


Q ss_pred             ccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          113 IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       113 ~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ......++.+|++|+|.|..+...-.. ...+..+... ..|++++.||+|+..
T Consensus        79 ~~~~~~l~~aD~ailVVDa~~g~~~~t-~~~~~~~~~~-~~p~ivviNK~D~~~  130 (270)
T cd01886          79 IEVERSLRVLDGAVAVFDAVAGVEPQT-ETVWRQADRY-NVPRIAFVNKMDRTG  130 (270)
T ss_pred             HHHHHHHHHcCEEEEEEECCCCCCHHH-HHHHHHHHHc-CCCEEEEEECCCCCC
Confidence            777788999999999999976432221 1222333333 347888999999853

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

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.24  E-value=1.4e-10  Score=113.15  Aligned_cols=156  Identities=17%  Similarity=0.277  Sum_probs=106.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCC----CCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDA----SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~----~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      .+=|+|+|+-.-|||||+..+-+.+....    .++.++...  ..++. ...-.+.+.||||++.|..+...-.+-+|+
T Consensus         5 ~PvVtimGHVDHGKTtLLD~IR~t~Va~~EaGGITQhIGA~~--v~~~~-~~~~~itFiDTPGHeAFt~mRaRGa~vtDI   81 (509)
T COG0532           5 PPVVTIMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAYQ--VPLDV-IKIPGITFIDTPGHEAFTAMRARGASVTDI   81 (509)
T ss_pred             CCEEEEeCcccCCccchhhhHhcCccccccCCceeeEeeeEE--EEecc-CCCceEEEEcCCcHHHHHHHHhcCCccccE
Confidence            35699999999999999999987775432    233333222  22211 122358999999999999988877888999


Q ss_pred             EEEEEeCCC---HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          125 LVMVFNLND---LSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       125 vIlV~Dv~~---~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      +|||.|+++   |++.+.+..    .+. ...|++++.||+|..+..+ . ....++            ..+|+.     
T Consensus        82 aILVVa~dDGv~pQTiEAI~h----ak~-a~vP~iVAiNKiDk~~~np-~-~v~~el------------~~~gl~-----  137 (509)
T COG0532          82 AILVVAADDGVMPQTIEAINH----AKA-AGVPIVVAINKIDKPEANP-D-KVKQEL------------QEYGLV-----  137 (509)
T ss_pred             EEEEEEccCCcchhHHHHHHH----HHH-CCCCEEEEEecccCCCCCH-H-HHHHHH------------HHcCCC-----
Confidence            999999986   666666543    233 2338999999999974332 1 111112            122333     


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                                     .+.|-..  ..++++||++|            +|+++|+..+.-
T Consensus       138 ---------------~E~~gg~--v~~VpvSA~tg------------~Gi~eLL~~ill  167 (509)
T COG0532         138 ---------------PEEWGGD--VIFVPVSAKTG------------EGIDELLELILL  167 (509)
T ss_pred             ---------------HhhcCCc--eEEEEeeccCC------------CCHHHHHHHHHH
Confidence                           3344333  67899999999            999999997754

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=99.24  E-value=1.3e-10  Score=113.27  Aligned_cols=168  Identities=17%  Similarity=0.144  Sum_probs=113.9

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCC-CC--------------CCCCCcceE--EeeEEeecCcceEEEEEEEcCCch
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNF-ED--------------ASDSSSELL--VNGWTINTKYYTADVSLWMAHLHE  109 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~-~~--------------~~~~t~~~~--~~~~~i~~~~~~~~l~I~Dt~G~e  109 (289)
                      +..=.+.|+-.-.-|||||..|++...- .+              +....+.+.  ..+....+ +..+.+++.||||+-
T Consensus        58 ~~iRNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasify~~-~~~ylLNLIDTPGHv  136 (650)
T KOG0462|consen   58 ENIRNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIFYKD-GQSYLLNLIDTPGHV  136 (650)
T ss_pred             hhccceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEEEEc-CCceEEEeecCCCcc
Confidence            3344599999999999999999985321 11              011222222  22222222 556889999999999


Q ss_pred             hhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCc
Q 040295          110 EFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPD  189 (289)
Q Consensus       110 ~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~  189 (289)
                      .|..-....+..++|+++|+|.++.-.-+.+.+++..+...-  -+|.|.||+|+....      -.++           
T Consensus       137 DFs~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe~~L--~iIpVlNKIDlp~ad------pe~V-----------  197 (650)
T KOG0462|consen  137 DFSGEVSRSLAACDGALLVVDASQGVQAQTVANFYLAFEAGL--AIIPVLNKIDLPSAD------PERV-----------  197 (650)
T ss_pred             cccceehehhhhcCceEEEEEcCcCchHHHHHHHHHHHHcCC--eEEEeeeccCCCCCC------HHHH-----------
Confidence            998877788889999999999998766666666555554322  477789999994321      1111           


Q ss_pred             ccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcccc
Q 040295          190 FCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLK  269 (289)
Q Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~  269 (289)
                                              ..+..++.....-+.+.+|||+|            .|++++++++++++-+...-.
T Consensus       198 ------------------------~~q~~~lF~~~~~~~i~vSAK~G------------~~v~~lL~AII~rVPpP~~~~  241 (650)
T KOG0462|consen  198 ------------------------ENQLFELFDIPPAEVIYVSAKTG------------LNVEELLEAIIRRVPPPKGIR  241 (650)
T ss_pred             ------------------------HHHHHHHhcCCccceEEEEeccC------------ccHHHHHHHHHhhCCCCCCCC
Confidence                                    12233333333346899999999            999999999999998775443


Q ss_pred             c
Q 040295          270 S  270 (289)
Q Consensus       270 ~  270 (289)
                      .
T Consensus       242 d  242 (650)
T KOG0462|consen  242 D  242 (650)
T ss_pred             C
Confidence            3

>KOG0077 consensus Vesicle coat complex COPII, GTPase subunit SAR1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.22  E-value=5.1e-11  Score=100.27  Aligned_cols=112  Identities=18%  Similarity=0.140  Sum_probs=87.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      -|++++|-.|+|||||++.+..+.. .++-||.-.......|-    .++++.+|.+|+..-+..+..|+..++++|+.+
T Consensus        21 gKllFlGLDNAGKTTLLHMLKdDrl-~qhvPTlHPTSE~l~Ig----~m~ftt~DLGGH~qArr~wkdyf~~v~~iv~lv   95 (193)
T KOG0077|consen   21 GKLLFLGLDNAGKTTLLHMLKDDRL-GQHVPTLHPTSEELSIG----GMTFTTFDLGGHLQARRVWKDYFPQVDAIVYLV   95 (193)
T ss_pred             ceEEEEeecCCchhhHHHHHccccc-cccCCCcCCChHHheec----CceEEEEccccHHHHHHHHHHHHhhhceeEeee
Confidence            5899999999999999999976653 44445443332222322    356889999999988889999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhh---cCCCeEEEEeeCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDL---QKFEILLCIGNKVDLLP  166 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~---~~~~~iivvgnK~Dl~~  166 (289)
                      |+-+.+.|.+.+.-++.+-.   ...-|+++.|||+|...
T Consensus        96 da~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~  135 (193)
T KOG0077|consen   96 DAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPY  135 (193)
T ss_pred             ehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCC
Confidence            99999999988866665533   34458888999999954

>PLN03127 Elongation factor Tu; Provisional

Probab=99.22  E-value=2.7e-10  Score=111.40  Aligned_cols=116  Identities=14%  Similarity=0.099  Sum_probs=72.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcC------CC----------CCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhh
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSV------NF----------EDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF  111 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~------~~----------~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~  111 (289)
                      +.++|+++|+.++|||||+++|.+.      ..          .++..+....+.....+  .....++.+.||||++.|
T Consensus        60 ~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~--~~~~~~i~~iDtPGh~~f  137 (447)
T PLN03127         60 PHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEY--ETAKRHYAHVDCPGHADY  137 (447)
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEEE--cCCCeEEEEEECCCccch
Confidence            3478999999999999999999721      10          01111222222222222  223456889999999887


Q ss_pred             hccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       112 ~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ......-...+|++++|.|.++...-+ -...+..+...+.+.+|+|.||+|+.+
T Consensus       138 ~~~~~~g~~~aD~allVVda~~g~~~q-t~e~l~~~~~~gip~iIvviNKiDlv~  191 (447)
T PLN03127        138 VKNMITGAAQMDGGILVVSAPDGPMPQ-TKEHILLARQVGVPSLVVFLNKVDVVD  191 (447)
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCCchh-HHHHHHHHHHcCCCeEEEEEEeeccCC
Confidence            554444556799999999997542211 122233344445444678899999964

>TIGR00503 prfC peptide chain release factor 3

Probab=99.22  E-value=4.6e-11  Score=118.95  Aligned_cols=119  Identities=18%  Similarity=0.197  Sum_probs=77.4

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcC-CCCCC-------------------CCCCcceEEeeEEeecCcceEEEEEEEc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSV-NFEDA-------------------SDSSSELLVNGWTINTKYYTADVSLWMA  105 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~-~~~~~-------------------~~~t~~~~~~~~~i~~~~~~~~l~I~Dt  105 (289)
                      .....+|+|+|.+++|||||+++++.. .....                   .....+..+........+..+.+.+|||
T Consensus         8 ~~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~~~inliDT   87 (527)
T TIGR00503         8 VDKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDT   87 (527)
T ss_pred             hccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEEC
Confidence            345678999999999999999998632 11100                   0001122222222233344678999999


Q ss_pred             CCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          106 HLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       106 ~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ||+..|.......++.+|++|+|+|.++.-. .....++...+. ...|+++++||+|+..
T Consensus        88 PG~~df~~~~~~~l~~aD~aIlVvDa~~gv~-~~t~~l~~~~~~-~~~PiivviNKiD~~~  146 (527)
T TIGR00503        88 PGHEDFSEDTYRTLTAVDNCLMVIDAAKGVE-TRTRKLMEVTRL-RDTPIFTFMNKLDRDI  146 (527)
T ss_pred             CChhhHHHHHHHHHHhCCEEEEEEECCCCCC-HHHHHHHHHHHh-cCCCEEEEEECccccC
Confidence            9999887656667889999999999986411 122333333333 4458999999999853

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.

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.21  E-value=1.4e-10  Score=113.58  Aligned_cols=166  Identities=14%  Similarity=0.157  Sum_probs=104.0

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCC---CCCC--CCCcceEEeeE---------------EeecC----------
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNF---EDAS--DSSSELLVNGW---------------TINTK----------   94 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~---~~~~--~~t~~~~~~~~---------------~i~~~----------   94 (289)
                      ...+.+.|.++|.-..|||||+..|.+...   .++.  .-|+..-|...               .....          
T Consensus        30 ~~~~~~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (460)
T PTZ00327         30 SRQATINIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGC  109 (460)
T ss_pred             cCCCcEEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCcccccccccc
Confidence            346678899999999999999999997542   1111  11111111111               00000          


Q ss_pred             ----cceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCH-hhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCC
Q 040295           95 ----YYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDL-STLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHP  169 (289)
Q Consensus        95 ----~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~-~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~  169 (289)
                          .....+.+.|+||++.|-.....-+..+|++++|.|.+++ ..-+.. ..+..+...+.+++|+|.||+|+.+.  
T Consensus       110 ~~~~~~~~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~-ehl~i~~~lgi~~iIVvlNKiDlv~~--  186 (460)
T PTZ00327        110 GHKMTLKRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTS-EHLAAVEIMKLKHIIILQNKIDLVKE--  186 (460)
T ss_pred             cccccccceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhH-HHHHHHHHcCCCcEEEEEecccccCH--
Confidence                0013578999999998865554557789999999999863 111111 22223344455688999999999632  


Q ss_pred             chhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHH---cCCeEEEeecCCCcccccccCCC
Q 040295          170 VHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTE---HRIEYIEACASNVDFDKCLSIDG  246 (289)
Q Consensus       170 ~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~ie~Sa~~~~~~~~~~~~~  246 (289)
                         +...                                   +..+++..+...   ..++++.+||++|          
T Consensus       187 ---~~~~-----------------------------------~~~~ei~~~l~~~~~~~~~iipVSA~~G----------  218 (460)
T PTZ00327        187 ---AQAQ-----------------------------------DQYEEIRNFVKGTIADNAPIIPISAQLK----------  218 (460)
T ss_pred             ---HHHH-----------------------------------HHHHHHHHHHHhhccCCCeEEEeeCCCC----------
Confidence               1111                                   111223344332   3568999999999          


Q ss_pred             CchhHHHHHHHHHHhcc
Q 040295          247 DSQGVERLYGALSAHMW  263 (289)
Q Consensus       247 ~~~~i~~l~~~L~~~~~  263 (289)
                        .|++++++.|...+.
T Consensus       219 --~nI~~Ll~~L~~~lp  233 (460)
T PTZ00327        219 --YNIDVVLEYICTQIP  233 (460)
T ss_pred             --CCHHHHHHHHHhhCC
Confidence              999999999997554

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.21  E-value=1.6e-10  Score=113.00  Aligned_cols=114  Identities=14%  Similarity=0.143  Sum_probs=73.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCC--CC-------------------------C----CCCCCcceEEeeEEeecCcce
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVN--FE-------------------------D----ASDSSSELLVNGWTINTKYYT   97 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~--~~-------------------------~----~~~~t~~~~~~~~~i~~~~~~   97 (289)
                      .++|+++|+.++|||||+.+|+...  ..                         +    +.......+.....  .....
T Consensus         7 ~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~--~~~~~   84 (446)
T PTZ00141          7 HINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWK--FETPK   84 (446)
T ss_pred             eEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEE--EccCC
Confidence            4789999999999999999998621  10                         0    01111111111112  22334


Q ss_pred             EEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHh---hH---HHHHHHHHHhhhcCCCeEEEEeeCCCC
Q 040295           98 ADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLS---TL---DALKHWVPSIDLQKFEILLCIGNKVDL  164 (289)
Q Consensus        98 ~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~---S~---~~l~~~~~~i~~~~~~~iivvgnK~Dl  164 (289)
                      ..+.|.||||++.|.......+..+|++|+|.|.+...   .|   .....-+..+...+.+.+|++.||+|.
T Consensus        85 ~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~gi~~iiv~vNKmD~  157 (446)
T PTZ00141         85 YYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTLGVKQMIVCINKMDD  157 (446)
T ss_pred             eEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHcCCCeEEEEEEcccc
Confidence            67899999999999766666678999999999998642   11   111222223455566678899999995

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=99.20  E-value=2.4e-11  Score=117.33  Aligned_cols=165  Identities=15%  Similarity=0.154  Sum_probs=115.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCcceEEeeEEeecCcceEEEEEEEcCCchh-----hhc-cccccccC
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFED-ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEE-----FSI-RSLPISDQ  121 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~-----~~~-~~~~~~~~  121 (289)
                      .-.++|||-||||||||++.+...+... .|..|....+...   .+++...+++.||||.-.     -+. -......-
T Consensus       168 trTlllcG~PNVGKSSf~~~vtradvevqpYaFTTksL~vGH---~dykYlrwQViDTPGILD~plEdrN~IEmqsITAL  244 (620)
T KOG1490|consen  168 TRTLLVCGYPNVGKSSFNNKVTRADDEVQPYAFTTKLLLVGH---LDYKYLRWQVIDTPGILDRPEEDRNIIEMQIITAL  244 (620)
T ss_pred             cCeEEEecCCCCCcHhhcccccccccccCCcccccchhhhhh---hhhheeeeeecCCccccCcchhhhhHHHHHHHHHH
Confidence            4579999999999999999999887643 3555555444333   355667899999999521     111 11111122


Q ss_pred             c---cEEEEEEeCC--CHhhHHHHHHHHHHhhhc-CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCC
Q 040295          122 L---TALVMVFNLN--DLSTLDALKHWVPSIDLQ-KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGI  195 (289)
Q Consensus       122 a---d~vIlV~Dv~--~~~S~~~l~~~~~~i~~~-~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~  195 (289)
                      |   .+|+++.|++  ..-|.+..-.++..|+.. .++|+|+|.||+|+........+. +++                 
T Consensus       245 AHLraaVLYfmDLSe~CGySva~QvkLfhsIKpLFaNK~~IlvlNK~D~m~~edL~~~~-~~l-----------------  306 (620)
T KOG1490|consen  245 AHLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLFANKVTILVLNKIDAMRPEDLDQKN-QEL-----------------  306 (620)
T ss_pred             HHhhhhheeeeechhhhCCCHHHHHHHHHHhHHHhcCCceEEEeecccccCccccCHHH-HHH-----------------
Confidence            2   4889999998  456667777788888665 556999999999998654333222 222                 


Q ss_pred             CcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcc
Q 040295          196 SETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMV  267 (289)
Q Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~  267 (289)
                                           .+.+...-+++++++|+.+.            +||..|....|.+++.+++
T Consensus       307 ---------------------l~~~~~~~~v~v~~tS~~~e------------egVm~Vrt~ACe~LLa~RV  345 (620)
T KOG1490|consen  307 ---------------------LQTIIDDGNVKVVQTSCVQE------------EGVMDVRTTACEALLAARV  345 (620)
T ss_pred             ---------------------HHHHHhccCceEEEecccch------------hceeeHHHHHHHHHHHHHH
Confidence                                 45555555689999999999            9999999999998887664

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

Probab=99.19  E-value=3e-10  Score=104.62  Aligned_cols=154  Identities=17%  Similarity=0.192  Sum_probs=103.5

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCC-cceEEeeEEeecCcceEEEEEEEcCCchh----hhcccccc--
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFED-ASDSS-SELLVNGWTINTKYYTADVSLWMAHLHEE----FSIRSLPI--  118 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t-~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~----~~~~~~~~--  118 (289)
                      -....|.++|-||+|||||++.+.+.+... .|..| .....-  +++.+.. ..+.+-|.||.=.    -+.+-..+  
T Consensus       194 KsiadvGLVG~PNAGKSTLL~als~AKpkVa~YaFTTL~P~iG--~v~yddf-~q~tVADiPGiI~GAh~nkGlG~~FLr  270 (366)
T KOG1489|consen  194 KSIADVGLVGFPNAGKSTLLNALSRAKPKVAHYAFTTLRPHIG--TVNYDDF-SQITVADIPGIIEGAHMNKGLGYKFLR  270 (366)
T ss_pred             eeecccceecCCCCcHHHHHHHhhccCCcccccceeeeccccc--eeecccc-ceeEeccCccccccccccCcccHHHHH
Confidence            334558999999999999999999877432 23222 221222  2222222 2388899998521    12222223  


Q ss_pred             -ccCccEEEEEEeCCCH---hhHHHHHHHHHHhhhcC----CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcc
Q 040295          119 -SDQLTALVMVFNLNDL---STLDALKHWVPSIDLQK----FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDF  190 (289)
Q Consensus       119 -~~~ad~vIlV~Dv~~~---~S~~~l~~~~~~i~~~~----~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~  190 (289)
                       +..+...+||.|++..   .-++.++.+..++..+.    ..|.+||+||+|+..       .+...            
T Consensus       271 HiER~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~e-------ae~~~------------  331 (366)
T KOG1489|consen  271 HIERCKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPE-------AEKNL------------  331 (366)
T ss_pred             HHHhhceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchh-------HHHHH------------
Confidence             4568999999999987   77787777777765553    348999999999942       12211            


Q ss_pred             cCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCe-EEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          191 CQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIE-YIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       191 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                                                ..++++..+-+ .+++||+++            +++.+++..|-.
T Consensus       332 --------------------------l~~L~~~lq~~~V~pvsA~~~------------egl~~ll~~lr~  364 (366)
T KOG1489|consen  332 --------------------------LSSLAKRLQNPHVVPVSAKSG------------EGLEELLNGLRE  364 (366)
T ss_pred             --------------------------HHHHHHHcCCCcEEEeeeccc------------cchHHHHHHHhh
Confidence                                      45666666544 899999999            999999987754

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.19  E-value=2.2e-10  Score=120.99  Aligned_cols=105  Identities=16%  Similarity=0.168  Sum_probs=72.0

Q ss_pred             CCHHHHHHHHhcCCCCCC----CCCCcceEEeeEEeec------------CcceEEEEEEEcCCchhhhccccccccCcc
Q 040295           60 VGKRTILSRLLSVNFEDA----SDSSSELLVNGWTINT------------KYYTADVSLWMAHLHEEFSIRSLPISDQLT  123 (289)
Q Consensus        60 vGKSSLi~rl~~~~~~~~----~~~t~~~~~~~~~i~~------------~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad  123 (289)
                      ++||||+..+.+.+....    .++.+|..+.+.....            .-....+.+|||||++.|..+....+..+|
T Consensus       472 ~~KTtLLD~iR~t~v~~~EaGGITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~fiDTPGhe~F~~lr~~g~~~aD  551 (1049)
T PRK14845        472 VHNTTLLDKIRKTRVAKKEAGGITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLLFIDTPGHEAFTSLRKRGGSLAD  551 (1049)
T ss_pred             cccccHHHHHhCCCcccccCCCceeccceEEEEecccccccccccccccccCCcCcEEEEECCCcHHHHHHHHhhcccCC
Confidence            359999999998876432    3444444333322100            000113799999999999887777788899


Q ss_pred             EEEEEEeCCC---HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCC
Q 040295          124 ALVMVFNLND---LSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHP  169 (289)
Q Consensus       124 ~vIlV~Dv~~---~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~  169 (289)
                      ++++|+|+++   +++++.+..+    ... ..|+++|+||+|+.+++.
T Consensus       552 ivlLVVDa~~Gi~~qT~e~I~~l----k~~-~iPiIVViNKiDL~~~~~  595 (1049)
T PRK14845        552 LAVLVVDINEGFKPQTIEAINIL----RQY-KTPFVVAANKIDLIPGWN  595 (1049)
T ss_pred             EEEEEEECcccCCHhHHHHHHHH----HHc-CCCEEEEEECCCCccccc
Confidence            9999999986   6777766532    222 348999999999976543

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

Probab=99.17  E-value=1.1e-10  Score=112.76  Aligned_cols=119  Identities=16%  Similarity=0.135  Sum_probs=79.2

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEE--eeEEeecCcceEEEEEEEcCCchh-hhcc--------
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLV--NGWTINTKYYTADVSLWMAHLHEE-FSIR--------  114 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~--~~~~i~~~~~~~~l~I~Dt~G~e~-~~~~--------  114 (289)
                      ...+++|+|+|+||||||||+|.|.+.+.... .+-.|.+.  ....+..+|  +.+.+.||+|.-. -..-        
T Consensus       265 lq~gl~iaIvGrPNvGKSSLlNaL~~~drsIV-Spv~GTTRDaiea~v~~~G--~~v~L~DTAGiRe~~~~~iE~~gI~r  341 (531)
T KOG1191|consen  265 LQSGLQIAIVGRPNVGKSSLLNALSREDRSIV-SPVPGTTRDAIEAQVTVNG--VPVRLSDTAGIREESNDGIEALGIER  341 (531)
T ss_pred             hhcCCeEEEEcCCCCCHHHHHHHHhcCCceEe-CCCCCcchhhheeEeecCC--eEEEEEeccccccccCChhHHHhHHH
Confidence            55669999999999999999999999886432 22223222  233344454  5689999999643 1110        


Q ss_pred             ccccccCccEEEEEEeC--CCHhhHHHHHHHHHHhhhc--------CCCeEEEEeeCCCCCCC
Q 040295          115 SLPISDQLTALVMVFNL--NDLSTLDALKHWVPSIDLQ--------KFEILLCIGNKVDLLPG  167 (289)
Q Consensus       115 ~~~~~~~ad~vIlV~Dv--~~~~S~~~l~~~~~~i~~~--------~~~~iivvgnK~Dl~~~  167 (289)
                      ...-++.+|.+++|+|.  ++.++-..+.+.+......        ...++|++.||+|+...
T Consensus       342 A~k~~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~  404 (531)
T KOG1191|consen  342 ARKRIERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSK  404 (531)
T ss_pred             HHHHHhhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCc
Confidence            12336679999999999  5555555555555544221        22489999999999754

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.17  E-value=4.6e-10  Score=97.58  Aligned_cols=114  Identities=11%  Similarity=0.083  Sum_probs=68.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCC----CCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc--------cc--
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDAS----DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI--------RS--  115 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~----~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~--------~~--  115 (289)
                      ++|+++|.+|||||||+|.+++.......    ..|.........+  .  ...+.++||||......        +.  
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~--~--~~~i~viDTPG~~d~~~~~~~~~~~i~~~   76 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVW--D--GRRVNVIDTPGLFDTSVSPEQLSKEIVRC   76 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEE--C--CeEEEEEECcCCCCccCChHHHHHHHHHH
Confidence            47999999999999999999988643221    2233322332222  2  24689999999643321        11  


Q ss_pred             -cccccCccEEEEEEeCCCH-hhHHHHHHHHHHh-hhcCCCeEEEEeeCCCCCCC
Q 040295          116 -LPISDQLTALVMVFNLNDL-STLDALKHWVPSI-DLQKFEILLCIGNKVDLLPG  167 (289)
Q Consensus       116 -~~~~~~ad~vIlV~Dv~~~-~S~~~l~~~~~~i-~~~~~~~iivvgnK~Dl~~~  167 (289)
                       .....++|++++|.++.+. .....+-.++..+ ......++++|.|+.|.+..
T Consensus        77 ~~~~~~g~~~illVi~~~~~t~~d~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~  131 (196)
T cd01852          77 LSLSAPGPHAFLLVVPLGRFTEEEEQAVETLQELFGEKVLDHTIVLFTRGDDLEG  131 (196)
T ss_pred             HHhcCCCCEEEEEEEECCCcCHHHHHHHHHHHHHhChHhHhcEEEEEECccccCC
Confidence             1224578999999998862 1112222233222 21112367888999998754

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).

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.15  E-value=2e-10  Score=103.88  Aligned_cols=98  Identities=18%  Similarity=0.206  Sum_probs=77.1

Q ss_pred             chhhhccccccccCccEEEEEEeCCCHh-hHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCC
Q 040295          108 HEEFSIRSLPISDQLTALVMVFNLNDLS-TLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSA  186 (289)
Q Consensus       108 ~e~~~~~~~~~~~~ad~vIlV~Dv~~~~-S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~  186 (289)
                      .++|+.+.+.+++++|++++|||++++. +|+.+..|+..+... ..|+++|+||+||.+..        .+        
T Consensus        23 ~eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~~-~i~~vIV~NK~DL~~~~--------~~--------   85 (245)
T TIGR00157        23 AERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEAQ-NIEPIIVLNKIDLLDDE--------DM--------   85 (245)
T ss_pred             ecccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHHC-CCCEEEEEECcccCCCH--------HH--------
Confidence            4788999999999999999999999887 999999999877653 34777899999996421        11        


Q ss_pred             CCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          187 DPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       187 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                                ..+.+..+. ..+++++++||+++            .|++++|+.|...
T Consensus        86 --------------------------~~~~~~~~~-~~g~~v~~~SAktg------------~gi~eLf~~l~~~  121 (245)
T TIGR00157        86 --------------------------EKEQLDIYR-NIGYQVLMTSSKNQ------------DGLKELIEALQNR  121 (245)
T ss_pred             --------------------------HHHHHHHHH-HCCCeEEEEecCCc------------hhHHHHHhhhcCC
Confidence                                      001134443 47889999999999            9999999988754

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.14  E-value=1.5e-09  Score=100.41  Aligned_cols=97  Identities=15%  Similarity=0.159  Sum_probs=63.8

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCcceEEeeEEeecCcceEEEEEEEcCCchh-h---h---cccc
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFED-ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEE-F---S---IRSL  116 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~-~---~---~~~~  116 (289)
                      ...--..|+++|.|+||||||++.+.+.+... .|..|+- ...+-.+  .+...++++.|+||.=. .   +   ...-
T Consensus        59 ~KsGda~v~lVGfPsvGKStLL~~LTnt~seva~y~FTTl-~~VPG~l--~Y~ga~IQild~Pgii~gas~g~grG~~vl  135 (365)
T COG1163          59 KKSGDATVALVGFPSVGKSTLLNKLTNTKSEVADYPFTTL-EPVPGML--EYKGAQIQLLDLPGIIEGASSGRGRGRQVL  135 (365)
T ss_pred             eccCCeEEEEEcCCCccHHHHHHHHhCCCccccccCceec-ccccceE--eecCceEEEEcCcccccCcccCCCCcceee
Confidence            34445789999999999999999999887543 2433332 2223333  34467899999997421 1   1   1122


Q ss_pred             ccccCccEEEEEEeCCCHhh-HHHHHHHH
Q 040295          117 PISDQLTALVMVFNLNDLST-LDALKHWV  144 (289)
Q Consensus       117 ~~~~~ad~vIlV~Dv~~~~S-~~~l~~~~  144 (289)
                      ...+.||++|+|.|+..... .+.+...+
T Consensus       136 sv~R~ADlIiiVld~~~~~~~~~~i~~EL  164 (365)
T COG1163         136 SVARNADLIIIVLDVFEDPHHRDIIEREL  164 (365)
T ss_pred             eeeccCCEEEEEEecCCChhHHHHHHHHH
Confidence            55789999999999985544 54444433

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.14  E-value=1.5e-09  Score=104.70  Aligned_cols=83  Identities=18%  Similarity=0.025  Sum_probs=56.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCC-CCC-----CCcceEEeeEEe----------------ecCcceEEEEEEEcCC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFED-ASD-----SSSELLVNGWTI----------------NTKYYTADVSLWMAHL  107 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~-----~t~~~~~~~~~i----------------~~~~~~~~l~I~Dt~G  107 (289)
                      +||+|+|.+|||||||+++|++..+.. .+.     ++.+..+....+                ........+++|||||
T Consensus         2 ~kigivG~pnvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~aG   81 (396)
T PRK09602          2 ITIGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVAG   81 (396)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCcccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcCC
Confidence            689999999999999999999887643 232     222322211000                1112346789999999


Q ss_pred             c----hhhhcccccc---ccCccEEEEEEeCC
Q 040295          108 H----EEFSIRSLPI---SDQLTALVMVFNLN  132 (289)
Q Consensus       108 ~----e~~~~~~~~~---~~~ad~vIlV~Dv~  132 (289)
                      .    +....+...+   ++.+|++++|+|+.
T Consensus        82 l~~ga~~g~glg~~fL~~ir~ad~ll~Vvd~~  113 (396)
T PRK09602         82 LVPGAHEGRGLGNQFLDDLRQADALIHVVDAS  113 (396)
T ss_pred             cCCCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence            4    3344444455   78999999999996

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.13  E-value=2.3e-10  Score=103.71  Aligned_cols=179  Identities=11%  Similarity=0.082  Sum_probs=105.9

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCC--CCCcceEEeeEEeecCcceEEEEEEEcCCchh-------hhc
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDAS--DSSSELLVNGWTINTKYYTADVSLWMAHLHEE-------FSI  113 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~--~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~-------~~~  113 (289)
                      ...-.+.++|+++|..|||||||||.++.++..+..  ..+.....+.+ ...++  -.+.+||+||.+.       ++.
T Consensus        33 ~l~~~~pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~-~~~~~--~~l~lwDtPG~gdg~~~D~~~r~  109 (296)
T COG3596          33 QLTEKEPVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLR-LSYDG--ENLVLWDTPGLGDGKDKDAEHRQ  109 (296)
T ss_pred             hhcccCceeEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhHH-hhccc--cceEEecCCCcccchhhhHHHHH
Confidence            333445578999999999999999999976654322  11222111111 11122  2489999998654       566


Q ss_pred             cccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCC
Q 040295          114 RSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQS  193 (289)
Q Consensus       114 ~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~  193 (289)
                      +...++...|.++.+.+..++.---...-|.+=+......++|++.|.+|......    +-.                +
T Consensus       110 ~~~d~l~~~DLvL~l~~~~draL~~d~~f~~dVi~~~~~~~~i~~VtQ~D~a~p~~----~W~----------------~  169 (296)
T COG3596         110 LYRDYLPKLDLVLWLIKADDRALGTDEDFLRDVIILGLDKRVLFVVTQADRAEPGR----EWD----------------S  169 (296)
T ss_pred             HHHHHhhhccEEEEeccCCCccccCCHHHHHHHHHhccCceeEEEEehhhhhcccc----ccc----------------c
Confidence            66678889999999999887643333333333333333368999999999864310    000                0


Q ss_pred             CCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC-C-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          194 GISETEGSSLLGDEEPSWEIRRSCLEWCTEHR-I-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                      |=.+       +.+....-+.+++....+..+ + +++..+...+            +|++++..++++.+-
T Consensus       170 ~~~~-------p~~a~~qfi~~k~~~~~~~~q~V~pV~~~~~r~~------------wgl~~l~~ali~~lp  222 (296)
T COG3596         170 AGHQ-------PSPAIKQFIEEKAEALGRLFQEVKPVVAVSGRLP------------WGLKELVRALITALP  222 (296)
T ss_pred             ccCC-------CCHHHHHHHHHHHHHHHHHHhhcCCeEEeccccC------------ccHHHHHHHHHHhCc
Confidence            0000       111112222233333322222 3 5777788888            999999999999764

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=99.12  E-value=8.6e-10  Score=106.16  Aligned_cols=158  Identities=18%  Similarity=0.152  Sum_probs=111.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCC--C-------------CCCCCcceEEeeEEeec---CcceEEEEEEEcCCchhhh
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFE--D-------------ASDSSSELLVNGWTINT---KYYTADVSLWMAHLHEEFS  112 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~--~-------------~~~~t~~~~~~~~~i~~---~~~~~~l~I~Dt~G~e~~~  112 (289)
                      .+.|+-+-.-|||||..|++...-.  .             +....+.....+..+..   ++..+.+++.||||+-.|.
T Consensus        11 NFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~~g~~Y~lnlIDTPGHVDFs   90 (603)
T COG0481          11 NFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFS   90 (603)
T ss_pred             ceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeCCCCEEEEEEcCCCCccceE
Confidence            4788889999999999999853210  0             11222222223333322   4477999999999999886


Q ss_pred             ccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccC
Q 040295          113 IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQ  192 (289)
Q Consensus       113 ~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~  192 (289)
                      --...-+..+.|+++|+|.++.-.-+.+.+.+..+...-  -+|-|.||+||....      -.++              
T Consensus        91 YEVSRSLAACEGalLvVDAsQGveAQTlAN~YlAle~~L--eIiPViNKIDLP~Ad------perv--------------  148 (603)
T COG0481          91 YEVSRSLAACEGALLVVDASQGVEAQTLANVYLALENNL--EIIPVLNKIDLPAAD------PERV--------------  148 (603)
T ss_pred             EEehhhHhhCCCcEEEEECccchHHHHHHHHHHHHHcCc--EEEEeeecccCCCCC------HHHH--------------
Confidence            655566778999999999998877777777666665422  477789999995321      1111              


Q ss_pred             CCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCe---EEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          193 SGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIE---YIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                                              .+++-.-.|++   .+.||||+|            .||+++++++++.+-+..
T Consensus       149 ------------------------k~eIe~~iGid~~dav~~SAKtG------------~gI~~iLe~Iv~~iP~P~  189 (603)
T COG0481         149 ------------------------KQEIEDIIGIDASDAVLVSAKTG------------IGIEDVLEAIVEKIPPPK  189 (603)
T ss_pred             ------------------------HHHHHHHhCCCcchheeEecccC------------CCHHHHHHHHHhhCCCCC
Confidence                                    45555556763   788999999            999999999999887764

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=99.11  E-value=2.3e-10  Score=92.24  Aligned_cols=136  Identities=18%  Similarity=0.196  Sum_probs=96.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCc----hhhhccccccccCccEEE
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLH----EEFSIRSLPISDQLTALV  126 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~----e~~~~~~~~~~~~ad~vI  126 (289)
                      |++++|..|||||||.+.+.+....  +..|..++|...           ...||||.    ..+++........++.++
T Consensus         3 ri~~vG~~gcGKTtL~q~L~G~~~l--ykKTQAve~~d~-----------~~IDTPGEy~~~~~~Y~aL~tt~~dadvi~   69 (148)
T COG4917           3 RIAFVGQVGCGKTTLFQSLYGNDTL--YKKTQAVEFNDK-----------GDIDTPGEYFEHPRWYHALITTLQDADVII   69 (148)
T ss_pred             eeEEecccccCchhHHHHhhcchhh--hcccceeeccCc-----------cccCCchhhhhhhHHHHHHHHHhhccceee
Confidence            7999999999999999999877643  334444433211           23488873    333333335567899999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      +|-.++++.|.     +-+.+......|+|-|.+|.||...        ..+                            
T Consensus        70 ~v~~and~~s~-----f~p~f~~~~~k~vIgvVTK~DLaed--------~dI----------------------------  108 (148)
T COG4917          70 YVHAANDPESR-----FPPGFLDIGVKKVIGVVTKADLAED--------ADI----------------------------  108 (148)
T ss_pred             eeecccCcccc-----CCcccccccccceEEEEecccccch--------HhH----------------------------
Confidence            99999988543     1222333344478999999999631        111                            


Q ss_pred             CCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          207 EEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                              ....+|..+-|. ++|++|+.++            .||+++++.|..
T Consensus       109 --------~~~~~~L~eaGa~~IF~~s~~d~------------~gv~~l~~~L~~  143 (148)
T COG4917         109 --------SLVKRWLREAGAEPIFETSAVDN------------QGVEELVDYLAS  143 (148)
T ss_pred             --------HHHHHHHHHcCCcceEEEeccCc------------ccHHHHHHHHHh
Confidence                    116789999997 5999999999            999999999865

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=99.11  E-value=2.3e-09  Score=99.12  Aligned_cols=176  Identities=14%  Similarity=0.179  Sum_probs=119.2

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcc--eEEEEEEEcCCchhhhcccccccc
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYY--TADVSLWMAHLHEEFSIRSLPISD  120 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~--~~~l~I~Dt~G~e~~~~~~~~~~~  120 (289)
                      +.....+-.|+++|+.++||||||.++.+.+   .+...-+..|....+.+.+.  -.++.+|-..|.-....+....+.
T Consensus        46 ~sklpsgk~VlvlGdn~sGKtsLi~klqg~e---~~KkgsgLeY~yl~V~de~RDd~tr~~VWiLDGd~~h~~LLk~al~  122 (473)
T KOG3905|consen   46 RSKLPSGKNVLVLGDNGSGKTSLISKLQGSE---TVKKGSGLEYLYLHVHDEDRDDLTRCNVWILDGDLYHKGLLKFALP  122 (473)
T ss_pred             cccCCCCCeEEEEccCCCchhHHHHHhhccc---ccCCCCCcceEEEecccccchhhhhcceEEecCchhhhhHHhhccc
Confidence            3445566789999999999999999998876   23344455555555544332  345778877776544444432222


Q ss_pred             C----ccEEEEEEeCCCH-hhHHHHHHHHHHhhh----------------------------------------------
Q 040295          121 Q----LTALVMVFNLNDL-STLDALKHWVPSIDL----------------------------------------------  149 (289)
Q Consensus       121 ~----ad~vIlV~Dv~~~-~S~~~l~~~~~~i~~----------------------------------------------  149 (289)
                      .    -..+||+.|+++| .-++.+..|..-++.                                              
T Consensus       123 ats~aetlviltasms~Pw~~lesLqkWa~Vl~ehidkl~i~~ee~ka~rqk~~k~wQeYvep~e~~pgsp~~r~t~~~~  202 (473)
T KOG3905|consen  123 ATSLAETLVILTASMSNPWTLLESLQKWASVLREHIDKLKIPPEEMKAGRQKLEKDWQEYVEPGEDQPGSPQRRTTVVGS  202 (473)
T ss_pred             ccCccceEEEEEEecCCcHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhcCccccCCCCcccccccccC
Confidence            1    2488999999988 555666666543311                                              


Q ss_pred             ----------------c-CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHH
Q 040295          150 ----------------Q-KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWE  212 (289)
Q Consensus       150 ----------------~-~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  212 (289)
                                      + -.-|++||++|+|...--      +..-                         .-.+++.+-
T Consensus       203 ~~de~~llPL~~dtLt~NlGi~vlVV~TK~D~~s~l------eke~-------------------------eyrDehfdf  251 (473)
T KOG3905|consen  203 SADEHVLLPLGQDTLTHNLGIPVLVVCTKCDAVSVL------EKEH-------------------------EYRDEHFDF  251 (473)
T ss_pred             ccccccccccCCcchhhcCCCcEEEEEeccchhhHh------hhcc-------------------------hhhHHHHHH
Confidence                            0 011899999999994310      0000                         013345556


Q ss_pred             HHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          213 IRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       213 ~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                      +...++.||..+|..+|.+|+|..            .|++-++++|..+++.
T Consensus       252 iq~~lRkFCLr~GaaLiyTSvKE~------------KNidllyKYivhr~yG  291 (473)
T KOG3905|consen  252 IQSHLRKFCLRYGAALIYTSVKET------------KNIDLLYKYIVHRSYG  291 (473)
T ss_pred             HHHHHHHHHHHcCceeEEeecccc------------cchHHHHHHHHHHhcC
Confidence            666789999999999999999999            9999999999998863

>PRK12739 elongation factor G; Reviewed

Probab=99.11  E-value=9.6e-10  Score=112.99  Aligned_cols=117  Identities=21%  Similarity=0.127  Sum_probs=76.6

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCC--------CC----------CCCCCcceEEeeEEeecCcceEEEEEEEcCC
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNF--------ED----------ASDSSSELLVNGWTINTKYYTADVSLWMAHL  107 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~--------~~----------~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G  107 (289)
                      .+...+|+|+|+.++|||||+++|+...-        ..          +....+........+..+  ..++.++||||
T Consensus         5 ~~~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~--~~~i~liDTPG   82 (691)
T PRK12739          5 LEKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWK--GHRINIIDTPG   82 (691)
T ss_pred             ccCeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEEC--CEEEEEEcCCC
Confidence            34556899999999999999999975211        00          011112222222222222  45789999999


Q ss_pred             chhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          108 HEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       108 ~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      +..|.......++.+|++|+|+|..+...-+.... +..+...+ .|+|++.||+|+..
T Consensus        83 ~~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~~i-~~~~~~~~-~p~iv~iNK~D~~~  139 (691)
T PRK12739         83 HVDFTIEVERSLRVLDGAVAVFDAVSGVEPQSETV-WRQADKYG-VPRIVFVNKMDRIG  139 (691)
T ss_pred             HHHHHHHHHHHHHHhCeEEEEEeCCCCCCHHHHHH-HHHHHHcC-CCEEEEEECCCCCC
Confidence            98887766677889999999999987643333222 22333333 46788999999975

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.11  E-value=3.5e-10  Score=98.91  Aligned_cols=115  Identities=18%  Similarity=0.254  Sum_probs=78.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcccccccc---CccEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISD---QLTALV  126 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~---~ad~vI  126 (289)
                      -.|+++|++++|||+|+.+|..+.+...+.+-.+ .-..+.+...    .+.+.|.||+.+.+.-...+++   .+-++|
T Consensus        39 ~~Vll~Gl~dSGKT~LF~qL~~gs~~~TvtSiep-n~a~~r~gs~----~~~LVD~PGH~rlR~kl~e~~~~~~~akaiV  113 (238)
T KOG0090|consen   39 NAVLLVGLSDSGKTSLFTQLITGSHRGTVTSIEP-NEATYRLGSE----NVTLVDLPGHSRLRRKLLEYLKHNYSAKAIV  113 (238)
T ss_pred             CcEEEEecCCCCceeeeeehhcCCccCeeeeecc-ceeeEeecCc----ceEEEeCCCcHHHHHHHHHHccccccceeEE
Confidence            3699999999999999999999876543322221 1112222222    3799999999988765556655   789999


Q ss_pred             EEEeCC-CHhhHHHHHHHHHHhh-----hcCCCeEEEEeeCCCCCCCCC
Q 040295          127 MVFNLN-DLSTLDALKHWVPSID-----LQKFEILLCIGNKVDLLPGHP  169 (289)
Q Consensus       127 lV~Dv~-~~~S~~~l~~~~~~i~-----~~~~~~iivvgnK~Dl~~~~~  169 (289)
                      ||+|.. .+.-...+..++-.+-     ..+.+|+++++||.|+...++
T Consensus       114 FVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAkt  162 (238)
T KOG0090|consen  114 FVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAKT  162 (238)
T ss_pred             EEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcCc
Confidence            999974 3444445554444431     234559999999999986554

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=99.09  E-value=3.9e-09  Score=103.55  Aligned_cols=172  Identities=15%  Similarity=0.202  Sum_probs=116.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecC--cceEEEEEEEcCCchhhhccccccccC----
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTK--YYTADVSLWMAHLHEEFSIRSLPISDQ----  121 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~--~~~~~l~I~Dt~G~e~~~~~~~~~~~~----  121 (289)
                      ..-.|+|+|+.++|||||+.+|.+.+   ....+.+..|....+...  ....++.+|-..|...+..+.+-.+..    
T Consensus        24 ~~k~vlvlG~~~~GKttli~~L~~~e---~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~l~  100 (472)
T PF05783_consen   24 SEKSVLVLGDKGSGKTTLIARLQGIE---DPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPENLP  100 (472)
T ss_pred             CCceEEEEeCCCCchHHHHHHhhccC---CCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCccccc
Confidence            34579999999999999999997644   344566777655555443  224568999888876776666443332    


Q ss_pred             ccEEEEEEeCCCHhhH-HHHHHHHHHhhhc-------------------------------------------------C
Q 040295          122 LTALVMVFNLNDLSTL-DALKHWVPSIDLQ-------------------------------------------------K  151 (289)
Q Consensus       122 ad~vIlV~Dv~~~~S~-~~l~~~~~~i~~~-------------------------------------------------~  151 (289)
                      -..+|+|.|.+.|-.+ +.+..|+.-++.+                                                 .
T Consensus       101 ~t~vvIvlDlS~PW~~~esL~~W~~vl~~~i~~L~~~~e~~~e~~~kl~~~~q~Y~ep~~~~~~~s~~~~~~~~~~~~~~  180 (472)
T PF05783_consen  101 NTLVVIVLDLSKPWNIMESLEKWLSVLREHIEKLKSDPEEREELRQKLERQWQEYVEPGDSSDSGSPNRRSPSSSSSDDE  180 (472)
T ss_pred             ceEEEEEecCCChHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhhccccccccCcccccccccccccc
Confidence            2489999999987333 3444444333210                                                 0


Q ss_pred             ------C---------CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHH
Q 040295          152 ------F---------EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRS  216 (289)
Q Consensus       152 ------~---------~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  216 (289)
                            .         -|++||++|+|....      -++..                         ...++..+-+.+-
T Consensus       181 ~~~lpl~~g~l~~nlGipi~VV~tksD~~~~------Lek~~-------------------------~~~~e~~DfIqq~  229 (472)
T PF05783_consen  181 SVLLPLGEGVLTENLGIPIVVVCTKSDKIET------LEKET-------------------------DWKEEHFDFIQQY  229 (472)
T ss_pred             cccCCCCCcccccccCcceEEEEecccHHHH------Hhhhc-------------------------ccchhhHHHHHHH
Confidence                  0         177778888887421      01111                         0234456677777


Q ss_pred             HHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          217 CLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       217 ~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                      .+.+|..||+.+|.||++..            .+++.++++|..+++..
T Consensus       230 LR~~cL~yGAsL~yts~~~~------------~n~~~L~~yi~h~l~~~  266 (472)
T PF05783_consen  230 LRTFCLKYGASLIYTSVKEE------------KNLDLLYKYILHRLYGF  266 (472)
T ss_pred             HHHHHHhcCCeEEEeecccc------------ccHHHHHHHHHHHhccC
Confidence            99999999999999999998            99999999988887643

The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin [, ]. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo [].

>PRK12740 elongation factor G; Reviewed

Probab=99.09  E-value=1.3e-09  Score=111.60  Aligned_cols=109  Identities=17%  Similarity=0.068  Sum_probs=72.8

Q ss_pred             EcCCCCCHHHHHHHHhcCCCCC------------------CCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcccc
Q 040295           55 IGSSNVGKRTILSRLLSVNFED------------------ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSL  116 (289)
Q Consensus        55 lG~~gvGKSSLi~rl~~~~~~~------------------~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~  116 (289)
                      +|+.++|||||+++|+...-..                  +....+........+...  .+.+.+|||||+..|.....
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~--~~~i~liDtPG~~~~~~~~~   78 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWK--GHKINLIDTPGHVDFTGEVE   78 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEEC--CEEEEEEECCCcHHHHHHHH
Confidence            5999999999999996432110                  001111112212222222  46799999999988876666


Q ss_pred             ccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCC
Q 040295          117 PISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPG  167 (289)
Q Consensus       117 ~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~  167 (289)
                      ..++.+|++|+|+|.+..........|. .+... ..|+++|+||+|+...
T Consensus        79 ~~l~~aD~vllvvd~~~~~~~~~~~~~~-~~~~~-~~p~iiv~NK~D~~~~  127 (668)
T PRK12740         79 RALRVLDGAVVVVCAVGGVEPQTETVWR-QAEKY-GVPRIIFVNKMDRAGA  127 (668)
T ss_pred             HHHHHhCeEEEEEeCCCCcCHHHHHHHH-HHHHc-CCCEEEEEECCCCCCC
Confidence            7788999999999999876666554443 23332 3478889999999753

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.09  E-value=3e-10  Score=117.17  Aligned_cols=118  Identities=14%  Similarity=0.026  Sum_probs=78.5

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcC---------------CCCCC---CCCCcceEEeeEEeecCcceEEEEEEEcCCc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSV---------------NFEDA---SDSSSELLVNGWTINTKYYTADVSLWMAHLH  108 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~---------------~~~~~---~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~  108 (289)
                      ....+|+|+|+.++|||||+++|+..               ++...   ...|+........+...+..+.+.+|||||+
T Consensus        17 ~~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~   96 (720)
T TIGR00490        17 KFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPGH   96 (720)
T ss_pred             ccccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCCCc
Confidence            34568999999999999999999852               22211   1223333332322223445678999999999


Q ss_pred             hhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          109 EEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       109 e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ..|.......++.+|++|+|+|+...-..+....|.. ....+. |+++++||+|...
T Consensus        97 ~~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~~~-~~~~~~-p~ivviNKiD~~~  152 (720)
T TIGR00490        97 VDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVLRQ-ALKENV-KPVLFINKVDRLI  152 (720)
T ss_pred             cccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHHHH-HHHcCC-CEEEEEEChhccc
Confidence            9987766778899999999999986432222222322 222233 5678999999863

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.

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.06  E-value=3.1e-09  Score=103.83  Aligned_cols=152  Identities=21%  Similarity=0.225  Sum_probs=105.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCC----CCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDA----SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~----~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      .+-|.|+|.-.-|||||+..|-+......    .++.+|.  ....+. .+  -.+.+.||||+..|..++..-..-+|+
T Consensus       153 pPVVTiMGHVDHGKTTLLD~lRks~VAA~E~GGITQhIGA--F~V~~p-~G--~~iTFLDTPGHaAF~aMRaRGA~vtDI  227 (683)
T KOG1145|consen  153 PPVVTIMGHVDHGKTTLLDALRKSSVAAGEAGGITQHIGA--FTVTLP-SG--KSITFLDTPGHAAFSAMRARGANVTDI  227 (683)
T ss_pred             CCeEEEeecccCChhhHHHHHhhCceehhhcCCccceece--EEEecC-CC--CEEEEecCCcHHHHHHHHhccCccccE
Confidence            35699999999999999999987765432    2233332  222333 33  468999999999999998888888999


Q ss_pred             EEEEEeCCC---HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          125 LVMVFNLND---LSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       125 vIlV~Dv~~---~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      +|+|+...|   +++.+.++.    . +....|+++..||+|.. +..++ ...+++            +++|+-     
T Consensus       228 vVLVVAadDGVmpQT~EaIkh----A-k~A~VpiVvAinKiDkp-~a~pe-kv~~eL------------~~~gi~-----  283 (683)
T KOG1145|consen  228 VVLVVAADDGVMPQTLEAIKH----A-KSANVPIVVAINKIDKP-GANPE-KVKREL------------LSQGIV-----  283 (683)
T ss_pred             EEEEEEccCCccHhHHHHHHH----H-HhcCCCEEEEEeccCCC-CCCHH-HHHHHH------------HHcCcc-----
Confidence            999999886   566666653    1 22334899999999974 33322 222222            111211     


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcC--CeEEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHR--IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                                         +..+|  ++.+++||++|            .|++.+-+++..
T Consensus       284 -------------------~E~~GGdVQvipiSAl~g------------~nl~~L~eaill  313 (683)
T KOG1145|consen  284 -------------------VEDLGGDVQVIPISALTG------------ENLDLLEEAILL  313 (683)
T ss_pred             -------------------HHHcCCceeEEEeecccC------------CChHHHHHHHHH
Confidence                               23344  57899999999            999999988765

>PRK09866 hypothetical protein; Provisional

Probab=99.04  E-value=9.3e-09  Score=103.07  Aligned_cols=112  Identities=12%  Similarity=-0.032  Sum_probs=69.8

Q ss_pred             EEEEEcCCchhh-----hccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhH
Q 040295          100 VSLWMAHLHEEF-----SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAE  173 (289)
Q Consensus       100 l~I~Dt~G~e~~-----~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~  173 (289)
                      +.+.||||...-     .......+..+|+++||+|.++..+.... .....++..+. .|+++|.||+|+.....   .
T Consensus       232 IIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~De-eIlk~Lkk~~K~~PVILVVNKIDl~dree---d  307 (741)
T PRK09866        232 LTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISDE-EVREAILAVGQSVPLYVLVNKFDQQDRNS---D  307 (741)
T ss_pred             EEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhHH-HHHHHHHhcCCCCCEEEEEEcccCCCccc---c
Confidence            556799997532     22234568899999999999875443332 23334444332 48999999999853211   0


Q ss_pred             HHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC--C-eEEEeecCCCcccccccCCCCchh
Q 040295          174 YRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR--I-EYIEACASNVDFDKCLSIDGDSQG  250 (289)
Q Consensus       174 ~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~-~~ie~Sa~~~~~~~~~~~~~~~~~  250 (289)
                                                         ..+.+......+....+  + .+|.+||++|            .|
T Consensus       308 -----------------------------------dkE~Lle~V~~~L~q~~i~f~eIfPVSAlkG------------~n  340 (741)
T PRK09866        308 -----------------------------------DADQVRALISGTLMKGCITPQQIFPVSSMWG------------YL  340 (741)
T ss_pred             -----------------------------------hHHHHHHHHHHHHHhcCCCCceEEEEeCCCC------------CC
Confidence                                               01111122333322222  3 5899999999            99


Q ss_pred             HHHHHHHHHHhc
Q 040295          251 VERLYGALSAHM  262 (289)
Q Consensus       251 i~~l~~~L~~~~  262 (289)
                      ++++++.|.++-
T Consensus       341 id~LLdeI~~~~  352 (741)
T PRK09866        341 ANRARHELANNG  352 (741)
T ss_pred             HHHHHHHHHhCC
Confidence            999999998743

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.02  E-value=4e-09  Score=98.17  Aligned_cols=159  Identities=16%  Similarity=0.119  Sum_probs=100.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCC-CCCCCCcceEE-eeEEeecCcceEEEEEEEcCCc-h---hhhccccc---ccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFE-DASDSSSELLV-NGWTINTKYYTADVSLWMAHLH-E---EFSIRSLP---ISD  120 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~-~~~~~t~~~~~-~~~~i~~~~~~~~l~I~Dt~G~-e---~~~~~~~~---~~~  120 (289)
                      .-|.++|-||+|||||++.+...+.- ..|..|+-... --+.+ ..  .-.+.+-|.||. |   .-.-+-..   .+.
T Consensus       160 ADVGLVG~PNaGKSTlls~vS~AkPKIadYpFTTL~PnLGvV~~-~~--~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIE  236 (369)
T COG0536         160 ADVGLVGLPNAGKSTLLSAVSAAKPKIADYPFTTLVPNLGVVRV-DG--GESFVVADIPGLIEGASEGVGLGLRFLRHIE  236 (369)
T ss_pred             cccccccCCCCcHHHHHHHHhhcCCcccCCccccccCcccEEEe-cC--CCcEEEecCcccccccccCCCccHHHHHHHH
Confidence            34889999999999999999987642 33544433222 22222 22  224788999974 1   11112222   245


Q ss_pred             CccEEEEEEeCCCHhh---HHHHHHHHHHhhhc----CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCC
Q 040295          121 QLTALVMVFNLNDLST---LDALKHWVPSIDLQ----KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQS  193 (289)
Q Consensus       121 ~ad~vIlV~Dv~~~~S---~~~l~~~~~~i~~~----~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~  193 (289)
                      .+...+.|.|++..+-   .+.......++..+    ..+|.+||+||+|+....    +..+.+               
T Consensus       237 Rt~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~----e~~~~~---------------  297 (369)
T COG0536         237 RTRVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDE----EELEEL---------------  297 (369)
T ss_pred             hhheeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcCH----HHHHHH---------------
Confidence            6889999999985432   45555555555554    345899999999964320    222222               


Q ss_pred             CCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCe--EEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          194 GISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIE--YIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                                             +..+....+..  ++ +||.++            +|++++...+.+.+....
T Consensus       298 -----------------------~~~l~~~~~~~~~~~-ISa~t~------------~g~~~L~~~~~~~l~~~~  336 (369)
T COG0536         298 -----------------------KKALAEALGWEVFYL-ISALTR------------EGLDELLRALAELLEETK  336 (369)
T ss_pred             -----------------------HHHHHHhcCCCccee-eehhcc------------cCHHHHHHHHHHHHHHhh
Confidence                                   55666555543  33 999999            999999999988776554

>PRK00007 elongation factor G; Reviewed

Probab=99.02  E-value=5.9e-09  Score=107.22  Aligned_cols=117  Identities=21%  Similarity=0.154  Sum_probs=75.1

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcC--CCCC----------------CCCCCcceEEeeEEeecCcceEEEEEEEcCC
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSV--NFED----------------ASDSSSELLVNGWTINTKYYTADVSLWMAHL  107 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~--~~~~----------------~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G  107 (289)
                      .+...+|+|+|..++|||||+++|+..  ....                +....+..+.....+...  ...+.+.||||
T Consensus         7 ~~~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~--~~~~~liDTPG   84 (693)
T PRK00007          7 LERYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWK--DHRINIIDTPG   84 (693)
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEEC--CeEEEEEeCCC
Confidence            445568999999999999999999741  1100                011112222222222222  45789999999


Q ss_pred             chhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          108 HEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       108 ~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      +..|..-....++.+|++|+|+|....-.-+....|. .+...+ .|+|++.||+|+..
T Consensus        85 ~~~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~~~~-~~~~~~-~p~iv~vNK~D~~~  141 (693)
T PRK00007         85 HVDFTIEVERSLRVLDGAVAVFDAVGGVEPQSETVWR-QADKYK-VPRIAFVNKMDRTG  141 (693)
T ss_pred             cHHHHHHHHHHHHHcCEEEEEEECCCCcchhhHHHHH-HHHHcC-CCEEEEEECCCCCC
Confidence            9887654455577899999999987654444333332 233333 36778999999975

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.01  E-value=2.5e-09  Score=101.70  Aligned_cols=151  Identities=17%  Similarity=0.144  Sum_probs=94.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCC--CCC-------CCCCcceE--EeeEEe------------------ecCcceE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNF--EDA-------SDSSSELL--VNGWTI------------------NTKYYTA   98 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~--~~~-------~~~t~~~~--~~~~~i------------------~~~~~~~   98 (289)
                      +.++++++|+..+|||||+-||+.+--  .+.       .....+..  +..|.+                  ......+
T Consensus         6 ph~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fet~k~   85 (428)
T COG5256           6 PHLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFETDKY   85 (428)
T ss_pred             CceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEeecCCc
Confidence            458999999999999999999986422  110       00001100  111211                  1112235


Q ss_pred             EEEEEEcCCchhhhccccccccCccEEEEEEeCCCHh---hHHHH---HHHHHHhhhcCCCeEEEEeeCCCCCCCCCchh
Q 040295           99 DVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLS---TLDAL---KHWVPSIDLQKFEILLCIGNKVDLLPGHPVHA  172 (289)
Q Consensus        99 ~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~---S~~~l---~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~  172 (289)
                      .+.|.|+||+..|-..+-.-..+||++|||.|+.+.+   .|...   +.-+--.+..+..-+|++.||+|+.+ +  . 
T Consensus        86 ~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlGi~~lIVavNKMD~v~-w--d-  161 (428)
T COG5256          86 NFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLGIKQLIVAVNKMDLVS-W--D-  161 (428)
T ss_pred             eEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhcCCceEEEEEEcccccc-c--C-
Confidence            6899999999988776666788899999999998653   22111   11111223334557899999999975 2  1 


Q ss_pred             HHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC-----CeEEEeecCCC
Q 040295          173 EYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR-----IEYIEACASNV  236 (289)
Q Consensus       173 ~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~ie~Sa~~~  236 (289)
                       .+|                                 -+++..+...+.+..|     ++|+.+|+..|
T Consensus       162 -e~r---------------------------------f~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G  196 (428)
T COG5256         162 -EER---------------------------------FEEIVSEVSKLLKMVGYNPKDVPFIPISGFKG  196 (428)
T ss_pred             -HHH---------------------------------HHHHHHHHHHHHHHcCCCccCCeEEecccccC
Confidence             111                                 2244445666666666     45999999999

>PRK13768 GTPase; Provisional

Probab=99.01  E-value=2.7e-09  Score=96.91  Aligned_cols=136  Identities=18%  Similarity=0.174  Sum_probs=72.5

Q ss_pred             EEEEEEcCCchhhh---cccccc---ccC--ccEEEEEEeCCCHh---hHHHHHHHHH-HhhhcCCCeEEEEeeCCCCCC
Q 040295           99 DVSLWMAHLHEEFS---IRSLPI---SDQ--LTALVMVFNLNDLS---TLDALKHWVP-SIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        99 ~l~I~Dt~G~e~~~---~~~~~~---~~~--ad~vIlV~Dv~~~~---S~~~l~~~~~-~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      .+.+||+||+..+.   .....+   +..  ++++++|+|.+...   .+.... |+. ........|+++|.||+|+.+
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~-~l~~~~~~~~~~~~i~v~nK~D~~~  176 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLL-LLALSVQLRLGLPQIPVLNKADLLS  176 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHH-HHHHHHHHHcCCCEEEEEEhHhhcC
Confidence            58899999986542   222222   222  88999999996543   333332 222 222233458888999999976


Q ss_pred             CCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC--CeEEEeecCCCcccccccC
Q 040295          167 GHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR--IEYIEACASNVDFDKCLSI  244 (289)
Q Consensus       167 ~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~ie~Sa~~~~~~~~~~~  244 (289)
                      .... ....+.+   .    +|+.+..-+....     ..   .....+...+.....+  .+++++|++++        
T Consensus       177 ~~~~-~~~~~~l---~----~~~~~~~~l~~~~-----~~---~~~~~~~~~~~i~~~~~~~~vi~iSa~~~--------  232 (253)
T PRK13768        177 EEEL-ERILKWL---E----DPEYLLEELKLEK-----GL---QGLLSLELLRALEETGLPVRVIPVSAKTG--------  232 (253)
T ss_pred             chhH-HHHHHHH---h----CHHHHHHHHhccc-----ch---HHHHHHHHHHHHHHHCCCCcEEEEECCCC--------
Confidence            4321 0111111   0    1000000000000     00   0122222223333344  47899999999        


Q ss_pred             CCCchhHHHHHHHHHHhcc
Q 040295          245 DGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       245 ~~~~~~i~~l~~~L~~~~~  263 (289)
                          .|+++++++|.+.+.
T Consensus       233 ----~gl~~L~~~I~~~l~  247 (253)
T PRK13768        233 ----EGFDELYAAIQEVFC  247 (253)
T ss_pred             ----cCHHHHHHHHHHHcC
Confidence                999999999988663

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=98.98  E-value=1.1e-08  Score=100.65  Aligned_cols=120  Identities=13%  Similarity=0.082  Sum_probs=86.1

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      .-.+.+.+.++|+.++|||.|++.|+++.+...+..+....+....+...+....+.+-|.+-. ....+...- ..+|.
T Consensus       421 ~~R~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g~~k~LiL~ei~~~-~~~~l~~ke-~~cDv  498 (625)
T KOG1707|consen  421 TDRKVFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKGQQKYLILREIGED-DQDFLTSKE-AACDV  498 (625)
T ss_pred             ccceeeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeeeccccceEEEeecCcc-ccccccCcc-ceeee
Confidence            3445688999999999999999999999887755555555543333333344444566665433 222222222 67999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ++++||++++.+|+.+...+.........|+++|+.|+|+.+
T Consensus       499 ~~~~YDsS~p~sf~~~a~v~~~~~~~~~~Pc~~va~K~dlDe  540 (625)
T KOG1707|consen  499 ACLVYDSSNPRSFEYLAEVYNKYFDLYKIPCLMVATKADLDE  540 (625)
T ss_pred             EEEecccCCchHHHHHHHHHHHhhhccCCceEEEeeccccch
Confidence            999999999999999998777766665559999999999953

>cd00066 G-alpha G protein alpha subunit

Probab=98.97  E-value=7.2e-09  Score=97.15  Aligned_cols=139  Identities=16%  Similarity=0.191  Sum_probs=85.2

Q ss_pred             eEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCH----------hhHHHHHHHHHHhhhc---CCCeEEEEeeCCC
Q 040295           97 TADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDL----------STLDALKHWVPSIDLQ---KFEILLCIGNKVD  163 (289)
Q Consensus        97 ~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~----------~S~~~l~~~~~~i~~~---~~~~iivvgnK~D  163 (289)
                      .+.+.+||++||...+..|.+++.+++++|||.|+++.          ..+......+..+-..   ...|+++++||.|
T Consensus       160 ~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~D  239 (317)
T cd00066         160 NLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNKKD  239 (317)
T ss_pred             ceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccChH
Confidence            45688999999999999999999999999999999863          3444444444444322   3449999999999


Q ss_pred             CCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHH--cCCeEEEeecCCCccccc
Q 040295          164 LLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTE--HRIEYIEACASNVDFDKC  241 (289)
Q Consensus       164 l~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~ie~Sa~~~~~~~~  241 (289)
                      +..         +++.......+-|++...+         .+.++...-++.+-..+...  ..+-...++|.+-     
T Consensus       240 ~f~---------~ki~~~~l~~~fp~y~g~~---------~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt-----  296 (317)
T cd00066         240 LFE---------EKIKKSPLTDYFPDYTGPP---------NDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDT-----  296 (317)
T ss_pred             HHH---------HhhcCCCccccCCCCCCCC---------CCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccch-----
Confidence            963         3332222233444441110         01111111221222222211  1233456888887     


Q ss_pred             ccCCCCchhHHHHHHHHHHhcccC
Q 040295          242 LSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       242 ~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                             .++..+|.++...++..
T Consensus       297 -------~~i~~vf~~v~~~i~~~  313 (317)
T cd00066         297 -------ENIRFVFDAVKDIILQN  313 (317)
T ss_pred             -------HHHHHHHHHHHHHHHHH
Confidence                   99999999998877543

The alpha subunit of G proteins contains the guanine nucleotide binding site. The heterotrimeric GNP-binding proteins are signal transducers that communicate signals from many hormones, neurotransmitters, chemokines, and autocrine and paracrine factors. Extracellular signals are received by receptors, which activate the G proteins, which in turn route the signals to several distinct intracellular signaling pathways. The alpha subunit of G proteins is a weak GTPase. In the resting state, heterotrimeric G proteins are associated at the cytosolic face of the plasma membrane and the alpha subunit binds to GDP. Upon activation by a receptor GDP is replaced with GTP, and the G-alpha/GTP complex dissociates from the beta and gamma subunits. This results in activation of downstream signaling pathways, such as cAMP synthesis by adenylyl cyclase, which is terminated when GTP is hydrolized and the heterotrimers reconstitute.

>cd01882 BMS1 Bms1

Probab=98.97  E-value=1.1e-08  Score=91.32  Aligned_cols=112  Identities=11%  Similarity=0.137  Sum_probs=69.1

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ..+...|+|+|.+|+|||||++.+....-........+.    ..+... ....+.++||||.-  ..+. ...+.+|++
T Consensus        36 ~~~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g~----i~i~~~-~~~~i~~vDtPg~~--~~~l-~~ak~aDvV  107 (225)
T cd01882          36 EPPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGP----ITVVTG-KKRRLTFIECPNDI--NAMI-DIAKVADLV  107 (225)
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhhcccCcccccccc----EEEEec-CCceEEEEeCCchH--HHHH-HHHHhcCEE
Confidence            344578999999999999999999865211111111111    111111 24568899999853  1112 335789999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ++|+|.+....... ..++..+...+.+.+++|.||+|+..
T Consensus       108 llviDa~~~~~~~~-~~i~~~l~~~g~p~vi~VvnK~D~~~  147 (225)
T cd01882         108 LLLIDASFGFEMET-FEFLNILQVHGFPRVMGVLTHLDLFK  147 (225)
T ss_pred             EEEEecCcCCCHHH-HHHHHHHHHcCCCeEEEEEeccccCC
Confidence            99999975433322 23344444444444667999999974

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.

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=98.96  E-value=1.2e-09  Score=106.58  Aligned_cols=159  Identities=16%  Similarity=0.224  Sum_probs=112.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +.+|+.|+|..++|||+|++|++.+.|.+...+..+ .| ...+...+....+.+.|.+|...     ..|..++|++||
T Consensus        29 pelk~givg~~~sgktalvhr~ltgty~~~e~~e~~-~~-kkE~vv~gqs~lLlirdeg~~~~-----aQft~wvdavIf  101 (749)
T KOG0705|consen   29 PELKLGIVGTSQSGKTALVHRYLTGTYTQDESPEGG-RF-KKEVVVDGQSHLLLIRDEGGHPD-----AQFCQWVDAVVF  101 (749)
T ss_pred             chhheeeeecccCCceeeeeeeccceeccccCCcCc-cc-eeeEEeeccceEeeeecccCCch-----hhhhhhccceEE
Confidence            348999999999999999999999998766555444 33 23333455566788889877332     256778999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcCCC---eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQKFE---ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~~~---~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      ||.+.+..+|+.+..+...+..+...   |++++|++.=.....+      +.                           
T Consensus       102 vf~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~------rv---------------------------  148 (749)
T KOG0705|consen  102 VFSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDHISAKRP------RV---------------------------  148 (749)
T ss_pred             EEEeccccCHHHHHHHHhhcccccccccchHHhhcCcchhhcccc------cc---------------------------
Confidence            99999999999999877776544332   6777776633321110      00                           


Q ss_pred             CCCCCcHHHHHHHH-HHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          205 GDEEPSWEIRRSCL-EWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       205 ~~~~~~~~~~~~~~-~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                             ....++. ..|....+.||+++|-+|            .++.++|+.++..+...
T Consensus       149 -------~~da~~r~l~~~~krcsy~et~atyG------------lnv~rvf~~~~~k~i~~  191 (749)
T KOG0705|consen  149 -------ITDDRARQLSAQMKRCSYYETCATYG------------LNVERVFQEVAQKIVQL  191 (749)
T ss_pred             -------cchHHHHHHHHhcCccceeecchhhh------------hhHHHHHHHHHHHHHHH
Confidence                   0111133 445566789999999999            99999999998766443

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=98.94  E-value=3.6e-09  Score=93.78  Aligned_cols=165  Identities=15%  Similarity=0.234  Sum_probs=102.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCC-CC--CCCCcceEEeeEEeecCcceEEEEEEEcCCchhh-----hccccccccC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFE-DA--SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF-----SIRSLPISDQ  121 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~-~~--~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~-----~~~~~~~~~~  121 (289)
                      -||+++|.+|+||||+=..+..+-.. +.  -..|+.++.......+   .+.+.+||.+||+.|     .......+++
T Consensus         5 kKvlLMGrsGsGKsSmrsiiF~ny~a~D~~rlg~tidveHsh~RflG---nl~LnlwDcGgqe~fmen~~~~q~d~iF~n   81 (295)
T KOG3886|consen    5 KKVLLMGRSGSGKSSMRSIIFANYIARDTRRLGATIDVEHSHVRFLG---NLVLNLWDCGGQEEFMENYLSSQEDNIFRN   81 (295)
T ss_pred             ceEEEeccCCCCccccchhhhhhhhhhhhhccCCcceeeehhhhhhh---hheeehhccCCcHHHHHHHHhhcchhhhee
Confidence            58999999999999976555432211 11  2233444443333333   256899999999855     2233456889


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHh---hhcCCC-eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCc
Q 040295          122 LTALVMVFNLNDLSTLDALKHWVPSI---DLQKFE-ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISE  197 (289)
Q Consensus       122 ad~vIlV~Dv~~~~S~~~l~~~~~~i---~~~~~~-~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~  197 (289)
                      .+++|+|||+...+--..+..+-..+   .+..+. -+.+...|.||+...      .|.+                   
T Consensus        82 V~vli~vFDves~e~~~D~~~yqk~Le~ll~~SP~AkiF~l~hKmDLv~~d------~r~~-------------------  136 (295)
T KOG3886|consen   82 VQVLIYVFDVESREMEKDFHYYQKCLEALLQNSPEAKIFCLLHKMDLVQED------AREL-------------------  136 (295)
T ss_pred             heeeeeeeeccchhhhhhHHHHHHHHHHHHhcCCcceEEEEEeechhcccc------hHHH-------------------
Confidence            99999999998776555555444433   333333 677789999998632      2322                   


Q ss_pred             ccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          198 TEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       198 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                                 .....++....+....++.++.+|-.+             +.+-.....+..++.|+.
T Consensus       137 -----------if~~r~~~l~~~s~~~~~~~f~TsiwD-------------etl~KAWS~iv~~lipn~  181 (295)
T KOG3886|consen  137 -----------IFQRRKEDLRRLSRPLECKCFPTSIWD-------------ETLYKAWSSIVYNLIPNV  181 (295)
T ss_pred             -----------HHHHHHHHHHHhcccccccccccchhh-------------HHHHHHHHHHHHhhCCCh
Confidence                       122223334444444556788888776             566666777777776665

>TIGR00101 ureG urease accessory protein UreG

Probab=98.93  E-value=2.4e-08  Score=87.65  Aligned_cols=84  Identities=14%  Similarity=0.114  Sum_probs=53.0

Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          122 LTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       122 ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      ++.+|.|+|+++.++...  .+...+..    .=++|+||+|+.+...                                
T Consensus       113 ~~~~i~vvD~~~~~~~~~--~~~~qi~~----ad~~~~~k~d~~~~~~--------------------------------  154 (199)
T TIGR00101       113 ADLTIFVIDVAAGDKIPR--KGGPGITR----SDLLVINKIDLAPMVG--------------------------------  154 (199)
T ss_pred             hCcEEEEEEcchhhhhhh--hhHhHhhh----ccEEEEEhhhcccccc--------------------------------
Confidence            688999999987666322  11222211    1156899999963100                                


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                            .......+.+..+  ..+.++++|||++|            +|++++|++|.+..+
T Consensus       155 ------~~~~~~~~~~~~~--~~~~~i~~~Sa~~g------------~gi~el~~~i~~~~~  196 (199)
T TIGR00101       155 ------ADLGVMERDAKKM--RGEKPFIFTNLKTK------------EGLDTVIDWIEHYAL  196 (199)
T ss_pred             ------ccHHHHHHHHHHh--CCCCCEEEEECCCC------------CCHHHHHHHHHhhcC
Confidence                  0111112223333  34578999999999            999999999987664

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

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

Probab=98.91  E-value=1.1e-08  Score=95.24  Aligned_cols=117  Identities=15%  Similarity=0.120  Sum_probs=67.0

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCC-CCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcc-------cccc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDAS-DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIR-------SLPI  118 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~-~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~-------~~~~  118 (289)
                      ...++|+++|.+||||||++|++++....... ..+.+...........  ..++.++||||.......       .+.+
T Consensus        36 ~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s~t~~~~~~~~~~~--G~~l~VIDTPGL~d~~~~~e~~~~~ik~~  113 (313)
T TIGR00991        36 VSSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRTRA--GFTLNIIDTPGLIEGGYINDQAVNIIKRF  113 (313)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeEEEEEEEEC--CeEEEEEECCCCCchHHHHHHHHHHHHHH
Confidence            34589999999999999999999987642211 1111111111111222  457999999997543211       1122


Q ss_pred             c--cCccEEEEEEeCCCHhhHHHH-HHHHHHhhhc----CCCeEEEEeeCCCCCC
Q 040295          119 S--DQLTALVMVFNLNDLSTLDAL-KHWVPSIDLQ----KFEILLCIGNKVDLLP  166 (289)
Q Consensus       119 ~--~~ad~vIlV~Dv~~~~S~~~l-~~~~~~i~~~----~~~~iivvgnK~Dl~~  166 (289)
                      +  ...|++++|..++... +... ...+..+...    --..+|||.++.|..+
T Consensus       114 l~~~g~DvVLyV~rLD~~R-~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~~  167 (313)
T TIGR00991       114 LLGKTIDVLLYVDRLDAYR-VDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFSP  167 (313)
T ss_pred             hhcCCCCEEEEEeccCccc-CCHHHHHHHHHHHHHhhhhhhccEEEEEECCccCC
Confidence            2  2689999996654221 2111 1222223222    1126888999999874

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

Probab=98.90  E-value=1.2e-08  Score=92.54  Aligned_cols=119  Identities=11%  Similarity=0.056  Sum_probs=70.3

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCC---CCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc---c----
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDAS---DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI---R----  114 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~---~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~---~----  114 (289)
                      .....++|+++|.+|||||||+|.+++.......   ..|.....+  .....  ...+.+|||||......   .    
T Consensus        27 ~~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~~~~~~--~~~~~--g~~i~vIDTPGl~~~~~~~~~~~~~  102 (249)
T cd01853          27 ELDFSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETLRVREV--SGTVD--GFKLNIIDTPGLLESVMDQRVNRKI  102 (249)
T ss_pred             hccCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceEEEEEE--EEEEC--CeEEEEEECCCcCcchhhHHHHHHH
Confidence            4556689999999999999999999998753221   122222222  22222  35689999999754311   0    


Q ss_pred             ---cccccc--CccEEEEEEeCCCH-hhHHHHHHHHHHhhhc-C---CCeEEEEeeCCCCCCCC
Q 040295          115 ---SLPISD--QLTALVMVFNLNDL-STLDALKHWVPSIDLQ-K---FEILLCIGNKVDLLPGH  168 (289)
Q Consensus       115 ---~~~~~~--~ad~vIlV~Dv~~~-~S~~~l~~~~~~i~~~-~---~~~iivvgnK~Dl~~~~  168 (289)
                         ...++.  ..|++++|..++.. ..+.. ...+..+... +   -..+++|.||+|..+..
T Consensus       103 ~~~I~~~l~~~~idvIL~V~rlD~~r~~~~d-~~llk~I~e~fG~~i~~~~ivV~T~~d~~~p~  165 (249)
T cd01853         103 LSSIKRYLKKKTPDVVLYVDRLDMYRRDYLD-LPLLRAITDSFGPSIWRNAIVVLTHAASSPPD  165 (249)
T ss_pred             HHHHHHHHhccCCCEEEEEEcCCCCCCCHHH-HHHHHHHHHHhChhhHhCEEEEEeCCccCCCC
Confidence               122332  57888888766532 22221 1223333321 1   12689999999997543

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.

>PTZ00258 GTP-binding protein; Provisional

Probab=98.83  E-value=7.6e-08  Score=92.44  Aligned_cols=86  Identities=12%  Similarity=-0.007  Sum_probs=53.5

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCc-ceEEeeEEeecCc-------------ceEEEEEEEcCCchh
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFED-ASDSSS-ELLVNGWTINTKY-------------YTADVSLWMAHLHEE  110 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~-~~~~~~~~i~~~~-------------~~~~l~I~Dt~G~e~  110 (289)
                      ....++|+|+|.||||||||+|.+.+..... .+..|+ ........+....             ....+.+.||||...
T Consensus        18 ~~~~~kvgIVG~PNvGKSTLfnaLt~~~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~   97 (390)
T PTZ00258         18 PGNNLKMGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVK   97 (390)
T ss_pred             CCCCcEEEEECCCCCChHHHHHHHhcCcccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCc
Confidence            3456899999999999999999998776432 232222 2222222222110             123589999999532


Q ss_pred             hh----cccc---ccccCccEEEEEEeC
Q 040295          111 FS----IRSL---PISDQLTALVMVFNL  131 (289)
Q Consensus       111 ~~----~~~~---~~~~~ad~vIlV~Dv  131 (289)
                      -.    .+..   ..++.+|++++|.|.
T Consensus        98 ga~~g~gLg~~fL~~Ir~aD~il~VVd~  125 (390)
T PTZ00258         98 GASEGEGLGNAFLSHIRAVDGIYHVVRA  125 (390)
T ss_pred             CCcchhHHHHHHHHHHHHCCEEEEEEeC
Confidence            11    1111   236789999999997

>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=98.82  E-value=6.4e-08  Score=85.48  Aligned_cols=113  Identities=14%  Similarity=0.094  Sum_probs=60.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCC----CCCcceEEeeEEeecCcceEEEEEEEcCCchhh--------hccc--
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDAS----DSSSELLVNGWTINTKYYTADVSLWMAHLHEEF--------SIRS--  115 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~----~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~--------~~~~--  115 (289)
                      .+|+++|.+|+||||++|.+++.......    ..|........  ...+  ..+.++||||.-.-        ..+.  
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~--~~~g--~~v~VIDTPGl~d~~~~~~~~~~~i~~~   76 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSG--EVDG--RQVTVIDTPGLFDSDGSDEEIIREIKRC   76 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEE--EETT--EEEEEEE--SSEETTEEHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccceeee--eecc--eEEEEEeCCCCCCCcccHHHHHHHHHHH
Confidence            37999999999999999999988753322    11222222222  2333  46899999994211        1111  


Q ss_pred             -cccccCccEEEEEEeCCCHhhHHHH--HHHHHHh-hhcCCCeEEEEeeCCCCCCC
Q 040295          116 -LPISDQLTALVMVFNLNDLSTLDAL--KHWVPSI-DLQKFEILLCIGNKVDLLPG  167 (289)
Q Consensus       116 -~~~~~~ad~vIlV~Dv~~~~S~~~l--~~~~~~i-~~~~~~~iivvgnK~Dl~~~  167 (289)
                       .....+.|+++||+..+.. +-+..  -.++..+ ...--+.+|||.+..|....
T Consensus        77 l~~~~~g~ha~llVi~~~r~-t~~~~~~l~~l~~~FG~~~~k~~ivvfT~~d~~~~  131 (212)
T PF04548_consen   77 LSLCSPGPHAFLLVIPLGRF-TEEDREVLELLQEIFGEEIWKHTIVVFTHADELED  131 (212)
T ss_dssp             HHHTTT-ESEEEEEEETTB--SHHHHHHHHHHHHHHCGGGGGGEEEEEEEGGGGTT
T ss_pred             HHhccCCCeEEEEEEecCcc-hHHHHHHHHHHHHHccHHHHhHhhHHhhhcccccc
Confidence             1124578999999998822 22211  1222222 21112256777777776544

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 ....

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=98.80  E-value=6.9e-08  Score=92.01  Aligned_cols=175  Identities=14%  Similarity=0.130  Sum_probs=86.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCC-CCCCCCcceE--EeeEEeecCcceEEEEEEEcCCchhhhcccccc-----cc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFE-DASDSSSELL--VNGWTINTKYYTADVSLWMAHLHEEFSIRSLPI-----SD  120 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~-~~~~~t~~~~--~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~-----~~  120 (289)
                      .++|+|+|.+|+|||||||.|.+-.-. +...+|...+  .......... .-.+.+||.||...-..-...|     +.
T Consensus        35 ~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~Y~~p~-~pnv~lWDlPG~gt~~f~~~~Yl~~~~~~  113 (376)
T PF05049_consen   35 PLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPTPYPHPK-FPNVTLWDLPGIGTPNFPPEEYLKEVKFY  113 (376)
T ss_dssp             -EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EEEE-SS--TTEEEEEE--GGGSS--HHHHHHHTTGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCeeCCCCC-CCCCeEEeCCCCCCCCCCHHHHHHHcccc
Confidence            479999999999999999999763222 2222221111  1111111111 1248999999864322222233     44


Q ss_pred             CccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          121 QLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       121 ~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      ..|.+|++.+-.    |....-|+..--....+++++|-+|+|..-      ...++-.++.                  
T Consensus       114 ~yD~fiii~s~r----f~~ndv~La~~i~~~gK~fyfVRTKvD~Dl------~~~~~~~p~~------------------  165 (376)
T PF05049_consen  114 RYDFFIIISSER----FTENDVQLAKEIQRMGKKFYFVRTKVDSDL------YNERRRKPRT------------------  165 (376)
T ss_dssp             G-SEEEEEESSS------HHHHHHHHHHHHTT-EEEEEE--HHHHH------HHHHCC-STT------------------
T ss_pred             ccCEEEEEeCCC----CchhhHHHHHHHHHcCCcEEEEEecccccH------hhhhccCCcc------------------
Confidence            678999887643    444444443333333447999999999610      1111100000                  


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCC---eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRI---EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~---~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                         -..+.-..++++.+.+-..+.|+   +.|-+|..+-          ..+..+.+.+.|.+.+-.+
T Consensus       166 ---f~~e~~L~~IR~~c~~~L~k~gv~~P~VFLVS~~dl----------~~yDFp~L~~tL~~dLp~~  220 (376)
T PF05049_consen  166 ---FNEEKLLQEIRENCLENLQKAGVSEPQVFLVSSFDL----------SKYDFPKLEETLEKDLPAH  220 (376)
T ss_dssp             -----HHTHHHHHHHHHHHHHHCTT-SS--EEEB-TTTT----------TSTTHHHHHHHHHHHS-GG
T ss_pred             ---cCHHHHHHHHHHHHHHHHHHcCCCcCceEEEeCCCc----------ccCChHHHHHHHHHHhHHH
Confidence               01122234556666666666665   3778888754          3366888888887766544

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=98.73  E-value=5.4e-08  Score=91.68  Aligned_cols=105  Identities=14%  Similarity=0.083  Sum_probs=63.7

Q ss_pred             eEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHH
Q 040295           97 TADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRR  176 (289)
Q Consensus        97 ~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r  176 (289)
                      .+.+.|.||+|...-..   .....+|.+++|.+....+.+..++.-..++      .-++|.||+|+.+...     ..
T Consensus       148 g~d~viieT~Gv~qs~~---~i~~~aD~vlvv~~p~~gd~iq~~k~gi~E~------aDIiVVNKaDl~~~~~-----a~  213 (332)
T PRK09435        148 GYDVILVETVGVGQSET---AVAGMVDFFLLLQLPGAGDELQGIKKGIMEL------ADLIVINKADGDNKTA-----AR  213 (332)
T ss_pred             CCCEEEEECCCCccchh---HHHHhCCEEEEEecCCchHHHHHHHhhhhhh------hheEEeehhcccchhH-----HH
Confidence            35688999998642211   1355799999997655555554443211111      1267899999975321     11


Q ss_pred             HhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHH-------cCCeEEEeecCCCcccccccCCCCch
Q 040295          177 RLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTE-------HRIEYIEACASNVDFDKCLSIDGDSQ  249 (289)
Q Consensus       177 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~ie~Sa~~~~~~~~~~~~~~~~  249 (289)
                      +.                                   ..........       +..+++.+||+++            .
T Consensus       214 ~~-----------------------------------~~el~~~L~l~~~~~~~w~~pVi~vSA~~g------------~  246 (332)
T PRK09435        214 RA-----------------------------------AAEYRSALRLLRPKDPGWQPPVLTCSALEG------------E  246 (332)
T ss_pred             HH-----------------------------------HHHHHHHHhcccccccCCCCCEEEEECCCC------------C
Confidence            11                                   0112222221       2357999999999            9


Q ss_pred             hHHHHHHHHHHhc
Q 040295          250 GVERLYGALSAHM  262 (289)
Q Consensus       250 ~i~~l~~~L~~~~  262 (289)
                      |++++++.|.++.
T Consensus       247 GIdeL~~~I~~~~  259 (332)
T PRK09435        247 GIDEIWQAIEDHR  259 (332)
T ss_pred             CHHHHHHHHHHHH
Confidence            9999999999864

>PTZ00416 elongation factor 2; Provisional

Probab=98.71  E-value=4.9e-08  Score=102.37  Aligned_cols=118  Identities=12%  Similarity=0.010  Sum_probs=75.5

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCC----------------CCCCcceEE--eeEEeec------CcceEEEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDA----------------SDSSSELLV--NGWTINT------KYYTADVS  101 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~----------------~~~t~~~~~--~~~~i~~------~~~~~~l~  101 (289)
                      .+..-+|+|+|+.++|||||+++|+...-...                ....+....  .......      ++....+.
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            34456899999999999999999986321100                000011110  0111110      12246789


Q ss_pred             EEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCC
Q 040295          102 LWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLL  165 (289)
Q Consensus       102 I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~  165 (289)
                      +.||||+..|..-....++.+|++|+|+|....-.-+...-| ..+...+ .|+|++.||+|+.
T Consensus        96 liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~~~~-~~~~~~~-~p~iv~iNK~D~~  157 (836)
T PTZ00416         96 LIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTETVL-RQALQER-IRPVLFINKVDRA  157 (836)
T ss_pred             EEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHHHHH-HHHHHcC-CCEEEEEEChhhh
Confidence            999999998876666778899999999999875333333333 3333333 4788899999996

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=98.70  E-value=2.4e-07  Score=86.72  Aligned_cols=147  Identities=15%  Similarity=0.116  Sum_probs=96.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCC---------------------------------CCCCCcceEEeeEEeecC
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFED---------------------------------ASDSSSELLVNGWTINTK   94 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~---------------------------------~~~~t~~~~~~~~~i~~~   94 (289)
                      ..++++.||+-.=||||||-||+.+.-..                                 +..+.+..+....-+...
T Consensus         5 ~lLRfiTcGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRyFsT~   84 (431)
T COG2895           5 SLLRFITCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRYFSTE   84 (431)
T ss_pred             cceeEEEeccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeeecccc
Confidence            45899999999999999999999753211                                 011112222111111112


Q ss_pred             cceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhh-cCCCeEEEEeeCCCCCCCCCchhH
Q 040295           95 YYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDL-QKFEILLCIGNKVDLLPGHPVHAE  173 (289)
Q Consensus        95 ~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~-~~~~~iivvgnK~Dl~~~~~~~~~  173 (289)
                        .-++.|-||||++.|-..+..-...||++|++.|....  ....-.-...|-. .+-..++|..||+||..       
T Consensus        85 --KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~G--vl~QTrRHs~I~sLLGIrhvvvAVNKmDLvd-------  153 (431)
T COG2895          85 --KRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKG--VLEQTRRHSFIASLLGIRHVVVAVNKMDLVD-------  153 (431)
T ss_pred             --cceEEEecCCcHHHHhhhhhcccccccEEEEEEecchh--hHHHhHHHHHHHHHhCCcEEEEEEeeecccc-------
Confidence              34688999999999876666667789999999998543  2222222333322 24457999999999974       


Q ss_pred             HHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCC---eEEEeecCCC
Q 040295          174 YRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRI---EYIEACASNV  236 (289)
Q Consensus       174 ~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~ie~Sa~~~  236 (289)
                      +.+..                               .++++..-..|+...++   .++.+||..|
T Consensus       154 y~e~~-------------------------------F~~I~~dy~~fa~~L~~~~~~~IPiSAl~G  188 (431)
T COG2895         154 YSEEV-------------------------------FEAIVADYLAFAAQLGLKDVRFIPISALLG  188 (431)
T ss_pred             cCHHH-------------------------------HHHHHHHHHHHHHHcCCCcceEEechhccC
Confidence            22222                               34566667788888886   4999999999

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=98.69  E-value=4.8e-08  Score=88.07  Aligned_cols=68  Identities=21%  Similarity=0.067  Sum_probs=34.5

Q ss_pred             EEEEEEcCCchhhhccccccc--------cCccEEEEEEeCC---CHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295           99 DVSLWMAHLHEEFSIRSLPIS--------DQLTALVMVFNLN---DLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        99 ~l~I~Dt~G~e~~~~~~~~~~--------~~ad~vIlV~Dv~---~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      .+.|+|||||-++...+....        ...-++|++.|..   ++..|-...-....+...-.-|.|.|.||+|+.+
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~~~lP~vnvlsK~Dl~~  170 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLRLELPHVNVLSKIDLLS  170 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHHHHTSEEEEEE--GGGS-
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHhhCCCCEEEeeeccCccc
Confidence            688999999977654442221        3456889999976   4544533321111112212238999999999986

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_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=98.69  E-value=1.9e-07  Score=78.34  Aligned_cols=62  Identities=13%  Similarity=0.046  Sum_probs=43.9

Q ss_pred             EEEEEcCCchhh----hccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCC
Q 040295          100 VSLWMAHLHEEF----SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKV  162 (289)
Q Consensus       100 l~I~Dt~G~e~~----~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~  162 (289)
                      +.|.||||....    ..+...|++.+|++|+|.+.++..+-.....|.......... +++|.||+
T Consensus       103 ~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~~~~-~i~V~nk~  168 (168)
T PF00350_consen  103 LTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPDKSR-TIFVLNKA  168 (168)
T ss_dssp             EEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTTCSS-EEEEEE-G
T ss_pred             eEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCCCCe-EEEEEcCC
Confidence            678999997432    234567789999999999999866655666665555554443 78889984

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 ....

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=98.67  E-value=5.7e-07  Score=86.83  Aligned_cols=171  Identities=13%  Similarity=0.141  Sum_probs=110.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCC--CCCC------------CCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVN--FEDA------------SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRS  115 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~--~~~~------------~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~  115 (289)
                      -.|+|+-.-.-|||||+..++.+.  |.+.            ....-|.+.........+..+.+.|.||||+..|-.-.
T Consensus         6 RNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~~~~~~INIvDTPGHADFGGEV   85 (603)
T COG1217           6 RNIAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVNYNGTRINIVDTPGHADFGGEV   85 (603)
T ss_pred             ceeEEEEEecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceeecCCeEEEEecCCCcCCccchh
Confidence            469999999999999999999754  3221            11112222222222233445779999999999998888


Q ss_pred             cccccCccEEEEEEeCCCH---hhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccC
Q 040295          116 LPISDQLTALVMVFNLNDL---STLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQ  192 (289)
Q Consensus       116 ~~~~~~ad~vIlV~Dv~~~---~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~  192 (289)
                      ...+...|++++++|....   ++-=    -+.+.-..+-+|| ||.||+|.....+                       
T Consensus        86 ERvl~MVDgvlLlVDA~EGpMPQTrF----VlkKAl~~gL~PI-VVvNKiDrp~Arp-----------------------  137 (603)
T COG1217          86 ERVLSMVDGVLLLVDASEGPMPQTRF----VLKKALALGLKPI-VVINKIDRPDARP-----------------------  137 (603)
T ss_pred             hhhhhhcceEEEEEEcccCCCCchhh----hHHHHHHcCCCcE-EEEeCCCCCCCCH-----------------------
Confidence            8889999999999998742   2211    1122223344454 4799999954321                       


Q ss_pred             CCCCcccCCCCCCCCCCcHHHHHHHHHH------HHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          193 SGISETEGSSLLGDEEPSWEIRRSCLEW------CTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                                       .|.+.+--.-|      .....++++..|+.+| +... +-.+.+.++.-+|+.|++++-+..
T Consensus       138 -----------------~~Vvd~vfDLf~~L~A~deQLdFPivYAS~~~G-~a~~-~~~~~~~~m~pLfe~I~~hvp~P~  198 (603)
T COG1217         138 -----------------DEVVDEVFDLFVELGATDEQLDFPIVYASARNG-TASL-DPEDEADDMAPLFETILDHVPAPK  198 (603)
T ss_pred             -----------------HHHHHHHHHHHHHhCCChhhCCCcEEEeeccCc-eecc-CccccccchhHHHHHHHHhCCCCC
Confidence                             11111111112      1235688999999998 3333 555566779999999999987765


Q ss_pred             c
Q 040295          267 V  267 (289)
Q Consensus       267 ~  267 (289)
                      .
T Consensus       199 ~  199 (603)
T COG1217         199 G  199 (603)
T ss_pred             C
Confidence            3

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=98.66  E-value=8.4e-08  Score=100.70  Aligned_cols=118  Identities=11%  Similarity=-0.057  Sum_probs=76.4

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCC----------------CC--CCCcceEEeeEEee------------cCc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFED----------------AS--DSSSELLVNGWTIN------------TKY   95 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~----------------~~--~~t~~~~~~~~~i~------------~~~   95 (289)
                      .+..-+|+|+|+.++|||||+.+|+...-..                +.  ..|+.....+....            ...
T Consensus        16 ~~~Irni~iiGhvd~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~~~   95 (843)
T PLN00116         16 KHNIRNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGERDG   95 (843)
T ss_pred             ccCccEEEEEcCCCCCHHHHHHHHHHhcCCcccccCCceeeccCcHHHHHhCCceecceeEEEeecccccccccccccCC
Confidence            4556689999999999999999998643210                00  01111101111111            112


Q ss_pred             ceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCC
Q 040295           96 YTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLL  165 (289)
Q Consensus        96 ~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~  165 (289)
                      ..+.+.+.||||+..|..-...-++.+|++|+|+|+...-.......|.. +... ..|+|++.||+|..
T Consensus        96 ~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~~~-~~~~-~~p~i~~iNK~D~~  163 (843)
T PLN00116         96 NEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVLRQ-ALGE-RIRPVLTVNKMDRC  163 (843)
T ss_pred             CceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHHHHH-HHHC-CCCEEEEEECCccc
Confidence            35678999999999997766666889999999999986644433333433 2222 23678899999997

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=98.65  E-value=6.7e-07  Score=85.14  Aligned_cols=83  Identities=18%  Similarity=0.029  Sum_probs=52.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCC-CcceEEeeEEeecC-------------cceEEEEEEEcCCchhh---
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFED-ASDS-SSELLVNGWTINTK-------------YYTADVSLWMAHLHEEF---  111 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~-t~~~~~~~~~i~~~-------------~~~~~l~I~Dt~G~e~~---  111 (289)
                      ++|+|+|.||||||||+|++++..... .+.. |.........+...             .....+.+.|+||...-   
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a~~   82 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGASK   82 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCCCh
Confidence            799999999999999999999877322 2222 22222222222221             01135899999995321   


Q ss_pred             -hcccc---ccccCccEEEEEEeCC
Q 040295          112 -SIRSL---PISDQLTALVMVFNLN  132 (289)
Q Consensus       112 -~~~~~---~~~~~ad~vIlV~Dv~  132 (289)
                       ..+..   ..++.+|++++|+|..
T Consensus        83 g~glg~~fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         83 GEGLGNQFLANIREVDAIVHVVRCF  107 (364)
T ss_pred             HHHHHHHHHHHHHhCCEEEEEEeCC
Confidence             11112   2367899999999973

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=98.65  E-value=3.1e-07  Score=90.51  Aligned_cols=153  Identities=16%  Similarity=0.159  Sum_probs=99.9

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCC-----------------------------CCCCcceEEeeEEeecCc
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDA-----------------------------SDSSSELLVNGWTINTKY   95 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~-----------------------------~~~t~~~~~~~~~i~~~~   95 (289)
                      .+...+.++++|.-.+|||||+-+++..--...                             ..+.-|+.....+..++.
T Consensus       173 ~~k~~l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~~~fes  252 (603)
T KOG0458|consen  173 DPKDHLNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKTTWFES  252 (603)
T ss_pred             CCccceEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeeeEEEec
Confidence            344568899999999999999999885211110                             011111111111222234


Q ss_pred             ceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHH-------HHHHHHHhhhcCCCeEEEEeeCCCCCCCC
Q 040295           96 YTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDA-------LKHWVPSIDLQKFEILLCIGNKVDLLPGH  168 (289)
Q Consensus        96 ~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~-------l~~~~~~i~~~~~~~iivvgnK~Dl~~~~  168 (289)
                      ....+.|.|+||+..|-...-.-..+||++|||.|++ ...|+.       .+....-++..+..-+||+.||.|+..= 
T Consensus       253 ~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s-~~~FE~gfd~~gQtrEha~llr~Lgi~qlivaiNKmD~V~W-  330 (603)
T KOG0458|consen  253 KSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDAS-TGEFESGFDPGGQTREHALLLRSLGISQLIVAINKMDLVSW-  330 (603)
T ss_pred             CceeEEEecCCCccccchhhhccccccceEEEEEECC-cchhhhccCCCCchHHHHHHHHHcCcceEEEEeecccccCc-
Confidence            4567899999999999776666677899999999997 333432       2223333455566688999999999741 


Q ss_pred             CchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHH-HHcCC-----eEEEeecCCC
Q 040295          169 PVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWC-TEHRI-----EYIEACASNV  236 (289)
Q Consensus       169 ~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~-----~~ie~Sa~~~  236 (289)
                                                           .++-.++++.....|. ...|+     .|+.||+.+|
T Consensus       331 -------------------------------------sq~RF~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~G  367 (603)
T KOG0458|consen  331 -------------------------------------SQDRFEEIKNKLSSFLKESCGFKESSVKFIPISGLSG  367 (603)
T ss_pred             -------------------------------------cHHHHHHHHHHHHHHHHHhcCcccCCcceEecccccC
Confidence                                                 1112346666677787 55564     5999999999

>TIGR00750 lao LAO/AO transport system ATPase

Probab=98.64  E-value=2.4e-07  Score=86.10  Aligned_cols=34  Identities=21%  Similarity=0.157  Sum_probs=26.7

Q ss_pred             cccccccccCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           38 MDSTDRASLEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        38 ~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +++...........|+|+|++|+|||||+..+..
T Consensus        23 ~~~~~~~~~~~~~~i~i~G~~G~GKttl~~~l~~   56 (300)
T TIGR00750        23 LLDRIMPYTGNAHRVGITGTPGAGKSTLLEALGM   56 (300)
T ss_pred             HHHhCCcccCCceEEEEECCCCCCHHHHHHHHHH
Confidence            3444455556678899999999999999999764

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=98.63  E-value=2.3e-07  Score=81.47  Aligned_cols=24  Identities=21%  Similarity=0.336  Sum_probs=21.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcC
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ...|+++|+.|+|||||+++++..
T Consensus        22 ~~~i~~~G~~gsGKTTli~~l~~~   45 (207)
T TIGR00073        22 LVVLNFMSSPGSGKTTLIEKLIDN   45 (207)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHH
Confidence            467899999999999999999864

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PRK07560 elongation factor EF-2; Reviewed

Probab=98.61  E-value=1.2e-07  Score=98.30  Aligned_cols=117  Identities=15%  Similarity=0.002  Sum_probs=74.5

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCC--C----------------CCCcceEEeeEEeecCcceEEEEEEEcCCc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDA--S----------------DSSSELLVNGWTINTKYYTADVSLWMAHLH  108 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~--~----------------~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~  108 (289)
                      +..-.|+|+|+.++|||||+.+++...-...  .                .-|+............+....+.+.||||+
T Consensus        18 ~~iRni~iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDtPG~   97 (731)
T PRK07560         18 EQIRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTPGH   97 (731)
T ss_pred             hcccEEEEEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcCCCc
Confidence            3445699999999999999999985321100  0                001111111111112233567899999999


Q ss_pred             hhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCC
Q 040295          109 EEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLL  165 (289)
Q Consensus       109 e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~  165 (289)
                      ..|.......++.+|++|+|+|....-.-+....|... ...+. |+|++.||+|+.
T Consensus        98 ~df~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~~~~-~~~~~-~~iv~iNK~D~~  152 (731)
T PRK07560         98 VDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQA-LRERV-KPVLFINKVDRL  152 (731)
T ss_pred             cChHHHHHHHHHhcCEEEEEEECCCCCCccHHHHHHHH-HHcCC-CeEEEEECchhh
Confidence            98877666778899999999998865333333334332 22233 457889999985

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

Probab=98.59  E-value=1.4e-06  Score=80.49  Aligned_cols=115  Identities=13%  Similarity=0.160  Sum_probs=66.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCC----------CCCcceEEeeEEeecCcceEEEEEEEcCCch---------
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDAS----------DSSSELLVNGWTINTKYYTADVSLWMAHLHE---------  109 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~----------~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e---------  109 (289)
                      .++|+|+|.+|+|||||||.|++.......          ..+.........+..++..+.+.++||||-.         
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            378999999999999999999987653321          1233334445566667788899999999821         


Q ss_pred             ---------hhhccc-------c--ccccCccEEEEEEeCCCHhhHHHHH-HHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          110 ---------EFSIRS-------L--PISDQLTALVMVFNLNDLSTLDALK-HWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       110 ---------~~~~~~-------~--~~~~~ad~vIlV~Dv~~~~S~~~l~-~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                               .|....       .  ..=...|+++++.+.+.. .+..++ ..+..+..  -.++|-|..|+|.+.
T Consensus        84 ~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~-~L~~~Di~~mk~Ls~--~vNvIPvIaKaD~lt  156 (281)
T PF00735_consen   84 EPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGH-GLKPLDIEFMKRLSK--RVNVIPVIAKADTLT  156 (281)
T ss_dssp             HHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSS-SS-HHHHHHHHHHTT--TSEEEEEESTGGGS-
T ss_pred             HHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCc-cchHHHHHHHHHhcc--cccEEeEEecccccC
Confidence                     111100       0  001246899999987632 222222 22222222  226788899999975

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.

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=98.58  E-value=2.7e-07  Score=92.97  Aligned_cols=116  Identities=16%  Similarity=0.186  Sum_probs=81.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCC----CCCCcceEEeeEE-ee--------cC---cceEEEEEEEcCCchhh
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDA----SDSSSELLVNGWT-IN--------TK---YYTADVSLWMAHLHEEF  111 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~----~~~t~~~~~~~~~-i~--------~~---~~~~~l~I~Dt~G~e~~  111 (289)
                      +.+-+||+|.-.+|||-|+..+-+.+....    .++.+|.+|.+.. |.        +.   ....-+.+.||||++.|
T Consensus       474 RSPIcCilGHVDTGKTKlld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvPg~lvIdtpghEsF  553 (1064)
T KOG1144|consen  474 RSPICCILGHVDTGKTKLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVPGLLVIDTPGHESF  553 (1064)
T ss_pred             CCceEEEeecccccchHHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCCeeEEecCCCchhh
Confidence            345699999999999999999988765432    3334444444332 10        00   11223678899999999


Q ss_pred             hccccccccCccEEEEEEeCCC---HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCC
Q 040295          112 SIRSLPISDQLTALVMVFNLND---LSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGH  168 (289)
Q Consensus       112 ~~~~~~~~~~ad~vIlV~Dv~~---~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~  168 (289)
                      ..+.......|+.+|+|.|+.+   +++++.+..    + +.+..|+||..||+|.+=++
T Consensus       554 tnlRsrgsslC~~aIlvvdImhGlepqtiESi~l----L-R~rktpFivALNKiDRLYgw  608 (1064)
T KOG1144|consen  554 TNLRSRGSSLCDLAILVVDIMHGLEPQTIESINL----L-RMRKTPFIVALNKIDRLYGW  608 (1064)
T ss_pred             hhhhhccccccceEEEEeehhccCCcchhHHHHH----H-HhcCCCeEEeehhhhhhccc
Confidence            9999888889999999999985   455555432    2 23344889999999998655

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.56  E-value=2.7e-07  Score=81.42  Aligned_cols=167  Identities=19%  Similarity=0.197  Sum_probs=100.8

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcC----
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAH----  106 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~----  106 (289)
                      ..||..+++++.+.+..++-.++|+||||+|||||++.+..-+..     +.|      .|..++..+.... |..    
T Consensus        10 K~fg~~~VLkgi~l~v~~Gevv~iiGpSGSGKSTlLRclN~LE~~-----~~G------~I~i~g~~~~~~~-~~~~~R~   77 (240)
T COG1126          10 KSFGDKEVLKGISLSVEKGEVVVIIGPSGSGKSTLLRCLNGLEEP-----DSG------SITVDGEDVGDKK-DILKLRR   77 (240)
T ss_pred             EEeCCeEEecCcceeEcCCCEEEEECCCCCCHHHHHHHHHCCcCC-----CCc------eEEECCEeccchh-hHHHHHH
Confidence            579999999999999999999999999999999999999776642     222      1111211100000 100    


Q ss_pred             --C--chhhhccc-cccccCc-cEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhh
Q 040295          107 --L--HEEFSIRS-LPISDQL-TALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLK  180 (289)
Q Consensus       107 --G--~e~~~~~~-~~~~~~a-d~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~  180 (289)
                        |  -..|+-+. ...+.+. -+-+.|--....+.-+.+..++..+.         ++.|.|.-|......+.+|..  
T Consensus        78 ~vGmVFQ~fnLFPHlTvleNv~lap~~v~~~~k~eA~~~A~~lL~~VG---------L~~ka~~yP~qLSGGQqQRVA--  146 (240)
T COG1126          78 KVGMVFQQFNLFPHLTVLENVTLAPVKVKKLSKAEAREKALELLEKVG---------LADKADAYPAQLSGGQQQRVA--  146 (240)
T ss_pred             hcCeecccccccccchHHHHHHhhhHHHcCCCHHHHHHHHHHHHHHcC---------chhhhhhCccccCcHHHHHHH--
Confidence              0  01111000 0111111 13333444444455555556666554         367777776655444444433  


Q ss_pred             cccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEE--EeecCCCcccccccCCCCchhHHHHHHHH
Q 040295          181 REESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYI--EACASNVDFDKCLSIDGDSQGVERLYGAL  258 (289)
Q Consensus       181 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i--e~Sa~~~~~~~~~~~~~~~~~i~~l~~~L  258 (289)
                                                         -|+.+|.+-.+-.|  .|||.+.            +-+.++++.+
T Consensus       147 -----------------------------------IARALaM~P~vmLFDEPTSALDP------------Elv~EVL~vm  179 (240)
T COG1126         147 -----------------------------------IARALAMDPKVMLFDEPTSALDP------------ELVGEVLDVM  179 (240)
T ss_pred             -----------------------------------HHHHHcCCCCEEeecCCcccCCH------------HHHHHHHHHH
Confidence                                               27777877776556  3999999            9999999988


Q ss_pred             HHhcccCcc
Q 040295          259 SAHMWPGMV  267 (289)
Q Consensus       259 ~~~~~~~~~  267 (289)
                      ....-..|.
T Consensus       180 ~~LA~eGmT  188 (240)
T COG1126         180 KDLAEEGMT  188 (240)
T ss_pred             HHHHHcCCe
Confidence            877666654

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.55  E-value=2e-06  Score=80.43  Aligned_cols=167  Identities=17%  Similarity=0.209  Sum_probs=98.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCC----CCCC---CCCCcceE--EeeEEee-----cCcceEEEEEEEcCCchhhhc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVN----FEDA---SDSSSELL--VNGWTIN-----TKYYTADVSLWMAHLHEEFSI  113 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~----~~~~---~~~t~~~~--~~~~~i~-----~~~~~~~l~I~Dt~G~e~~~~  113 (289)
                      .++.+.|+|.-.+|||||.+++..-.    |...   ....+..+  |....+.     ..+....+.+.|.||+...  
T Consensus         6 ~n~N~GiLGHvDSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPGHasL--   83 (522)
T KOG0461|consen    6 SNLNLGILGHVDSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPGHASL--   83 (522)
T ss_pred             ceeeeeeEeeccCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeecccccccCccccceeEEEeCCCcHHH--
Confidence            34889999999999999999997532    1111   11111111  2222221     2445577899999998754  


Q ss_pred             ccccccc---CccEEEEEEeCCCH---hhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCC
Q 040295          114 RSLPISD---QLTALVMVFNLNDL---STLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSAD  187 (289)
Q Consensus       114 ~~~~~~~---~ad~vIlV~Dv~~~---~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~  187 (289)
                       .+..+.   -.|..++|.|+...   ++-+.+-     |...-.+..++|.||+|+.+.+      .|+-         
T Consensus        84 -IRtiiggaqiiDlm~lviDv~kG~QtQtAEcLi-----ig~~~c~klvvvinkid~lpE~------qr~s---------  142 (522)
T KOG0461|consen   84 -IRTIIGGAQIIDLMILVIDVQKGKQTQTAECLI-----IGELLCKKLVVVINKIDVLPEN------QRAS---------  142 (522)
T ss_pred             -HHHHHhhhheeeeeeEEEehhcccccccchhhh-----hhhhhccceEEEEeccccccch------hhhh---------
Confidence             223333   35889999999843   3333331     2222223467789999998743      2222         


Q ss_pred             CcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC----CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          188 PDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR----IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       188 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                           ..+....+.+.-....+    .|++++||+.|.|.        -+++.++...|..++.
T Consensus       143 ---------------------ki~k~~kk~~KtLe~t~f~g~~PI~~vsa~~G~~~--------~~~i~eL~e~l~s~if  193 (522)
T KOG0461|consen  143 ---------------------KIEKSAKKVRKTLESTGFDGNSPIVEVSAADGYFK--------EEMIQELKEALESRIF  193 (522)
T ss_pred             ---------------------HHHHHHHHHHHHHHhcCcCCCCceeEEecCCCccc--------hhHHHHHHHHHHHhhc
Confidence                                 11122222333333333    57999999998332        2678888888887776


Q ss_pred             cCc
Q 040295          264 PGM  266 (289)
Q Consensus       264 ~~~  266 (289)
                      ...
T Consensus       194 ~P~  196 (522)
T KOG0461|consen  194 EPK  196 (522)
T ss_pred             CCC
Confidence            553

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.53  E-value=5.3e-07  Score=83.62  Aligned_cols=163  Identities=18%  Similarity=0.191  Sum_probs=108.2

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCC---CCCCCCCcceE--EeeEE--------------eec--------CcceEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNF---EDASDSSSELL--VNGWT--------------INT--------KYYTAD   99 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~---~~~~~~t~~~~--~~~~~--------------i~~--------~~~~~~   99 (289)
                      ++.+.|.++|.-.-|||||.+.+.+-..   .++....+...  |....              ...        ......
T Consensus         8 Qp~vNIG~vGHVdHGKtTlv~AlsGvwT~~hseElkRgitIkLGYAd~~i~kC~~c~~~~~y~~~~~C~~cg~~~~l~R~   87 (415)
T COG5257           8 QPEVNIGMVGHVDHGKTTLTKALSGVWTDRHSEELKRGITIKLGYADAKIYKCPECYRPECYTTEPKCPNCGAETELVRR   87 (415)
T ss_pred             CcceEeeeeeecccchhhheehhhceeeechhHHHhcCcEEEeccccCceEeCCCCCCCcccccCCCCCCCCCCccEEEE
Confidence            5678999999999999999999986332   22211111111  00000              000        011245


Q ss_pred             EEEEEcCCchhhhccccccccCccEEEEEEeCC----CHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHH
Q 040295          100 VSLWMAHLHEEFSIRSLPISDQLTALVMVFNLN----DLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYR  175 (289)
Q Consensus       100 l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~----~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~  175 (289)
                      +.+.|.||+|-.-+-+-+-..-.|++++|.+.+    +|++-+++.    .+.-.+-+.+|+|-||+||...       +
T Consensus        88 VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~----AleIigik~iiIvQNKIDlV~~-------E  156 (415)
T COG5257          88 VSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLM----ALEIIGIKNIIIVQNKIDLVSR-------E  156 (415)
T ss_pred             EEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHH----HHhhhccceEEEEecccceecH-------H
Confidence            789999999977554433344469999999988    456666553    2344455568999999999742       3


Q ss_pred             HHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHc---CCeEEEeecCCCcccccccCCCCchhHH
Q 040295          176 RRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEH---RIEYIEACASNVDFDKCLSIDGDSQGVE  252 (289)
Q Consensus       176 r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~ie~Sa~~~~~~~~~~~~~~~~~i~  252 (289)
                      +.+                                 +..+++.+|.+-.   +.+++.+||..+            .||+
T Consensus       157 ~Al---------------------------------E~y~qIk~FvkGt~Ae~aPIIPiSA~~~------------~NID  191 (415)
T COG5257         157 RAL---------------------------------ENYEQIKEFVKGTVAENAPIIPISAQHK------------ANID  191 (415)
T ss_pred             HHH---------------------------------HHHHHHHHHhcccccCCCceeeehhhhc------------cCHH
Confidence            333                                 4455577777643   468999999999            9999


Q ss_pred             HHHHHHHHhcccC
Q 040295          253 RLYGALSAHMWPG  265 (289)
Q Consensus       253 ~l~~~L~~~~~~~  265 (289)
                      .++++|.+.+-..
T Consensus       192 al~e~i~~~IptP  204 (415)
T COG5257         192 ALIEAIEKYIPTP  204 (415)
T ss_pred             HHHHHHHHhCCCC
Confidence            9999999988544

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=98.53  E-value=3e-06  Score=81.57  Aligned_cols=116  Identities=14%  Similarity=0.059  Sum_probs=71.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcC----CCCC--------------CCC---CCcceEE---eeEEeec-CcceEEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSV----NFED--------------ASD---SSSELLV---NGWTINT-KYYTADVSL  102 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~----~~~~--------------~~~---~t~~~~~---~~~~i~~-~~~~~~l~I  102 (289)
                      -.+.|.|+|+-++|||||+++|.+.    +...              ...   .|...-|   ....+.. ++....+.+
T Consensus        16 G~IyIGvvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~Vrl   95 (492)
T TIGR02836        16 GDIYIGVVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKVRL   95 (492)
T ss_pred             CcEEEEEEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccEEE
Confidence            3478999999999999999999988    4331              011   2333333   2333332 344567899


Q ss_pred             EEcCCchhhhcc-----------------------------cccccc-CccEEEEEE-eCC----CHhhHHH-HHHHHHH
Q 040295          103 WMAHLHEEFSIR-----------------------------SLPISD-QLTALVMVF-NLN----DLSTLDA-LKHWVPS  146 (289)
Q Consensus       103 ~Dt~G~e~~~~~-----------------------------~~~~~~-~ad~vIlV~-Dv~----~~~S~~~-l~~~~~~  146 (289)
                      .||+|-..-..+                             .+..+. .+++.|+|. |.+    .++.+.. -..|+..
T Consensus        96 IDcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~e  175 (492)
T TIGR02836        96 VDCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEE  175 (492)
T ss_pred             EECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHHHH
Confidence            999984211110                             012233 678888888 654    1233333 3467777


Q ss_pred             hhhcCCCeEEEEeeCCCC
Q 040295          147 IDLQKFEILLCIGNKVDL  164 (289)
Q Consensus       147 i~~~~~~~iivvgnK~Dl  164 (289)
                      ++..+. |+++|.||.|-
T Consensus       176 Lk~~~k-PfiivlN~~dp  192 (492)
T TIGR02836       176 LKELNK-PFIILLNSTHP  192 (492)
T ss_pred             HHhcCC-CEEEEEECcCC
Confidence            776554 78889999994

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.

>cd01855 YqeH YqeH

Probab=98.48  E-value=2.9e-07  Score=79.44  Aligned_cols=93  Identities=23%  Similarity=0.280  Sum_probs=62.8

Q ss_pred             hhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhh-hcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCC
Q 040295          110 EFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSID-LQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADP  188 (289)
Q Consensus       110 ~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~-~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~  188 (289)
                      .|......+++.+|++++|+|++++..     .|...+. .....|+++|+||+|+.+....     ..           
T Consensus        23 ~~~~~l~~~~~~ad~il~VvD~~~~~~-----~~~~~l~~~~~~~~~ilV~NK~Dl~~~~~~-----~~-----------   81 (190)
T cd01855          23 FILNLLSSISPKKALVVHVVDIFDFPG-----SLIPRLRLFGGNNPVILVGNKIDLLPKDKN-----LV-----------   81 (190)
T ss_pred             HHHHHHHhcccCCcEEEEEEECccCCC-----ccchhHHHhcCCCcEEEEEEchhcCCCCCC-----HH-----------
Confidence            357777888999999999999987541     1222221 1234588999999999642110     00           


Q ss_pred             cccCCCCCcccCCCCCCCCCCcHHHHHHHHHHH-----HHcCC---eEEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          189 DFCQSGISETEGSSLLGDEEPSWEIRRSCLEWC-----TEHRI---EYIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~---~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                                                 ....|+     ...++   +++++||+++            +|++++++.|..
T Consensus        82 ---------------------------~~~~~~~~~~~~~~~~~~~~i~~vSA~~~------------~gi~eL~~~l~~  122 (190)
T cd01855          82 ---------------------------RIKNWLRAKAAAGLGLKPKDVILISAKKG------------WGVEELINAIKK  122 (190)
T ss_pred             ---------------------------HHHHHHHHHHHhhcCCCcccEEEEECCCC------------CCHHHHHHHHHH
Confidence                                       022232     22333   5899999999            999999999988


Q ss_pred             hc
Q 040295          261 HM  262 (289)
Q Consensus       261 ~~  262 (289)
                      .+
T Consensus       123 ~l  124 (190)
T cd01855         123 LA  124 (190)
T ss_pred             Hh
Confidence            54

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.

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=98.47  E-value=2e-06  Score=78.41  Aligned_cols=28  Identities=32%  Similarity=0.542  Sum_probs=23.4

Q ss_pred             cccCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           44 ASLEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        44 ~~~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .-.....-|+++|..|+|||||++||..
T Consensus        14 ~~~~~p~~ilVvGMAGSGKTTF~QrL~~   41 (366)
T KOG1532|consen   14 GAIQRPVIILVVGMAGSGKTTFMQRLNS   41 (366)
T ss_pred             ccccCCcEEEEEecCCCCchhHHHHHHH
Confidence            3455567899999999999999999874

>cd01859 MJ1464 MJ1464

Probab=98.44  E-value=6.6e-07  Score=74.65  Aligned_cols=93  Identities=16%  Similarity=0.072  Sum_probs=62.0

Q ss_pred             hccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCccc
Q 040295          112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFC  191 (289)
Q Consensus       112 ~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~  191 (289)
                      +.+.+++.+++|++|+|+|.+++...... .+...+.. ...|+++|+||+|+.+.     +..+.              
T Consensus         3 ~~~~~~i~~~aD~vl~V~D~~~~~~~~~~-~l~~~~~~-~~~p~iiv~NK~Dl~~~-----~~~~~--------------   61 (156)
T cd01859           3 KRLVRRIIKESDVVLEVLDARDPELTRSR-KLERYVLE-LGKKLLIVLNKADLVPK-----EVLEK--------------   61 (156)
T ss_pred             HHHHHHHHhhCCEEEEEeeCCCCcccCCH-HHHHHHHh-CCCcEEEEEEhHHhCCH-----HHHHH--------------
Confidence            44556778889999999999876433221 22222222 24589999999999531     01111              


Q ss_pred             CCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          192 QSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       192 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                               ...+....+.+++.+||+++            .|++++++.|.+.+
T Consensus        62 -------------------------~~~~~~~~~~~~~~iSa~~~------------~gi~~L~~~l~~~~   95 (156)
T cd01859          62 -------------------------WKSIKESEGIPVVYVSAKER------------LGTKILRRTIKELA   95 (156)
T ss_pred             -------------------------HHHHHHhCCCcEEEEEcccc------------ccHHHHHHHHHHHH
Confidence                                     11333445678999999999            99999999998754

This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.

>smart00275 G_alpha G protein alpha subunit

Probab=98.43  E-value=3.2e-06  Score=80.12  Aligned_cols=137  Identities=15%  Similarity=0.171  Sum_probs=83.9

Q ss_pred             eEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCH----------hhHHHHHHHHHHhhh---cCCCeEEEEeeCCC
Q 040295           97 TADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDL----------STLDALKHWVPSIDL---QKFEILLCIGNKVD  163 (289)
Q Consensus        97 ~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~----------~S~~~l~~~~~~i~~---~~~~~iivvgnK~D  163 (289)
                      ...+.+||.+|+...+..|.+++.+++++|||.|+++.          ..++.....+..+-.   ....|+||++||.|
T Consensus       183 ~~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~piil~~NK~D  262 (342)
T smart00275      183 KLFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSIILFLNKID  262 (342)
T ss_pred             CeEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcEEEEEecHH
Confidence            35689999999999999999999999999999999963          344444444444432   23349999999999


Q ss_pred             CCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHH---cCCeEEEeecCCCcccc
Q 040295          164 LLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTE---HRIEYIEACASNVDFDK  240 (289)
Q Consensus       164 l~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~ie~Sa~~~~~~~  240 (289)
                      +.         .+++.+-..+.+-|++-        |.  .+.++...-+++.-......   ..+-...+||.+-    
T Consensus       263 ~~---------~~Kl~~~~l~~~fp~y~--------g~--~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt----  319 (342)
T smart00275      263 LF---------EEKIKKVPLVDYFPDYK--------GP--NDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDT----  319 (342)
T ss_pred             hH---------HHHhCCCchhccCCCCC--------CC--CCHHHHHHHHHHHHHHhccCCCCceEEEEEeeeccc----
Confidence            96         33332222222334431        10  01111111122222222221   1233556888877    


Q ss_pred             cccCCCCchhHHHHHHHHHHhccc
Q 040295          241 CLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       241 ~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                              .++..+|..+...++.
T Consensus       320 --------~~~~~v~~~v~~~I~~  335 (342)
T smart00275      320 --------RNIRVVFDAVKDIILQ  335 (342)
T ss_pred             --------HHHHHHHHHHHHHHHH
Confidence                    8999999988776654

Subunit of G proteins that contains the guanine nucleotide binding site

>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=98.43  E-value=4.2e-06  Score=79.09  Aligned_cols=137  Identities=18%  Similarity=0.253  Sum_probs=82.6

Q ss_pred             EEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhH-------HHHH---HHHHHhhhc---CCCeEEEEeeCCCC
Q 040295           98 ADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTL-------DALK---HWVPSIDLQ---KFEILLCIGNKVDL  164 (289)
Q Consensus        98 ~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~-------~~l~---~~~~~i~~~---~~~~iivvgnK~Dl  164 (289)
                      ..+.++|++||..-+.-|.+.+.+++++|||.+++..+-.       ..+.   .+.+.|-..   ...++|+..||.||
T Consensus       195 ~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~tsiiLFLNK~DL  274 (354)
T KOG0082|consen  195 LKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFANTSIILFLNKKDL  274 (354)
T ss_pred             CceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCcccccCcEEEEeecHHH
Confidence            5688999999988888888899999999999998843222       1222   233344322   23389999999999


Q ss_pred             CCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHc--CCeEEEeecCCCcccccc
Q 040295          165 LPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEH--RIEYIEACASNVDFDKCL  242 (289)
Q Consensus       165 ~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~ie~Sa~~~~~~~~~  242 (289)
                      ..         .++.+.....+=|++  .|.+        ..++...-++.+-.++....  .+=+..++|.+-      
T Consensus       275 Fe---------EKi~~~~~~~~Fpdy--~G~~--------~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT------  329 (354)
T KOG0082|consen  275 FE---------EKIKKVPLTDCFPDY--KGVN--------TYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDT------  329 (354)
T ss_pred             HH---------HHhccCchhhhCcCC--CCCC--------ChHHHHHHHHHHHHHHhcccCCcceEEEEeeccH------
Confidence            74         223222222233333  0111        22233333333333333333  222446788776      


Q ss_pred             cCCCCchhHHHHHHHHHHhcccC
Q 040295          243 SIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       243 ~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                            .+|+.+|.++...++.+
T Consensus       330 ------~nv~~vf~av~d~Ii~~  346 (354)
T KOG0082|consen  330 ------QNVQFVFDAVTDTIIQN  346 (354)
T ss_pred             ------HHHHHHHHHHHHHHHHH
Confidence                  89999999998877543

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

Probab=98.42  E-value=1.8e-06  Score=87.11  Aligned_cols=117  Identities=10%  Similarity=-0.004  Sum_probs=70.1

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCC---CCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc-------c-
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDAS---DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI-------R-  114 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~---~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~-------~-  114 (289)
                      ....++|+++|.+||||||++|.+++.......   ..|...  ........  ...+.++||||......       + 
T Consensus       115 LdfslrIvLVGKTGVGKSSLINSILGekvf~vss~~~~TTr~--~ei~~~id--G~~L~VIDTPGL~dt~~dq~~neeIL  190 (763)
T TIGR00993       115 LDFSLNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTSV--QEIEGLVQ--GVKIRVIDTPGLKSSASDQSKNEKIL  190 (763)
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhccccccccCCCCCceEE--EEEEEEEC--CceEEEEECCCCCccccchHHHHHHH
Confidence            455678999999999999999999998643221   122221  11111122  24689999999653311       1 


Q ss_pred             --cccccc--CccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCC----eEEEEeeCCCCCC
Q 040295          115 --SLPISD--QLTALVMVFNLNDLSTLDALKHWVPSIDLQKFE----ILLCIGNKVDLLP  166 (289)
Q Consensus       115 --~~~~~~--~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~----~iivvgnK~Dl~~  166 (289)
                        ...+++  .+|++|+|..++.......-..++..+...-++    -+|||.+..|..+
T Consensus       191 k~Ik~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lp  250 (763)
T TIGR00993       191 SSVKKFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAP  250 (763)
T ss_pred             HHHHHHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCC
Confidence              112333  579999999876332221222344444433222    5788899999886

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.

>PRK12289 GTPase RsgA; Reviewed

Probab=98.40  E-value=1.4e-06  Score=82.82  Aligned_cols=96  Identities=14%  Similarity=0.128  Sum_probs=69.4

Q ss_pred             hhhccccccccCccEEEEEEeCCCHh-hHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCC
Q 040295          110 EFSIRSLPISDQLTALVMVFNLNDLS-TLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADP  188 (289)
Q Consensus       110 ~~~~~~~~~~~~ad~vIlV~Dv~~~~-S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~  188 (289)
                      +-..+....++++|.+++|||+.++. .+..+..|+..+...+ .|+++|+||+||.+.     +....           
T Consensus        78 R~~~L~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~~~-ip~ILVlNK~DLv~~-----~~~~~-----------  140 (352)
T PRK12289         78 RKTELDRPPVANADQILLVFALAEPPLDPWQLSRFLVKAESTG-LEIVLCLNKADLVSP-----TEQQQ-----------  140 (352)
T ss_pred             cccceechhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHHHCC-CCEEEEEEchhcCCh-----HHHHH-----------
Confidence            44445556688999999999998775 5557788887765433 467889999999631     00010           


Q ss_pred             cccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          189 DFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                                  ........+++++++||+++            .|++++++.|...+
T Consensus       141 ----------------------------~~~~~~~~g~~v~~iSA~tg------------~GI~eL~~~L~~ki  174 (352)
T PRK12289        141 ----------------------------WQDRLQQWGYQPLFISVETG------------IGLEALLEQLRNKI  174 (352)
T ss_pred             ----------------------------HHHHHHhcCCeEEEEEcCCC------------CCHHHHhhhhccce
Confidence                                        22334567889999999999            99999999987644

>smart00053 DYNc Dynamin, GTPase

Probab=98.40  E-value=2.9e-06  Score=76.67  Aligned_cols=26  Identities=27%  Similarity=0.663  Sum_probs=23.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      ...|+++|+.|+||||+++.+.+..+
T Consensus        26 ~p~i~vvG~~~~GKSt~l~~i~g~~~   51 (240)
T smart00053       26 LPQIAVVGGQSAGKSSVLENFVGRDF   51 (240)
T ss_pred             CCeEEEEcCCCccHHHHHHHHhCCCc
Confidence            36899999999999999999998763

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

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.39  E-value=8.3e-07  Score=84.68  Aligned_cols=98  Identities=20%  Similarity=0.290  Sum_probs=69.8

Q ss_pred             chhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhc-CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCC
Q 040295          108 HEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQ-KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSA  186 (289)
Q Consensus       108 ~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~-~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~  186 (289)
                      .+.|..+...+.+.++++++|+|+.+..     ..|...+... ...|+++|+||+|+.+....                
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~-----~s~~~~l~~~~~~~piilV~NK~DLl~k~~~----------------  108 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFE-----GSLIPELKRFVGGNPVLLVGNKIDLLPKSVN----------------  108 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCC-----CCccHHHHHHhCCCCEEEEEEchhhCCCCCC----------------
Confidence            5688888888889999999999997653     2344555443 34589999999999753210                


Q ss_pred             CCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCC---eEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          187 DPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRI---EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       187 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                             .....+...+++..+++   .++++||+++            +|+++++..|.+.
T Consensus       109 -----------------------~~~~~~~l~~~~k~~g~~~~~i~~vSAk~g------------~gv~eL~~~l~~~  151 (360)
T TIGR03597       109 -----------------------LSKIKEWMKKRAKELGLKPVDIILVSAKKG------------NGIDELLDKIKKA  151 (360)
T ss_pred             -----------------------HHHHHHHHHHHHHHcCCCcCcEEEecCCCC------------CCHHHHHHHHHHH
Confidence                                   11111223455677776   3899999999            9999999999753

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.

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.35  E-value=2.3e-06  Score=79.12  Aligned_cols=88  Identities=19%  Similarity=0.194  Sum_probs=67.5

Q ss_pred             ccccCccEEEEEEeCCCHh-hHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCC
Q 040295          117 PISDQLTALVMVFNLNDLS-TLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGI  195 (289)
Q Consensus       117 ~~~~~ad~vIlV~Dv~~~~-S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~  195 (289)
                      ..+.++|.+++|+|++++. ++..+..|+..+...+ .|+++|+||+||.+.      .....                 
T Consensus        74 ~i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~~~-ip~iIVlNK~DL~~~------~~~~~-----------------  129 (287)
T cd01854          74 VIAANVDQLVIVVSLNEPFFNPRLLDRYLVAAEAAG-IEPVIVLTKADLLDD------EEEEL-----------------  129 (287)
T ss_pred             eEEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHHcC-CCEEEEEEHHHCCCh------HHHHH-----------------
Confidence            4578999999999999888 8899999998776654 467779999999642      01111                 


Q ss_pred             CcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          196 SETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                           ...+....+++++++||+++            .|+++++..|...
T Consensus       130 ---------------------~~~~~~~~g~~v~~vSA~~g------------~gi~~L~~~L~~k  162 (287)
T cd01854         130 ---------------------ELVEALALGYPVLAVSAKTG------------EGLDELREYLKGK  162 (287)
T ss_pred             ---------------------HHHHHHhCCCeEEEEECCCC------------ccHHHHHhhhccc
Confidence                                 23344557889999999999            9999999887753

YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=98.32  E-value=7.6e-06  Score=77.21  Aligned_cols=115  Identities=15%  Similarity=0.197  Sum_probs=73.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCC----------CCCCcceEEeeEEeecCcceEEEEEEEcCCchhh-------
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDA----------SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF-------  111 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~----------~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~-------  111 (289)
                      .+.|++||++|.|||||+|.|++......          ..+++........+..++..+.+.+.||||--.+       
T Consensus        23 ~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~idNs~~w  102 (373)
T COG5019          23 DFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDNSKCW  102 (373)
T ss_pred             ceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCccccccccccH
Confidence            48899999999999999999998743221          2345555666777788888999999999983111       


Q ss_pred             -------hcccccc------------c--cCccEEEEEEeCCCHhhHHHHH-HHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          112 -------SIRSLPI------------S--DQLTALVMVFNLNDLSTLDALK-HWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       112 -------~~~~~~~------------~--~~ad~vIlV~Dv~~~~S~~~l~-~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                             ......|            +  ..+||+++....+ +..+..++ ..+..+...  .-+|-|.-|+|.+.
T Consensus       103 e~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Pt-gh~l~~~DIe~Mk~ls~~--vNlIPVI~KaD~lT  176 (373)
T COG5019         103 EPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPT-GHGLKPLDIEAMKRLSKR--VNLIPVIAKADTLT  176 (373)
T ss_pred             HHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCC-CCCCCHHHHHHHHHHhcc--cCeeeeeeccccCC
Confidence                   0000111            1  1367888888765 33333333 222223222  23566778999986

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.31  E-value=1.2e-06  Score=72.27  Aligned_cols=54  Identities=19%  Similarity=0.132  Sum_probs=36.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCc
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLH  108 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~  108 (289)
                      +++++|.+|||||||+|++.+..+.. .....+.......+..+.   .+.+|||||.
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~~-~~~~~~~~~~~~~~~~~~---~~~i~DtpG~  138 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKVS-VSATPGKTKHFQTIFLTP---TITLCDCPGL  138 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcee-eCCCCCcccceEEEEeCC---CEEEEECCCc
Confidence            89999999999999999999887642 222222222222222222   4799999995

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.

>PRK00098 GTPase RsgA; Reviewed

Probab=98.30  E-value=3.3e-06  Score=78.48  Aligned_cols=87  Identities=18%  Similarity=0.222  Sum_probs=63.5

Q ss_pred             ccCccEEEEEEeCCCHhhHHH-HHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCc
Q 040295          119 SDQLTALVMVFNLNDLSTLDA-LKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISE  197 (289)
Q Consensus       119 ~~~ad~vIlV~Dv~~~~S~~~-l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~  197 (289)
                      .+++|++++|+|++++..+.. +..|+..+... ..|+++|+||+|+...       ....                   
T Consensus        78 aaniD~vllV~d~~~p~~~~~~idr~L~~~~~~-~ip~iIVlNK~DL~~~-------~~~~-------------------  130 (298)
T PRK00098         78 AANVDQAVLVFAAKEPDFSTDLLDRFLVLAEAN-GIKPIIVLNKIDLLDD-------LEEA-------------------  130 (298)
T ss_pred             eecCCEEEEEEECCCCCCCHHHHHHHHHHHHHC-CCCEEEEEEhHHcCCC-------HHHH-------------------
Confidence            588999999999988866544 57888777653 3467789999999521       0111                   


Q ss_pred             ccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          198 TEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       198 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                       .....+....+++++++||+++            .|++++++.|...
T Consensus       131 -----------------~~~~~~~~~~g~~v~~vSA~~g------------~gi~~L~~~l~gk  165 (298)
T PRK00098        131 -----------------RELLALYRAIGYDVLELSAKEG------------EGLDELKPLLAGK  165 (298)
T ss_pred             -----------------HHHHHHHHHCCCeEEEEeCCCC------------ccHHHHHhhccCc
Confidence                             0133455567889999999999            9999999887643

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=98.24  E-value=2.5e-05  Score=75.22  Aligned_cols=122  Identities=20%  Similarity=0.221  Sum_probs=81.4

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhc--CCCCC----------C--------CCCCcceEEeeEEeecCcceEEEEEEEc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLS--VNFED----------A--------SDSSSELLVNGWTINTKYYTADVSLWMA  105 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~--~~~~~----------~--------~~~t~~~~~~~~~i~~~~~~~~l~I~Dt  105 (289)
                      ..++-.++|+..|.+|||||-.+++-  +-...          .        ....-|....+-.+..+|..+.+++.||
T Consensus         9 v~rRRTFAIISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMqF~Y~~~~iNLLDT   88 (528)
T COG4108           9 VARRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFDYADCLVNLLDT   88 (528)
T ss_pred             HhhhcceeEEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEEeccCCeEEeccCC
Confidence            34445699999999999999999873  11100          0        0111222233334455666788999999


Q ss_pred             CCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCC
Q 040295          106 HLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHP  169 (289)
Q Consensus       106 ~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~  169 (289)
                      ||++.|..-....+..+|++|+|.|.-..-.-+.++  +-.+-+.+..||+-..||.|-....+
T Consensus        89 PGHeDFSEDTYRtLtAvDsAvMVIDaAKGiE~qT~K--LfeVcrlR~iPI~TFiNKlDR~~rdP  150 (528)
T COG4108          89 PGHEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQTLK--LFEVCRLRDIPIFTFINKLDREGRDP  150 (528)
T ss_pred             CCccccchhHHHHHHhhheeeEEEecccCccHHHHH--HHHHHhhcCCceEEEeeccccccCCh
Confidence            999999876666678899999999987542222221  23345556668999999999865443

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=98.22  E-value=1.2e-06  Score=79.41  Aligned_cols=56  Identities=23%  Similarity=0.190  Sum_probs=32.8

Q ss_pred             EEEEEEEcCC--chhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCC
Q 040295           98 ADVSLWMAHL--HEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDL  164 (289)
Q Consensus        98 ~~l~I~Dt~G--~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl  164 (289)
                      +++.|..|.|  |....     ...-+|.+++|.-..-.+..+.++.=+.++-.      |+|.||.|.
T Consensus       122 ~D~IiiETVGvGQsE~~-----I~~~aD~~v~v~~Pg~GD~iQ~~KaGimEiaD------i~vVNKaD~  179 (266)
T PF03308_consen  122 FDVIIIETVGVGQSEVD-----IADMADTVVLVLVPGLGDEIQAIKAGIMEIAD------IFVVNKADR  179 (266)
T ss_dssp             -SEEEEEEESSSTHHHH-----HHTTSSEEEEEEESSTCCCCCTB-TTHHHH-S------EEEEE--SH
T ss_pred             CCEEEEeCCCCCccHHH-----HHHhcCeEEEEecCCCccHHHHHhhhhhhhcc------EEEEeCCCh
Confidence            4566677764  55442     34568999999987766666555543334432      558999996

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=98.22  E-value=1e-05  Score=70.35  Aligned_cols=23  Identities=22%  Similarity=0.309  Sum_probs=20.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .++|.|.|++|+|||+|+.+++.
T Consensus        13 ~~~i~v~Gp~GSGKTaLie~~~~   35 (202)
T COG0378          13 MLRIGVGGPPGSGKTALIEKTLR   35 (202)
T ss_pred             eEEEEecCCCCcCHHHHHHHHHH
Confidence            37899999999999999999774

>PRK12288 GTPase RsgA; Reviewed

Probab=98.21  E-value=1e-05  Score=76.92  Aligned_cols=90  Identities=18%  Similarity=0.238  Sum_probs=66.7

Q ss_pred             ccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcc
Q 040295          119 SDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISET  198 (289)
Q Consensus       119 ~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~  198 (289)
                      ..++|.+++||+++...++..+..|+..+...+. |+++|+||+||.+..     ....+                    
T Consensus       118 aANvD~vlIV~s~~p~~s~~~Ldr~L~~a~~~~i-~~VIVlNK~DL~~~~-----~~~~~--------------------  171 (347)
T PRK12288        118 AANIDQIVIVSAVLPELSLNIIDRYLVACETLGI-EPLIVLNKIDLLDDE-----GRAFV--------------------  171 (347)
T ss_pred             EEEccEEEEEEeCCCCCCHHHHHHHHHHHHhcCC-CEEEEEECccCCCcH-----HHHHH--------------------
Confidence            4669999999999999999999999886654443 566799999996421     00111                    


Q ss_pred             cCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          199 EGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                      ..........+++++++||+++            +|++++++.|...+
T Consensus       172 ----------------~~~~~~y~~~g~~v~~vSA~tg------------~GideL~~~L~~ki  207 (347)
T PRK12288        172 ----------------NEQLDIYRNIGYRVLMVSSHTG------------EGLEELEAALTGRI  207 (347)
T ss_pred             ----------------HHHHHHHHhCCCeEEEEeCCCC------------cCHHHHHHHHhhCC
Confidence                            0122333456789999999999            99999999987644

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=98.18  E-value=5.8e-05  Score=71.59  Aligned_cols=84  Identities=20%  Similarity=0.070  Sum_probs=53.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCC-CCCCC-CcceEEeeEEee--------------cCcceEEEEEEEcCCc----
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFE-DASDS-SSELLVNGWTIN--------------TKYYTADVSLWMAHLH----  108 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~-~~~~~-t~~~~~~~~~i~--------------~~~~~~~l~I~Dt~G~----  108 (289)
                      .+++.|+|-||||||||+|.++..... ..|+. |+.....-..+.              ..-....+++.|++|.    
T Consensus         2 ~l~~GIVGlPNVGKSTlFnAlT~~~a~~aNYPF~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~GA   81 (372)
T COG0012           2 SLKIGIVGLPNVGKSTLFNALTKAGAEIANYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVKGA   81 (372)
T ss_pred             CceeEEecCCCCcHHHHHHHHHcCCccccCCCcccccCCeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEecccCCCc
Confidence            378999999999999999999987743 22332 222222111111              0112345789999974    


Q ss_pred             hhhhcccccc---ccCccEEEEEEeCC
Q 040295          109 EEFSIRSLPI---SDQLTALVMVFNLN  132 (289)
Q Consensus       109 e~~~~~~~~~---~~~ad~vIlV~Dv~  132 (289)
                      ..-..+.+.+   ++.+|+++.|+++.
T Consensus        82 s~GeGLGNkFL~~IRevdaI~hVVr~f  108 (372)
T COG0012          82 SKGEGLGNKFLDNIREVDAIIHVVRCF  108 (372)
T ss_pred             ccCCCcchHHHHhhhhcCeEEEEEEec
Confidence            2223344444   67899999999865

>cd01900 YchF YchF subfamily

Probab=98.16  E-value=2.9e-06  Score=78.03  Aligned_cols=80  Identities=20%  Similarity=0.076  Sum_probs=49.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCCC-CCC-CcceEEeeEEeecCc-------------ceEEEEEEEcCCchhh----h
Q 040295           52 ILIIGSSNVGKRTILSRLLSVNFEDA-SDS-SSELLVNGWTINTKY-------------YTADVSLWMAHLHEEF----S  112 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~~~~~~~-~~~-t~~~~~~~~~i~~~~-------------~~~~l~I~Dt~G~e~~----~  112 (289)
                      |+|+|.+|||||||+|++++.+.... +.. |.........+....             ....+.++|+||.-.-    .
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a~~~~   80 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGE   80 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCCccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCchhh
Confidence            57999999999999999999875322 222 223222222222210             1235899999995321    1


Q ss_pred             cccc---ccccCccEEEEEEeC
Q 040295          113 IRSL---PISDQLTALVMVFNL  131 (289)
Q Consensus       113 ~~~~---~~~~~ad~vIlV~Dv  131 (289)
                      .+..   ..++.+|++++|+|+
T Consensus        81 glg~~fL~~i~~~D~li~VV~~  102 (274)
T cd01900          81 GLGNKFLSHIREVDAIAHVVRC  102 (274)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeC
Confidence            1112   235789999999986

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.

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=98.15  E-value=3.6e-06  Score=78.24  Aligned_cols=154  Identities=14%  Similarity=0.141  Sum_probs=98.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCC--CCCCcceEEeeEEeecCcceEEEEEEEcCCc---------hhhhccccc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDA--SDSSSELLVNGWTINTKYYTADVSLWMAHLH---------EEFSIRSLP  117 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~--~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~---------e~~~~~~~~  117 (289)
                      -.-|.++|-.|||||||++.|......+.  --.|...+.....+...   ..+.+.||-|-         ..|.+-. .
T Consensus       178 ~pviavVGYTNaGKsTLikaLT~Aal~p~drLFATLDpT~h~a~Lpsg---~~vlltDTvGFisdLP~~LvaAF~ATL-e  253 (410)
T KOG0410|consen  178 SPVIAVVGYTNAGKSTLIKALTKAALYPNDRLFATLDPTLHSAHLPSG---NFVLLTDTVGFISDLPIQLVAAFQATL-E  253 (410)
T ss_pred             CceEEEEeecCccHHHHHHHHHhhhcCccchhheeccchhhhccCCCC---cEEEEeechhhhhhCcHHHHHHHHHHH-H
Confidence            36799999999999999999996554322  22344433333333333   24778899873         3444322 2


Q ss_pred             cccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCC------eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCccc
Q 040295          118 ISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFE------ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFC  191 (289)
Q Consensus       118 ~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~------~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~  191 (289)
                      -+..+|.++-|.|+++|.--+....-+.-+.....+      .+|=|=||+|..+.-.                      
T Consensus       254 eVaeadlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~~~----------------------  311 (410)
T KOG0410|consen  254 EVAEADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEEDEV----------------------  311 (410)
T ss_pred             HHhhcceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhccccccccccC----------------------
Confidence            356799999999999987666555544444444332      3455789999854211                      


Q ss_pred             CCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCccccc
Q 040295          192 QSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKS  270 (289)
Q Consensus       192 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~  270 (289)
                                   +.+               +++  -+-.||++|            .|++++..++-+.....+..++
T Consensus       312 -------------e~E---------------~n~--~v~isaltg------------dgl~el~~a~~~kv~~~t~~~e  348 (410)
T KOG0410|consen  312 -------------EEE---------------KNL--DVGISALTG------------DGLEELLKAEETKVASETTVDE  348 (410)
T ss_pred             -------------ccc---------------cCC--ccccccccC------------ccHHHHHHHHHHHhhhhheeee
Confidence                         111               122  355699999            9999999988887766665555

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.14  E-value=2e-05  Score=75.88  Aligned_cols=152  Identities=16%  Similarity=0.092  Sum_probs=101.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCC---CC--CCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFE---DA--SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~---~~--~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      -|+..|.---|||||++.+.+..-.   +.  ...|+...|+++....    ..+.+.|+||+++|-...-.-+...|.+
T Consensus         2 ii~t~GhidHgkT~L~~altg~~~d~l~EekKRG~TiDlg~~y~~~~d----~~~~fIDvpgh~~~i~~miag~~~~d~a   77 (447)
T COG3276           2 IIGTAGHIDHGKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYRKLED----GVMGFIDVPGHPDFISNLLAGLGGIDYA   77 (447)
T ss_pred             eEEEeeeeeccchhhhhhhcccccccchhhhhcCceEeeeeEeccCCC----CceEEeeCCCcHHHHHHHHhhhcCCceE
Confidence            3677888899999999999876532   11  2334444444443322    2689999999998865554556678999


Q ss_pred             EEEEeCC---CHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          126 VMVFNLN---DLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       126 IlV~Dv~---~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      +||.|.+   .+++.+.+.    -++..+.+..++|.+|+|......     ..+.                        
T Consensus        78 lLvV~~deGl~~qtgEhL~----iLdllgi~~giivltk~D~~d~~r-----~e~~------------------------  124 (447)
T COG3276          78 LLVVAADEGLMAQTGEHLL----ILDLLGIKNGIIVLTKADRVDEAR-----IEQK------------------------  124 (447)
T ss_pred             EEEEeCccCcchhhHHHHH----HHHhcCCCceEEEEeccccccHHH-----HHHH------------------------
Confidence            9999996   455555543    244555566788999999975311     1111                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                 .+++......-..++|.+|+++|            +||+++..+|....
T Consensus       125 -----------i~~Il~~l~l~~~~i~~~s~~~g------------~GI~~Lk~~l~~L~  161 (447)
T COG3276         125 -----------IKQILADLSLANAKIFKTSAKTG------------RGIEELKNELIDLL  161 (447)
T ss_pred             -----------HHHHHhhcccccccccccccccC------------CCHHHHHHHHHHhh
Confidence                       11112222223457899999999            99999999998865

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=98.14  E-value=5.3e-06  Score=83.06  Aligned_cols=118  Identities=18%  Similarity=0.175  Sum_probs=81.4

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCC---------Cc--------ceEEeeEEe---ecCcceEEEEEEEc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDS---------SS--------ELLVNGWTI---NTKYYTADVSLWMA  105 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~---------t~--------~~~~~~~~i---~~~~~~~~l~I~Dt  105 (289)
                      .+....|+++|+-..|||+|+..|..+..+..+..         +.        .....+.++   ..+++.+-+++.||
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            44556799999999999999999987654332111         11        111111111   23567788999999


Q ss_pred             CCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCC
Q 040295          106 HLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLL  165 (289)
Q Consensus       106 ~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~  165 (289)
                      ||+-.|..-....++.+|++|+|+|+-..-.++.-+-....++  +..|+.+|.||+|.+
T Consensus       205 PGHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlntEr~ikhaiq--~~~~i~vviNKiDRL  262 (971)
T KOG0468|consen  205 PGHVNFSDETTASLRLSDGVVLVVDVAEGVMLNTERIIKHAIQ--NRLPIVVVINKVDRL  262 (971)
T ss_pred             CCcccchHHHHHHhhhcceEEEEEEcccCceeeHHHHHHHHHh--ccCcEEEEEehhHHH
Confidence            9999887766677889999999999998777754433222232  223788899999986

>cd01859 MJ1464 MJ1464

Probab=98.13  E-value=8.5e-06  Score=67.91  Aligned_cols=57  Identities=18%  Similarity=0.190  Sum_probs=39.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLH  108 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~  108 (289)
                      ...+++++|.+|+|||||++++.+... ..+.++.+.+.....+...   ..+.+|||||.
T Consensus       100 ~~~~~~~ig~~~~Gkssl~~~l~~~~~-~~~~~~~~~t~~~~~~~~~---~~~~~~DtpGi  156 (156)
T cd01859         100 KEGKVGVVGYPNVGKSSIINALKGRHS-ASTSPSPGYTKGEQLVKIT---SKIYLLDTPGV  156 (156)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCc-cccCCCCCeeeeeEEEEcC---CCEEEEECcCC
Confidence            457899999999999999999997653 3444555544322222222   14899999983

This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.

>cd01858 NGP_1 NGP-1

Probab=98.11  E-value=8.7e-06  Score=68.13  Aligned_cols=57  Identities=21%  Similarity=0.072  Sum_probs=36.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLH  108 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~  108 (289)
                      ..++|+++|.+|||||||+|++.+...... ..+.+.+.....+....   .+.+.||||.
T Consensus       101 ~~~~v~~~G~~nvGKStliN~l~~~~~~~~-~~~~g~T~~~~~~~~~~---~~~liDtPGi  157 (157)
T cd01858         101 KQISVGFIGYPNVGKSSIINTLRSKKVCKV-APIPGETKVWQYITLMK---RIYLIDCPGV  157 (157)
T ss_pred             cceEEEEEeCCCCChHHHHHHHhcCCceee-CCCCCeeEeEEEEEcCC---CEEEEECcCC
Confidence            357899999999999999999998764322 22333322222222211   2679999983

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.

>cd01856 YlqF YlqF

Probab=98.11  E-value=7.5e-06  Score=69.63  Aligned_cols=57  Identities=18%  Similarity=0.179  Sum_probs=38.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLH  108 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~  108 (289)
                      ..++++++|.+|||||||++++.+..+. ......+.++....+...   ..+.+|||||.
T Consensus       114 ~~~~~~~~G~~~vGKstlin~l~~~~~~-~~~~~~~~T~~~~~~~~~---~~~~~iDtpG~  170 (171)
T cd01856         114 RGIRAMVVGIPNVGKSTLINRLRGKKVA-KVGNKPGVTKGIQWIKIS---PGIYLLDTPGI  170 (171)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCce-eecCCCCEEeeeEEEEec---CCEEEEECCCC
Confidence            4579999999999999999999987763 222222222222222222   24789999994

Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.

>COG4598 HisP ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.09  E-value=1.6e-05  Score=68.74  Aligned_cols=166  Identities=17%  Similarity=0.179  Sum_probs=102.2

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCc--
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLH--  108 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~--  108 (289)
                      ..||..+++++.+.....+--|.|+|.+|+|||||++.+---+-     ++.|      .|..++..+.+. -|..|+  
T Consensus        14 K~~G~~eVLKGvSL~A~~GdVisIIGsSGSGKSTfLRCiN~LE~-----P~~G------~I~v~geei~~k-~~~~G~l~   81 (256)
T COG4598          14 KRYGEHEVLKGVSLQANAGDVISIIGSSGSGKSTFLRCINFLEK-----PSAG------SIRVNGEEIRLK-RDKDGQLK   81 (256)
T ss_pred             hhcccchhhcceeeecCCCCEEEEecCCCCchhHHHHHHHhhcC-----CCCc------eEEECCeEEEee-eCCCCCee
Confidence            57999999999999999999999999999999999998854332     2333      122222222211 122221  


Q ss_pred             -------hhhhccc----ccc--------ccC-ccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCC
Q 040295          109 -------EEFSIRS----LPI--------SDQ-LTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGH  168 (289)
Q Consensus       109 -------e~~~~~~----~~~--------~~~-ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~  168 (289)
                             ++.++..    +++        +.+ ..+-+-|..++..+..+.+..++.++.         +.+|.|.-+..
T Consensus        82 ~ad~~q~~r~Rs~L~mVFQ~FNLWsHmtvLeNViEaPvhVLg~~k~ea~e~Ae~~L~kVG---------i~ek~~~YP~~  152 (256)
T COG4598          82 PADKRQLQRLRTRLGMVFQHFNLWSHMTVLENVIEAPVHVLGVSKAEAIERAEKYLAKVG---------IAEKADAYPAH  152 (256)
T ss_pred             eCCHHHHHHHHHHhhHhhhhcchhHHHHHHHHHHhcchHhhcCCHHHHHHHHHHHHHHhC---------chhhhhcCccc
Confidence                   2222111    111        111 235566777777777777777776664         35666655544


Q ss_pred             CchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEE--EeecCCCcccccccCCC
Q 040295          169 PVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYI--EACASNVDFDKCLSIDG  246 (289)
Q Consensus       169 ~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i--e~Sa~~~~~~~~~~~~~  246 (289)
                      ....+.+|..                                     -++.+|.+-.+-+|  .+||.+.          
T Consensus       153 LSGGQQQR~a-------------------------------------IARaLameP~vmLFDEPTSALDP----------  185 (256)
T COG4598         153 LSGGQQQRVA-------------------------------------IARALAMEPEVMLFDEPTSALDP----------  185 (256)
T ss_pred             cCchHHHHHH-------------------------------------HHHHHhcCCceEeecCCcccCCH----------
Confidence            4333333333                                     16677776666555  3899988          


Q ss_pred             CchhHHHHHHHHHHhcccCc
Q 040295          247 DSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       247 ~~~~i~~l~~~L~~~~~~~~  266 (289)
                        +-+-+++..+-+..-+.+
T Consensus       186 --ElVgEVLkv~~~LAeEgr  203 (256)
T COG4598         186 --ELVGEVLKVMQDLAEEGR  203 (256)
T ss_pred             --HHHHHHHHHHHHHHHhCC
Confidence              888888887776655444

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=98.06  E-value=1.5e-05  Score=73.68  Aligned_cols=28  Identities=25%  Similarity=0.330  Sum_probs=23.4

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .....+-|.|+|++|+|||||++++++.
T Consensus       100 ~~~~~~~v~l~G~pGsGKTTLl~~l~~~  127 (290)
T PRK10463        100 AARKQLVLNLVSSPGSGKTTLLTETLMR  127 (290)
T ss_pred             HhcCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3455678999999999999999988764

>KOG1547 consensus Septin CDC10 and related P-loop GTPases [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms; Cytoskeleton]

Probab=98.06  E-value=5.9e-05  Score=67.75  Aligned_cols=66  Identities=17%  Similarity=0.209  Sum_probs=49.9

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCC---------CCCCCcceEEeeEEeecCcceEEEEEEEcCCc
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLSVNFED---------ASDSSSELLVNGWTINTKYYTADVSLWMAHLH  108 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~---------~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~  108 (289)
                      .+.....|.|+++|.+|.|||||+|.+...+...         .+..|......+..+.-++..+++.+.||||-
T Consensus        40 ~mk~GF~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGf  114 (336)
T KOG1547|consen   40 TMKTGFDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGF  114 (336)
T ss_pred             HHhccCceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCc
Confidence            4455667899999999999999999998654432         23445555556667777888899999999983

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=98.04  E-value=1.5e-05  Score=81.81  Aligned_cols=120  Identities=19%  Similarity=0.145  Sum_probs=80.6

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCC--CC----------------CCCCCcceEEeeEEeecCcceEEEEEEEcCC
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNF--ED----------------ASDSSSELLVNGWTINTKYYTADVSLWMAHL  107 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~--~~----------------~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G  107 (289)
                      .+..-.|.|+|+..+|||||..+++...-  ..                +....+.......+....+ .+.+++.||||
T Consensus         7 ~~~~RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~~~-~~~iNlIDTPG   85 (697)
T COG0480           7 LERIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFWKG-DYRINLIDTPG   85 (697)
T ss_pred             cccceEEEEEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEEcC-ceEEEEeCCCC
Confidence            34446799999999999999999985221  10                0111122222222333332 46799999999


Q ss_pred             chhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCC
Q 040295          108 HEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGH  168 (289)
Q Consensus       108 ~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~  168 (289)
                      +-.|..-...-++-+|++|+|+|....-..+.-.-|....+. + .|.|++.||+|.....
T Consensus        86 HVDFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~rqa~~~-~-vp~i~fiNKmDR~~a~  144 (697)
T COG0480          86 HVDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQADKY-G-VPRILFVNKMDRLGAD  144 (697)
T ss_pred             ccccHHHHHHHHHhhcceEEEEECCCCeeecHHHHHHHHhhc-C-CCeEEEEECccccccC
Confidence            999987777778899999999999866555555556544432 2 2667789999997543

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=98.03  E-value=9.3e-05  Score=70.22  Aligned_cols=117  Identities=13%  Similarity=0.154  Sum_probs=72.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCC---------CCCCcceEEeeEEeecCcceEEEEEEEcCCchh--------
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDA---------SDSSSELLVNGWTINTKYYTADVSLWMAHLHEE--------  110 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~---------~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~--------  110 (289)
                      ..+.++++|++|.|||||||.|+...+...         ...|..+......+..++..+.+.+.||||--.        
T Consensus        20 ~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~vdns~~w   99 (366)
T KOG2655|consen   20 FDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDAVDNSNCW   99 (366)
T ss_pred             CceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcccccccccc
Confidence            348899999999999999999887754321         223555556666777888899999999998311        


Q ss_pred             ----------hhc-------ccccccc--CccEEEEEEeCCCHhhHHHHH-HHHHHhhhcCCCeEEEEeeCCCCCCC
Q 040295          111 ----------FSI-------RSLPISD--QLTALVMVFNLNDLSTLDALK-HWVPSIDLQKFEILLCIGNKVDLLPG  167 (289)
Q Consensus       111 ----------~~~-------~~~~~~~--~ad~vIlV~Dv~~~~S~~~l~-~~~~~i~~~~~~~iivvgnK~Dl~~~  167 (289)
                                |..       +.+.-+.  .+|++++....+ +..+..++ ..+..+..  ...+|-|.-|+|.+..
T Consensus       100 ~pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~-ghgL~p~Di~~Mk~l~~--~vNiIPVI~KaD~lT~  173 (366)
T KOG2655|consen  100 RPIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPT-GHGLKPLDIEFMKKLSK--KVNLIPVIAKADTLTK  173 (366)
T ss_pred             hhhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCC-CCCCcHhhHHHHHHHhc--cccccceeeccccCCH
Confidence                      111       0111122  467888888765 23333333 12222221  1245667789999863

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.03  E-value=1.4e-05  Score=68.48  Aligned_cols=58  Identities=14%  Similarity=0.143  Sum_probs=38.2

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLH  108 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~  108 (289)
                      ...++|+++|.+|||||||+|++.+..... .....+.+.....+...   ..+.++||||.
T Consensus       115 ~~~~~~~~vG~pnvGKSslin~l~~~~~~~-~~~~pg~T~~~~~~~~~---~~~~l~DtPGi  172 (172)
T cd04178         115 KTSITVGVVGFPNVGKSSLINSLKRSRACN-VGATPGVTKSMQEVHLD---KKVKLLDSPGI  172 (172)
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCcccce-ecCCCCeEcceEEEEeC---CCEEEEECcCC
Confidence            345899999999999999999999876422 22333333222222222   24789999983

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

>cd01855 YqeH YqeH

Probab=98.02  E-value=1.1e-05  Score=69.65  Aligned_cols=58  Identities=19%  Similarity=0.240  Sum_probs=37.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCC-------CCCCCcceEEeeEEeecCcceEEEEEEEcCCc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFED-------ASDSSSELLVNGWTINTKYYTADVSLWMAHLH  108 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~-------~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~  108 (289)
                      ....++++|.+|||||||+|.+.+.....       ......+.+.....+....   .+.++||||.
T Consensus       126 ~~~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~---~~~~~DtPG~  190 (190)
T cd01855         126 KGGDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGTTLDLIKIPLGN---GKKLYDTPGI  190 (190)
T ss_pred             cCCcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCCCeeeeeEEEecCC---CCEEEeCcCC
Confidence            44689999999999999999999864311       1122223333333333332   4789999983

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.

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=97.98  E-value=4.5e-05  Score=72.19  Aligned_cols=123  Identities=15%  Similarity=0.196  Sum_probs=76.2

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCC-CCCcceEEeeEEeecCc--------------------------
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDAS-DSSSELLVNGWTINTKY--------------------------   95 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~-~~t~~~~~~~~~i~~~~--------------------------   95 (289)
                      +.+.....=|+++|.-+.||||||+.|+.++|+... .+....++....+..+.                          
T Consensus        52 d~dfd~KPmill~GqyStGKTtfi~yLle~dypg~riGpEPTtd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~a  131 (532)
T KOG1954|consen   52 DPDFDAKPMILLVGQYSTGKTTFIRYLLEQDYPGLRIGPEPTTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNA  131 (532)
T ss_pred             CcccccCceEEEEeccccchhHHHHHHHhCCCCccccCCCCCcceeEEEEecCcccccCCceeeecCCCchhhhhhhHHH
Confidence            455666677999999999999999999999986431 11111111111111110                          


Q ss_pred             -------------ceEEEEEEEcCCch-----------hhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcC
Q 040295           96 -------------YTADVSLWMAHLHE-----------EFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQK  151 (289)
Q Consensus        96 -------------~~~~l~I~Dt~G~e-----------~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~  151 (289)
                                   -.-.+.|.||||.-           .|.....=+...+|.+|++||....+-=++....+..++-+.
T Consensus       132 flnRf~csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG~E  211 (532)
T KOG1954|consen  132 FLNRFMCSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKGHE  211 (532)
T ss_pred             HHHHHHHhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhCCc
Confidence                         01237899999842           222233344567999999999765544444444455555444


Q ss_pred             CCeEEEEeeCCCCCC
Q 040295          152 FEILLCIGNKVDLLP  166 (289)
Q Consensus       152 ~~~iivvgnK~Dl~~  166 (289)
                      . -+-||.||.|...
T Consensus       212 d-kiRVVLNKADqVd  225 (532)
T KOG1954|consen  212 D-KIRVVLNKADQVD  225 (532)
T ss_pred             c-eeEEEeccccccC
Confidence            4 4666899999974

>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]

Probab=97.96  E-value=0.00053  Score=62.13  Aligned_cols=89  Identities=20%  Similarity=0.182  Sum_probs=58.6

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCC-CCCCcceEEeeEEeecCcceEEEEEEEcCCchh--------hhcccc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDA-SDSSSELLVNGWTINTKYYTADVSLWMAHLHEE--------FSIRSL  116 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~-~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~--------~~~~~~  116 (289)
                      ..--.+|+++|-|+||||||+..+...+.... |..|. .+..+-.+..++  ..+++.|.||.=.        -++. -
T Consensus        59 KsGdaRValIGfPSVGKStlLs~iT~T~SeaA~yeFTT-LtcIpGvi~y~g--a~IQllDLPGIieGAsqgkGRGRQv-i  134 (364)
T KOG1486|consen   59 KSGDARVALIGFPSVGKSTLLSKITSTHSEAASYEFTT-LTCIPGVIHYNG--ANIQLLDLPGIIEGASQGKGRGRQV-I  134 (364)
T ss_pred             ccCCeEEEEecCCCccHHHHHHHhhcchhhhhceeeeE-EEeecceEEecC--ceEEEecCcccccccccCCCCCceE-E
Confidence            33447899999999999999999987664322 22222 222333444443  4689999998521        1222 2


Q ss_pred             ccccCccEEEEEEeCCCHhhHH
Q 040295          117 PISDQLTALVMVFNLNDLSTLD  138 (289)
Q Consensus       117 ~~~~~ad~vIlV~Dv~~~~S~~  138 (289)
                      ...+.||.+++|.|.+..+.-.
T Consensus       135 avArtaDlilMvLDatk~e~qr  156 (364)
T KOG1486|consen  135 AVARTADLILMVLDATKSEDQR  156 (364)
T ss_pred             EEeecccEEEEEecCCcchhHH
Confidence            4467899999999998665443

>cd01858 NGP_1 NGP-1

Probab=97.95  E-value=4.2e-05  Score=63.96  Aligned_cols=47  Identities=19%  Similarity=0.346  Sum_probs=32.2

Q ss_pred             cccCccEEEEEEeCCCHhh--HHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          118 ISDQLTALVMVFNLNDLST--LDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       118 ~~~~ad~vIlV~Dv~~~~S--~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      .++.+|.+++|.|++++..  ...+..++...  ....|+|+|.||+|+.+
T Consensus         5 ~l~~aD~il~VvD~~~p~~~~~~~i~~~l~~~--~~~~p~ilVlNKiDl~~   53 (157)
T cd01858           5 VIDSSDVVIQVLDARDPMGTRCKHVEEYLKKE--KPHKHLIFVLNKCDLVP   53 (157)
T ss_pred             hhhhCCEEEEEEECCCCccccCHHHHHHHHhc--cCCCCEEEEEEchhcCC
Confidence            3568999999999998632  33444444321  22358899999999964

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=97.92  E-value=3.7e-05  Score=63.23  Aligned_cols=48  Identities=19%  Similarity=0.291  Sum_probs=35.2

Q ss_pred             ccccCccEEEEEEeCCCHhhHH--HHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          117 PISDQLTALVMVFNLNDLSTLD--ALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       117 ~~~~~ad~vIlV~Dv~~~~S~~--~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ..++.+|++++|+|++++.+..  .+..|+....  ...|+++|.||+|+.+
T Consensus         7 ~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~~--~~k~~iivlNK~DL~~   56 (141)
T cd01857           7 RVVERSDIVVQIVDARNPLLFRPPDLERYVKEVD--PRKKNILLLNKADLLT   56 (141)
T ss_pred             HHHhhCCEEEEEEEccCCcccCCHHHHHHHHhcc--CCCcEEEEEechhcCC
Confidence            3467899999999999876654  4555555431  3458999999999953

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.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=97.92  E-value=0.0001  Score=68.15  Aligned_cols=153  Identities=20%  Similarity=0.201  Sum_probs=89.4

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCC-----------CCCCCCCcceEEee---------------EEeec-------
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNF-----------EDASDSSSELLVNG---------------WTINT-------   93 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~-----------~~~~~~t~~~~~~~---------------~~i~~-------   93 (289)
                      ..-..|.|-|.||+|||||+..|...=+           .+.+..|.|.....               ..+..       
T Consensus        49 G~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGDRiRM~~~~~~~~vFiRs~~srG~lGGl  128 (323)
T COG1703          49 GNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGDRIRMQRLAVDPGVFIRSSPSRGTLGGL  128 (323)
T ss_pred             CCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccccHhhHHhhccCCCeEEeecCCCccchhh
Confidence            3346899999999999999999874211           11122233321110               01111       


Q ss_pred             -----------CcceEEEEEEEcCC--chhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEee
Q 040295           94 -----------KYYTADVSLWMAHL--HEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGN  160 (289)
Q Consensus        94 -----------~~~~~~l~I~Dt~G--~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgn  160 (289)
                                 +...+++.|..|.|  |...     .....+|.+++|.=..-.+..+-++.=+.++..      |+|.|
T Consensus       129 S~at~~~i~~ldAaG~DvIIVETVGvGQsev-----~I~~~aDt~~~v~~pg~GD~~Q~iK~GimEiaD------i~vIN  197 (323)
T COG1703         129 SRATREAIKLLDAAGYDVIIVETVGVGQSEV-----DIANMADTFLVVMIPGAGDDLQGIKAGIMEIAD------IIVIN  197 (323)
T ss_pred             hHHHHHHHHHHHhcCCCEEEEEecCCCcchh-----HHhhhcceEEEEecCCCCcHHHHHHhhhhhhhh------eeeEe
Confidence                       11235567777764  3333     234568999988866666666666654445543      55899


Q ss_pred             CCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHH----HH--cCCeEEEeecC
Q 040295          161 KVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWC----TE--HRIEYIEACAS  234 (289)
Q Consensus       161 K~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~--~~~~~ie~Sa~  234 (289)
                      |.|.....    ...+.+                                    +.+..+.    ..  +.-+.+.|||.
T Consensus       198 KaD~~~A~----~a~r~l------------------------------------~~al~~~~~~~~~~~W~ppv~~t~A~  237 (323)
T COG1703         198 KADRKGAE----KAAREL------------------------------------RSALDLLREVWRENGWRPPVVTTSAL  237 (323)
T ss_pred             ccChhhHH----HHHHHH------------------------------------HHHHHhhcccccccCCCCceeEeeec
Confidence            99963211    111222                                    0011111    12  23469999999


Q ss_pred             CCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          235 NVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       235 ~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                      .+            +|++++++++..+.
T Consensus       238 ~g------------~Gi~~L~~ai~~h~  253 (323)
T COG1703         238 EG------------EGIDELWDAIEDHR  253 (323)
T ss_pred             cC------------CCHHHHHHHHHHHH
Confidence            99            99999999998765

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=97.90  E-value=5.6e-05  Score=63.15  Aligned_cols=83  Identities=20%  Similarity=0.168  Sum_probs=53.5

Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHH-HhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          123 TALVMVFNLNDLSTLDALKHWVP-SIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       123 d~vIlV~Dv~~~~S~~~l~~~~~-~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      |.+++|+|++++.+....  |+. ........|+|+|.||+|+.+.     +.....                       
T Consensus         1 Dvvl~VvD~~~p~~~~~~--~i~~~~~~~~~~p~IiVlNK~Dl~~~-----~~~~~~-----------------------   50 (155)
T cd01849           1 DVILEVLDARDPLGTRSP--DIERVLIKEKGKKLILVLNKADLVPK-----EVLRKW-----------------------   50 (155)
T ss_pred             CEEEEEEeccCCccccCH--HHHHHHHhcCCCCEEEEEechhcCCH-----HHHHHH-----------------------
Confidence            689999999987655422  333 2222234589999999999631     110111                       


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                     ...+....+..++.+||+++            .|++++++.+.+..
T Consensus        51 ---------------~~~~~~~~~~~ii~vSa~~~------------~gi~~L~~~i~~~~   84 (155)
T cd01849          51 ---------------LAYLRHSYPTIPFKISATNG------------QGIEKKESAFTKQT   84 (155)
T ss_pred             ---------------HHHHHhhCCceEEEEeccCC------------cChhhHHHHHHHHh
Confidence                           12233333456889999999            99999999887653

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.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=97.89  E-value=3.3e-05  Score=70.99  Aligned_cols=57  Identities=19%  Similarity=0.204  Sum_probs=38.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLH  108 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~  108 (289)
                      ..++++++|.+|||||||+|++.+...... ....+.+.....+....   .+.++||||.
T Consensus       117 ~~~~~~~vG~~nvGKSslin~l~~~~~~~~-~~~~g~T~~~~~~~~~~---~~~l~DtPG~  173 (276)
T TIGR03596       117 RPIRAMIVGIPNVGKSTLINRLAGKKVAKV-GNRPGVTKGQQWIKLSD---GLELLDTPGI  173 (276)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCcccc-CCCCCeecceEEEEeCC---CEEEEECCCc
Confidence            458999999999999999999998764322 22233322222222221   3789999997

Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=97.89  E-value=3.8e-05  Score=71.00  Aligned_cols=59  Identities=20%  Similarity=0.201  Sum_probs=39.9

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCch
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHE  109 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e  109 (289)
                      ...++|+++|.+|||||||+|++.+..... .....+.+.....+...   -.+.++||||.-
T Consensus       119 ~~~~~~~~~G~pnvGKSsliN~l~~~~~~~-~~~~~g~T~~~~~~~~~---~~~~l~DtPGi~  177 (287)
T PRK09563        119 PRAIRAMIIGIPNVGKSTLINRLAGKKIAK-TGNRPGVTKAQQWIKLG---KGLELLDTPGIL  177 (287)
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhcCCccc-cCCCCCeEEEEEEEEeC---CcEEEEECCCcC
Confidence            356899999999999999999999876432 22333333322222222   147899999974

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=97.83  E-value=0.00015  Score=71.94  Aligned_cols=118  Identities=10%  Similarity=0.142  Sum_probs=76.3

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCc
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQL  122 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~a  122 (289)
                      .....+.+-|+|+||+|+||||||+.+...-..    .|+.....++++ ..++.-.+.+..+|  ....++. ...+-|
T Consensus        63 p~d~PPPfIvavvGPpGtGKsTLirSlVrr~tk----~ti~~i~GPiTv-vsgK~RRiTflEcp--~Dl~~mi-DvaKIa  134 (1077)
T COG5192          63 PKDLPPPFIVAVVGPPGTGKSTLIRSLVRRFTK----QTIDEIRGPITV-VSGKTRRITFLECP--SDLHQMI-DVAKIA  134 (1077)
T ss_pred             cccCCCCeEEEeecCCCCChhHHHHHHHHHHHH----hhhhccCCceEE-eecceeEEEEEeCh--HHHHHHH-hHHHhh
Confidence            334556677889999999999999988754211    122211122222 23455678888887  3444433 445679


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCC
Q 040295          123 TALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHP  169 (289)
Q Consensus       123 d~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~  169 (289)
                      |.+++..|.+-.-..+.+ .++.-+..++.|-|+.|.+..|+.....
T Consensus       135 DLVlLlIdgnfGfEMETm-EFLnil~~HGmPrvlgV~ThlDlfk~~s  180 (1077)
T COG5192         135 DLVLLLIDGNFGFEMETM-EFLNILISHGMPRVLGVVTHLDLFKNPS  180 (1077)
T ss_pred             heeEEEeccccCceehHH-HHHHHHhhcCCCceEEEEeecccccChH
Confidence            999999998754222222 3455566777778999999999987643

>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.82  E-value=0.00022  Score=64.16  Aligned_cols=121  Identities=19%  Similarity=0.176  Sum_probs=70.6

Q ss_pred             cccccCCC--ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeE-Ee-ecCcceEEEEEEEcCCchhh-hccc-
Q 040295           42 DRASLEKR--PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGW-TI-NTKYYTADVSLWMAHLHEEF-SIRS-  115 (289)
Q Consensus        42 ~~~~~~~~--iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~-~i-~~~~~~~~l~I~Dt~G~e~~-~~~~-  115 (289)
                      +...+..+  .+|+++|-..+||||+.+-....- .+.  .|.-.+.... .. ..-..-+.+++||.|||-.| .... 
T Consensus        18 ~~~~~~~~~kp~ilLMG~rRsGKsSI~KVVFhkM-sPn--eTlflESTski~~d~is~sfinf~v~dfPGQ~~~Fd~s~D   94 (347)
T KOG3887|consen   18 EDAEADSGMKPRILLMGLRRSGKSSIQKVVFHKM-SPN--ETLFLESTSKITRDHISNSFINFQVWDFPGQMDFFDPSFD   94 (347)
T ss_pred             cccCccCCCCceEEEEeecccCcchhhheeeecc-CCC--ceeEeeccCcccHhhhhhhhcceEEeecCCccccCCCccC
Confidence            44444444  679999999999999876654332 111  0111110000 00 01113467999999999633 2222 


Q ss_pred             -cccccCccEEEEEEeCCCHhhHHHHHHHHHHhh-hcC--CC-eEEEEeeCCCCCC
Q 040295          116 -LPISDQLTALVMVFNLNDLSTLDALKHWVPSID-LQK--FE-ILLCIGNKVDLLP  166 (289)
Q Consensus       116 -~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~-~~~--~~-~iivvgnK~Dl~~  166 (289)
                       ...++++-|.|+|.|.. -+-.+.+.++...+. .++  +. -+=|...|.|-+.
T Consensus        95 ~e~iF~~~gALifvIDaQ-ddy~eala~L~~~v~raykvNp~in~EVfiHKvDGLs  149 (347)
T KOG3887|consen   95 YEMIFRGVGALIFVIDAQ-DDYMEALARLHMTVERAYKVNPNINFEVFIHKVDGLS  149 (347)
T ss_pred             HHHHHhccCeEEEEEech-HHHHHHHHHHHHHhhheeecCCCceEEEEEEeccCCc
Confidence             34578899999999975 445556665555542 222  22 3455679999875

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=97.76  E-value=8.6e-05  Score=61.98  Aligned_cols=57  Identities=18%  Similarity=0.181  Sum_probs=36.0

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCcceEEeeEEeecCcceEEEEEEEcCCc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFED-ASDSSSELLVNGWTINTKYYTADVSLWMAHLH  108 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~  108 (289)
                      ....+++++|.+|||||||+|.+.+..... ...+.......  .+...   ..+.+.||||.
T Consensus        98 ~~~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~t~~~~--~~~~~---~~~~liDtPG~  155 (155)
T cd01849          98 KKSITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTTTSQQ--EVKLD---NKIKLLDTPGI  155 (155)
T ss_pred             ccCcEEEEEccCCCCHHHHHHHHHccccccccCCCCcccceE--EEEec---CCEEEEECCCC
Confidence            345789999999999999999999876321 11111111111  11111   24789999983

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.

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=97.76  E-value=0.00043  Score=63.94  Aligned_cols=113  Identities=14%  Similarity=0.175  Sum_probs=71.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC-------CCCC--C-----CCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV-------NFED--A-----SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRS  115 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~-------~~~~--~-----~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~  115 (289)
                      .+|..+|.-.-|||||...+..-       .+..  +     ....-+....+..+........+-..|+||+..|-..+
T Consensus        13 VNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rGITIntahveyet~~rhyahVDcPGHaDYvKNM   92 (394)
T COG0050          13 VNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYVKNM   92 (394)
T ss_pred             eEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcCceeccceeEEecCCceEEeccCCChHHHHHHH
Confidence            68999999999999998876531       1100  0     01111222222222222223456678999999886655


Q ss_pred             cccccCccEEEEEEeCCC---HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          116 LPISDQLTALVMVFNLND---LSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       116 ~~~~~~ad~vIlV~Dv~~---~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      -.-..+.|+.|||.+.++   |++-+.+-    ..+..+.+-++++.||+|+..
T Consensus        93 ItgAaqmDgAILVVsA~dGpmPqTrEHiL----larqvGvp~ivvflnK~Dmvd  142 (394)
T COG0050          93 ITGAAQMDGAILVVAATDGPMPQTREHIL----LARQVGVPYIVVFLNKVDMVD  142 (394)
T ss_pred             hhhHHhcCccEEEEEcCCCCCCcchhhhh----hhhhcCCcEEEEEEecccccC
Confidence            555667899999999886   55555542    123345556888899999975

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.73  E-value=0.0001  Score=66.54  Aligned_cols=44  Identities=30%  Similarity=0.336  Sum_probs=40.0

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      ..||...++++.+.+..++--|+|+|+||||||||++-+.+-..
T Consensus        11 ~~f~~~~vl~~i~L~v~~GEfvsilGpSGcGKSTLLriiAGL~~   54 (248)
T COG1116          11 KSFGGVEVLEDINLSVEKGEFVAILGPSGCGKSTLLRLIAGLEK   54 (248)
T ss_pred             EEeCceEEeccceeEECCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            46787899999999999999999999999999999999987664

>COG1161 Predicted GTPases [General function prediction only]

Probab=97.73  E-value=6.2e-05  Score=70.86  Aligned_cols=56  Identities=20%  Similarity=0.156  Sum_probs=40.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLH  108 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~  108 (289)
                      .+++.|+|-+|||||||||+|.+... ....+..|.+.....+.....   +.++||||.
T Consensus       132 ~~~v~vvG~PNVGKSslIN~L~~k~~-~~~s~~PG~Tk~~q~i~~~~~---i~LlDtPGi  187 (322)
T COG1161         132 KIRVGVVGYPNVGKSTLINRLLGKKV-AKTSNRPGTTKGIQWIKLDDG---IYLLDTPGI  187 (322)
T ss_pred             ceEEEEEcCCCCcHHHHHHHHhcccc-eeeCCCCceecceEEEEcCCC---eEEecCCCc
Confidence            47899999999999999999999876 333334455443333333322   899999995

>PRK13796 GTPase YqeH; Provisional

Probab=97.68  E-value=0.00016  Score=69.21  Aligned_cols=96  Identities=21%  Similarity=0.317  Sum_probs=61.1

Q ss_pred             hhhhccccccccCcc-EEEEEEeCCCHhhHHHHHHHHHHhhhc-CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCC
Q 040295          109 EEFSIRSLPISDQLT-ALVMVFNLNDLSTLDALKHWVPSIDLQ-KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSA  186 (289)
Q Consensus       109 e~~~~~~~~~~~~ad-~vIlV~Dv~~~~S~~~l~~~~~~i~~~-~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~  186 (289)
                      +.|....... ..++ .+++|+|+.+..     ..|...+... ...|+++|+||+|+.+...                 
T Consensus        57 ~~~~~~l~~i-~~~~~lIv~VVD~~D~~-----~s~~~~L~~~~~~kpviLViNK~DLl~~~~-----------------  113 (365)
T PRK13796         57 DDFLKLLNGI-GDSDALVVNVVDIFDFN-----GSWIPGLHRFVGNNPVLLVGNKADLLPKSV-----------------  113 (365)
T ss_pred             HHHHHHHHhh-cccCcEEEEEEECccCC-----CchhHHHHHHhCCCCEEEEEEchhhCCCcc-----------------
Confidence            4555444333 3444 899999987642     2355555443 2458899999999975211                 


Q ss_pred             CCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCC---eEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          187 DPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRI---EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       187 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                            ..+....-...+++.+++   .++.+||+++            .|++++++.|.+.
T Consensus       114 ----------------------~~~~i~~~l~~~~k~~g~~~~~v~~vSAk~g------------~gI~eL~~~I~~~  157 (365)
T PRK13796        114 ----------------------KKNKVKNWLRQEAKELGLRPVDVVLISAQKG------------HGIDELLEAIEKY  157 (365)
T ss_pred             ----------------------CHHHHHHHHHHHHHhcCCCcCcEEEEECCCC------------CCHHHHHHHHHHh
Confidence                                  001111113445666676   5789999999            9999999999764

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=97.64  E-value=4.7e-05  Score=69.58  Aligned_cols=116  Identities=16%  Similarity=0.092  Sum_probs=64.6

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCC-CCCCcceEEeeEEeecCcceEEEEEEEcCC----------chhhhcc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDA-SDSSSELLVNGWTINTKYYTADVSLWMAHL----------HEEFSIR  114 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~-~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G----------~e~~~~~  114 (289)
                      ....+.++++|.+|||||||++.+...+.... ..++.+...   .++.-.-.-.+.+.|.||          .+.+..+
T Consensus       133 k~~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq---~in~f~v~~~~~~vDlPG~~~a~y~~~~~~d~~~~  209 (320)
T KOG2486|consen  133 KDKRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQ---AINHFHVGKSWYEVDLPGYGRAGYGFELPADWDKF  209 (320)
T ss_pred             CCCCceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccce---eeeeeeccceEEEEecCCcccccCCccCcchHhHh
Confidence            46678999999999999999999998764432 222332211   111111122467778888          2344444


Q ss_pred             ccccccCc---cEEEEEEeCCCHhhHHHHHH-HHHHhhhcCCCeEEEEeeCCCCCCC
Q 040295          115 SLPISDQL---TALVMVFNLNDLSTLDALKH-WVPSIDLQKFEILLCIGNKVDLLPG  167 (289)
Q Consensus       115 ~~~~~~~a---d~vIlV~Dv~~~~S~~~l~~-~~~~i~~~~~~~iivvgnK~Dl~~~  167 (289)
                      ...|+.+-   -.+.+..|++-+  ++..+. .+..+.+.+ -|+-+|.||||...+
T Consensus       210 t~~Y~leR~nLv~~FLLvd~sv~--i~~~D~~~i~~~ge~~-VP~t~vfTK~DK~k~  263 (320)
T KOG2486|consen  210 TKSYLLERENLVRVFLLVDASVP--IQPTDNPEIAWLGENN-VPMTSVFTKCDKQKK  263 (320)
T ss_pred             HHHHHHhhhhhheeeeeeeccCC--CCCCChHHHHHHhhcC-CCeEEeeehhhhhhh
Confidence            55554332   244455565532  222211 122233322 378889999998643

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=97.62  E-value=0.00014  Score=79.16  Aligned_cols=112  Identities=23%  Similarity=0.264  Sum_probs=65.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCC------CCCcc-eEEeeEEeecCcceEEEEEEEcCCch--------hhhcc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDAS------DSSSE-LLVNGWTINTKYYTADVSLWMAHLHE--------EFSIR  114 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~------~~t~~-~~~~~~~i~~~~~~~~l~I~Dt~G~e--------~~~~~  114 (289)
                      .=.+|+|++|+||||++++- +.+|+-..      ....+ .....+-+..     +-.++||+|..        .....
T Consensus       112 PWYlviG~~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~~c~wwf~~-----~avliDtaG~y~~~~~~~~~~~~~  185 (1169)
T TIGR03348       112 PWYLVIGPPGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTRNCDWWFTD-----EAVLIDTAGRYTTQDSDPEEDAAA  185 (1169)
T ss_pred             CCEEEECCCCCchhHHHHhC-CCCCcCchhhccccccCCCCCcccceEecC-----CEEEEcCCCccccCCCcccccHHH
Confidence            44899999999999999987 44553211      00111 1111222222     25688999832        11112


Q ss_pred             cccc---------ccCccEEEEEEeCCCHh-----hH----HHHHHHHHHhhhc-CCC-eEEEEeeCCCCCCC
Q 040295          115 SLPI---------SDQLTALVMVFNLNDLS-----TL----DALKHWVPSIDLQ-KFE-ILLCIGNKVDLLPG  167 (289)
Q Consensus       115 ~~~~---------~~~ad~vIlV~Dv~~~~-----S~----~~l~~~~~~i~~~-~~~-~iivvgnK~Dl~~~  167 (289)
                      |..+         -+..+|+|+++|+.+.-     ..    ..++..+.++... +.. ||+||.+|+|++++
T Consensus       186 W~~fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv~Tk~Dll~G  258 (1169)
T TIGR03348       186 WLGFLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLVLTKADLLAG  258 (1169)
T ss_pred             HHHHHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEEecchhhcC
Confidence            2222         24579999999987432     11    2333444555433 333 99999999999865

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion 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=97.59  E-value=7.5e-05  Score=63.47  Aligned_cols=24  Identities=29%  Similarity=0.555  Sum_probs=21.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      -.++++|++|||||||+|.|.+..
T Consensus        36 k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   36 KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhc
Confidence            358999999999999999999874

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.

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=97.52  E-value=0.00082  Score=67.96  Aligned_cols=117  Identities=17%  Similarity=0.176  Sum_probs=68.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCC-CCCCcceEE----------eeE-----------Eee-------c---Ccc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDA-SDSSSELLV----------NGW-----------TIN-------T---KYY   96 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~-~~~t~~~~~----------~~~-----------~i~-------~---~~~   96 (289)
                      ..||+|.|+.++||||++|.++.++..+. ..+++....          +-.           +++       .   .+.
T Consensus       109 ~mKV~ifGrts~GKSt~iNAmL~~klLP~g~gh~TncF~~VegadG~e~vl~~~~s~ek~d~~ti~~~~haL~~~~~~~~  188 (749)
T KOG0448|consen  109 HMKVAIFGRTSAGKSTVINAMLHKKLLPSGIGHTTNCFLEVEGADGAEAVLATEGSEEKIDMKTINQLAHALKPDKDLGA  188 (749)
T ss_pred             ccEEEEeCCCCCcHHHHHHHHHHHhhCcccccccceeeeeecccCCcceeeccCCCcccccHHHHhHHHHhcCcccccCc
Confidence            37999999999999999999998765432 111111000          000           000       0   000


Q ss_pred             e----------------EEEEEEEcCCch---hhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEE
Q 040295           97 T----------------ADVSLWMAHLHE---EFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLC  157 (289)
Q Consensus        97 ~----------------~~l~I~Dt~G~e---~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iiv  157 (289)
                      .                -.+.+.|.||..   .+.+-.......+|++|||....+..+..+- +++...... .|.|.+
T Consensus       189 ~sLlrV~~p~~~csLLrnDivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~sek-~Ff~~vs~~-KpniFI  266 (749)
T KOG0448|consen  189 GSLLRVFWPDDKCSLLRNDIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSEK-QFFHKVSEE-KPNIFI  266 (749)
T ss_pred             ceEEEEEecCccchhhhccceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHHH-HHHHHhhcc-CCcEEE
Confidence            0                024455777753   3333334556789999999988776555443 344444443 335666


Q ss_pred             EeeCCCCCCC
Q 040295          158 IGNKVDLLPG  167 (289)
Q Consensus       158 vgnK~Dl~~~  167 (289)
                      +-||+|....
T Consensus       267 lnnkwDasas  276 (749)
T KOG0448|consen  267 LNNKWDASAS  276 (749)
T ss_pred             Eechhhhhcc
Confidence            8899999754

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=97.52  E-value=0.00087  Score=58.50  Aligned_cols=39  Identities=21%  Similarity=0.226  Sum_probs=35.2

Q ss_pred             cccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           36 QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        36 ~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      .+++...+++.+++-=+-++|+||+|||||++.+.....
T Consensus        15 ~~aL~~vs~~i~~Gef~fl~GpSGAGKSTllkLi~~~e~   53 (223)
T COG2884          15 REALRDVSFHIPKGEFVFLTGPSGAGKSTLLKLIYGEER   53 (223)
T ss_pred             chhhhCceEeecCceEEEEECCCCCCHHHHHHHHHhhhc
Confidence            458899999999999999999999999999999987664

>cd01856 YlqF YlqF

Probab=97.50  E-value=0.00024  Score=60.31  Aligned_cols=87  Identities=13%  Similarity=0.050  Sum_probs=56.5

Q ss_pred             cccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCC
Q 040295          116 LPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGI  195 (289)
Q Consensus       116 ~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~  195 (289)
                      ...++.+|.+++|+|.+++..-... .+...+   ...|+++|.||+|+.+.     +....                  
T Consensus        14 ~~~i~~aD~il~v~D~~~~~~~~~~-~i~~~~---~~k~~ilVlNK~Dl~~~-----~~~~~------------------   66 (171)
T cd01856          14 KEKLKLVDLVIEVRDARIPLSSRNP-LLEKIL---GNKPRIIVLNKADLADP-----KKTKK------------------   66 (171)
T ss_pred             HHHHhhCCEEEEEeeccCccCcCCh-hhHhHh---cCCCEEEEEehhhcCCh-----HHHHH------------------
Confidence            4557889999999999876432211 122222   23478899999999531     00000                  


Q ss_pred             CcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          196 SETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                           ..++....+..++.+||+++            .|++++...|...+
T Consensus        67 ---------------------~~~~~~~~~~~vi~iSa~~~------------~gi~~L~~~l~~~l  100 (171)
T cd01856          67 ---------------------WLKYFESKGEKVLFVNAKSG------------KGVKKLLKAAKKLL  100 (171)
T ss_pred             ---------------------HHHHHHhcCCeEEEEECCCc------------ccHHHHHHHHHHHH
Confidence                                 11222233456899999999            99999999998864

Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.

>PRK12288 GTPase RsgA; Reviewed

Probab=97.48  E-value=0.00019  Score=68.32  Aligned_cols=23  Identities=30%  Similarity=0.540  Sum_probs=21.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCC
Q 040295           52 ILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      ++|+|.||||||||||+|++...
T Consensus       208 ~~~vG~sgVGKSTLiN~Ll~~~~  230 (347)
T PRK12288        208 SIFVGQSGVGKSSLINALLPEAE  230 (347)
T ss_pred             EEEECCCCCCHHHHHHHhccccc
Confidence            89999999999999999997653

>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []

Probab=97.44  E-value=0.00083  Score=64.64  Aligned_cols=69  Identities=19%  Similarity=0.165  Sum_probs=49.7

Q ss_pred             eEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCH----------hhHHHHHHHHHHhhh---cCCCeEEEEeeCCC
Q 040295           97 TADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDL----------STLDALKHWVPSIDL---QKFEILLCIGNKVD  163 (289)
Q Consensus        97 ~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~----------~S~~~l~~~~~~i~~---~~~~~iivvgnK~D  163 (289)
                      ...+.++|++||..-+.-|.+++.+++++|||.++++-          ..+.+.......+-.   ....|+||+.||.|
T Consensus       235 ~~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~~~~iil~lnK~D  314 (389)
T PF00503_consen  235 SRKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFKNTPIILFLNKID  314 (389)
T ss_dssp             TEEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGTTSEEEEEEE-HH
T ss_pred             ccccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccccCceEEeeecHH
Confidence            46789999999988888899999999999999997631          112222333333322   23459999999999


Q ss_pred             CC
Q 040295          164 LL  165 (289)
Q Consensus       164 l~  165 (289)
                      +.
T Consensus       315 ~f  316 (389)
T PF00503_consen  315 LF  316 (389)
T ss_dssp             HH
T ss_pred             HH
Confidence            96

G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.44  E-value=0.00012  Score=64.94  Aligned_cols=43  Identities=28%  Similarity=0.366  Sum_probs=38.7

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .-||...++++.++...++--.+++||+|||||||++.|-.-.
T Consensus        15 ~yYg~~~aL~~i~l~i~~~~VTAlIGPSGcGKST~LR~lNRmn   57 (253)
T COG1117          15 LYYGDKHALKDINLDIPKNKVTALIGPSGCGKSTLLRCLNRMN   57 (253)
T ss_pred             EEECchhhhccCceeccCCceEEEECCCCcCHHHHHHHHHhhc
Confidence            3589999999999999999999999999999999999986554

>PRK12289 GTPase RsgA; Reviewed

Probab=97.41  E-value=0.00027  Score=67.35  Aligned_cols=23  Identities=30%  Similarity=0.537  Sum_probs=20.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCC
Q 040295           52 ILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      ++|+|+||||||||||.|++...
T Consensus       175 ~v~iG~SgVGKSSLIN~L~~~~~  197 (352)
T PRK12289        175 TVVAGPSGVGKSSLINRLIPDVE  197 (352)
T ss_pred             EEEEeCCCCCHHHHHHHHcCccc
Confidence            89999999999999999997653

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=97.37  E-value=0.0003  Score=71.68  Aligned_cols=109  Identities=16%  Similarity=0.216  Sum_probs=78.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCC--------------CCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFED--------------ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRS  115 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~--------------~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~  115 (289)
                      -.|+++-.-.-|||||+..|+..+-..              .-.++-|.+...-.|....+.+.+.+.|+||+-.|.+..
T Consensus        10 rn~~~vahvdhgktsladsl~asngvis~rlagkirfld~redeq~rgitmkss~is~~~~~~~~nlidspghvdf~sev   89 (887)
T KOG0467|consen   10 RNICLVAHVDHGKTSLADSLVASNGVISSRLAGKIRFLDTREDEQTRGITMKSSAISLLHKDYLINLIDSPGHVDFSSEV   89 (887)
T ss_pred             eEEEEEEEecCCccchHHHHHhhccEechhhccceeeccccchhhhhceeeeccccccccCceEEEEecCCCccchhhhh
Confidence            459999999999999999998644311              112334444444444544456789999999999999888


Q ss_pred             cccccCccEEEEEEeCCC---HhhHHHHH-HHHHHhhhcCCCeEEEEeeCCCC
Q 040295          116 LPISDQLTALVMVFNLND---LSTLDALK-HWVPSIDLQKFEILLCIGNKVDL  164 (289)
Q Consensus       116 ~~~~~~ad~vIlV~Dv~~---~~S~~~l~-~~~~~i~~~~~~~iivvgnK~Dl  164 (289)
                      .+..+-+|++++..|+..   .++..-++ -|.+.++      .++|.||+|.
T Consensus        90 ssas~l~d~alvlvdvvegv~~qt~~vlrq~~~~~~~------~~lvinkidr  136 (887)
T KOG0467|consen   90 SSASRLSDGALVLVDVVEGVCSQTYAVLRQAWIEGLK------PILVINKIDR  136 (887)
T ss_pred             hhhhhhcCCcEEEEeeccccchhHHHHHHHHHHccCc------eEEEEehhhh
Confidence            777888999999999874   45555554 3655444      4668999993

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=97.37  E-value=0.001  Score=62.61  Aligned_cols=24  Identities=38%  Similarity=0.552  Sum_probs=20.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..--|+++|++|+||||++..+..
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~  136 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAH  136 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH
Confidence            345799999999999999998864

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=97.36  E-value=0.00033  Score=63.40  Aligned_cols=24  Identities=25%  Similarity=0.304  Sum_probs=21.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      -.++++|.+|||||||+|++.+..
T Consensus       121 ~~~~~~G~sgvGKStLiN~L~~~~  144 (245)
T TIGR00157       121 RISVFAGQSGVGKSSLINALDPSV  144 (245)
T ss_pred             CEEEEECCCCCCHHHHHHHHhhhh
Confidence            468999999999999999999764

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=97.35  E-value=0.00082  Score=59.95  Aligned_cols=60  Identities=13%  Similarity=0.181  Sum_probs=39.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC--CCCCC---CCCCcceEEeeEEeecCcceEEEEEEEcCCchh
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV--NFEDA---SDSSSELLVNGWTINTKYYTADVSLWMAHLHEE  110 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~--~~~~~---~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~  110 (289)
                      .-|+|+|++++|||+|+|++++.  .|...   ...|.|.-.....+.. +....+.+.||+|...
T Consensus         8 ~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~~-~~~~~v~~lDteG~~~   72 (224)
T cd01851           8 AVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFKL-GKEHAVLLLDTEGTDG   72 (224)
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEeccccC-CCcceEEEEecCCcCc
Confidence            45899999999999999999998  66422   2233443332222211 2235789999999753

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

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=97.31  E-value=0.00045  Score=66.00  Aligned_cols=59  Identities=20%  Similarity=0.274  Sum_probs=36.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCC----CCCCCcceEEeeEEeecCcceEEEEEEEcCCchh
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFED----ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEE  110 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~----~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~  110 (289)
                      +.+++++|.+|||||||+|++++.....    ......+.+.....+....   .+.++||||...
T Consensus       154 ~~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~~~~~~---~~~l~DtPG~~~  216 (360)
T TIGR03597       154 KKDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIEIPLDD---GHSLYDTPGIIN  216 (360)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEEEEeCC---CCEEEECCCCCC
Confidence            3589999999999999999999754211    1122222222222222211   257999999643

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.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=97.30  E-value=0.0012  Score=60.71  Aligned_cols=87  Identities=16%  Similarity=0.148  Sum_probs=56.7

Q ss_pred             cccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCC
Q 040295          116 LPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGI  195 (289)
Q Consensus       116 ~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~  195 (289)
                      ...++.+|++++|.|...+.+-...  ++..+.  ...|+|+|.||+|+.+.     .....                  
T Consensus        16 ~~~l~~aDvVl~V~Dar~p~~~~~~--~i~~~l--~~kp~IiVlNK~DL~~~-----~~~~~------------------   68 (276)
T TIGR03596        16 KEKLKLVDVVIEVLDARIPLSSRNP--MIDEIR--GNKPRLIVLNKADLADP-----AVTKQ------------------   68 (276)
T ss_pred             HHHHhhCCEEEEEEeCCCCCCCCCh--hHHHHH--CCCCEEEEEEccccCCH-----HHHHH------------------
Confidence            3567889999999999876443221  111111  24588999999999531     00000                  


Q ss_pred             CcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          196 SETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                           ..+.....+.+++.+||+++            .|+.++.+.|.+.+
T Consensus        69 ---------------------~~~~~~~~~~~vi~iSa~~~------------~gi~~L~~~i~~~~  102 (276)
T TIGR03596        69 ---------------------WLKYFEEKGIKALAINAKKG------------KGVKKIIKAAKKLL  102 (276)
T ss_pred             ---------------------HHHHHHHcCCeEEEEECCCc------------ccHHHHHHHHHHHH
Confidence                                 11122334567899999999            99999998887755

Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=97.30  E-value=0.00022  Score=67.44  Aligned_cols=45  Identities=22%  Similarity=0.305  Sum_probs=39.2

Q ss_pred             heecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           30 VLIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        30 ~~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      ...||...+++..+.+.+.+--++++||+|||||||++.+.+-+-
T Consensus        10 ~K~yg~~~~l~~i~l~i~~Gef~vllGPSGcGKSTlLr~IAGLe~   54 (338)
T COG3839          10 RKSFGSFEVLKDVNLDIEDGEFVVLLGPSGCGKSTLLRMIAGLEE   54 (338)
T ss_pred             EEEcCCceeeecceEEEcCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            357887558888999999999999999999999999999987653

>PRK13796 GTPase YqeH; Provisional

Probab=97.28  E-value=0.00038  Score=66.60  Aligned_cols=58  Identities=16%  Similarity=0.177  Sum_probs=35.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCC----CCCCCcceEEeeEEeecCcceEEEEEEEcCCch
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFED----ASDSSSELLVNGWTINTKYYTADVSLWMAHLHE  109 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~----~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e  109 (289)
                      ..++.|+|.+|||||||+|+|+......    ...+..|++.....+...+.   ..++||||..
T Consensus       160 ~~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~~~~l~~~---~~l~DTPGi~  221 (365)
T PRK13796        160 GRDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKIEIPLDDG---SFLYDTPGII  221 (365)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCccceeEEEEcCCC---cEEEECCCcc
Confidence            4579999999999999999998643111    11122222222222222211   4799999973

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=97.28  E-value=0.00024  Score=67.49  Aligned_cols=45  Identities=20%  Similarity=0.245  Sum_probs=40.8

Q ss_pred             heecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           30 VLIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        30 ~~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      ...||...++++.+.++.++--++++|||||||||+++.+.+-+.
T Consensus        12 ~k~yg~~~av~~isl~i~~Gef~~lLGPSGcGKTTlLR~IAGfe~   56 (352)
T COG3842          12 SKSFGDFTAVDDISLDIKKGEFVTLLGPSGCGKTTLLRMIAGFEQ   56 (352)
T ss_pred             eeecCCeeEEecceeeecCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            467998999999999999998899999999999999999987664

>TIGR00092 GTP-binding protein YchF

Probab=97.26  E-value=0.00068  Score=64.84  Aligned_cols=83  Identities=12%  Similarity=-0.102  Sum_probs=53.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCC-CC-CCCCC-cceEEeeEEeecC-------------cceEEEEEEEcCCchhh--
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNF-ED-ASDSS-SELLVNGWTINTK-------------YYTADVSLWMAHLHEEF--  111 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~-~~-~~~~t-~~~~~~~~~i~~~-------------~~~~~l~I~Dt~G~e~~--  111 (289)
                      +|+.|+|.||+|||||++.+.+... .. .|..+ +........+.+.             -....+.+.|.||.-.-  
T Consensus         3 lk~GivGlPn~GKSTlfnaLT~~~~~~~a~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~gAs   82 (368)
T TIGR00092         3 LSGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGGAS   82 (368)
T ss_pred             ceEEEECCCCCChHHHHHHHhCCCccccCCCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccchh
Confidence            7899999999999999999998875 32 23333 3322222222221             01245789999985321  


Q ss_pred             --hcccc---ccccCccEEEEEEeCC
Q 040295          112 --SIRSL---PISDQLTALVMVFNLN  132 (289)
Q Consensus       112 --~~~~~---~~~~~ad~vIlV~Dv~  132 (289)
                        ..+.+   ..++.+|+++.|.+..
T Consensus        83 ~g~Glgn~fL~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        83 KGEGLGNQFLANIREVDIIQHVVRCF  108 (368)
T ss_pred             cccCcchHHHHHHHhCCEEEEEEeCC
Confidence              11222   3477899999999974

This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.

>KOG0057 consensus Mitochondrial Fe/S cluster exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.24  E-value=0.00059  Score=67.57  Aligned_cols=41  Identities=29%  Similarity=0.425  Sum_probs=37.0

Q ss_pred             eecCCcc-cccccccccCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           31 LIFGRQE-MDSTDRASLEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        31 ~~~g~~~-~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..||... ++++.+++.+.+-||+|+|++||||||+++.++.
T Consensus       359 f~y~~k~~iL~gvsf~I~kGekVaIvG~nGsGKSTilr~Llr  400 (591)
T KOG0057|consen  359 FSYGPKRKVLKGVSFTIPKGEKVAIVGSNGSGKSTILRLLLR  400 (591)
T ss_pred             EEeCCCCceecceeEEecCCCEEEEECCCCCCHHHHHHHHHH
Confidence            3567766 9999999999999999999999999999999874

>PRK01889 GTPase RsgA; Reviewed

Probab=97.24  E-value=0.0018  Score=61.77  Aligned_cols=48  Identities=19%  Similarity=0.199  Sum_probs=38.3

Q ss_pred             cccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          118 ISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       118 ~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ...++|.+++|+++...-....+..++..+...+.+| ++|.||+||.+
T Consensus       109 iaANvD~vliV~s~~p~~~~~~ldr~L~~a~~~~i~p-iIVLNK~DL~~  156 (356)
T PRK01889        109 IAANVDTVFIVCSLNHDFNLRRIERYLALAWESGAEP-VIVLTKADLCE  156 (356)
T ss_pred             EEEeCCEEEEEEecCCCCChhHHHHHHHHHHHcCCCE-EEEEEChhcCC
Confidence            3578999999999986666667778888887777766 45899999964

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.19  E-value=0.002  Score=59.25  Aligned_cols=65  Identities=15%  Similarity=0.096  Sum_probs=38.4

Q ss_pred             eEEEEEEEcCCchhhhccc------------cccccCccEEEEEEeCCC-HhhHHHHHHHHHHhhhcCCCeEEEEeeCCC
Q 040295           97 TADVSLWMAHLHEEFSIRS------------LPISDQLTALVMVFNLND-LSTLDALKHWVPSIDLQKFEILLCIGNKVD  163 (289)
Q Consensus        97 ~~~l~I~Dt~G~e~~~~~~------------~~~~~~ad~vIlV~Dv~~-~~S~~~l~~~~~~i~~~~~~~iivvgnK~D  163 (289)
                      .+++.|.||||........            ...-..+|.+++|.|.+- .+.+..+..+...+     ++--+|.||.|
T Consensus       154 ~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~f~~~~-----~~~g~IlTKlD  228 (272)
T TIGR00064       154 NIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQNALEQAKVFNEAV-----GLTGIILTKLD  228 (272)
T ss_pred             CCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCHHHHHHHHHHHhhC-----CCCEEEEEccC
Confidence            3678999999965332211            011224889999999973 34444443333222     23455789999


Q ss_pred             CCC
Q 040295          164 LLP  166 (289)
Q Consensus       164 l~~  166 (289)
                      ...
T Consensus       229 e~~  231 (272)
T TIGR00064       229 GTA  231 (272)
T ss_pred             CCC
Confidence            964

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>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=97.18  E-value=0.0025  Score=54.89  Aligned_cols=120  Identities=12%  Similarity=0.037  Sum_probs=67.0

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcc-eEEeeEEeecCcceEEEEEEEcC-Cc
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSE-LLVNGWTINTKYYTADVSLWMAH-LH  108 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~-~~~~~~~i~~~~~~~~l~I~Dt~-G~  108 (289)
                      ..||...++.. .....++-.++|+|++|+|||||++.+.+-..+     +.| ..+....+.     +..+-.... |+
T Consensus         8 ~~~~~~~~l~~-~~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p-----~~G~i~~~g~~i~-----~~~q~~~LSgGq   76 (177)
T cd03222           8 KRYGVFFLLVE-LGVVKEGEVIGIVGPNGTGKTTAVKILAGQLIP-----NGDNDEWDGITPV-----YKPQYIDLSGGE   76 (177)
T ss_pred             EEECCEEEEcc-CcEECCCCEEEEECCCCChHHHHHHHHHcCCCC-----CCcEEEECCEEEE-----EEcccCCCCHHH
Confidence            45777666654 467888899999999999999999999876432     222 122111100     000000122 22


Q ss_pred             hhhhccccccccCccEEEEEEeC-C---CHhhHHHHHHHHHHhhhcCCCeEEEEeeCCC
Q 040295          109 EEFSIRSLPISDQLTALVMVFNL-N---DLSTLDALKHWVPSIDLQKFEILLCIGNKVD  163 (289)
Q Consensus       109 e~~~~~~~~~~~~ad~vIlV~Dv-~---~~~S~~~l~~~~~~i~~~~~~~iivvgnK~D  163 (289)
                      ..--.+....+...+  ++++|= +   |+.+-+.+..++..+.......+|++....+
T Consensus        77 ~qrv~laral~~~p~--lllLDEPts~LD~~~~~~l~~~l~~~~~~~~~tiiivsH~~~  133 (177)
T cd03222          77 LQRVAIAAALLRNAT--FYLFDEPSAYLDIEQRLNAARAIRRLSEEGKKTALVVEHDLA  133 (177)
T ss_pred             HHHHHHHHHHhcCCC--EEEEECCcccCCHHHHHHHHHHHHHHHHcCCCEEEEEECCHH
Confidence            222233344455555  444452 2   6777777777777775543345666555443

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.

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=97.14  E-value=0.0066  Score=57.29  Aligned_cols=115  Identities=16%  Similarity=0.182  Sum_probs=70.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhc-------CCCCC--CC-----CCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLS-------VNFED--AS-----DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI  113 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~-------~~~~~--~~-----~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~  113 (289)
                      +-.+|.-+|.-.-|||||-..+..       .++..  +.     ...-|.......+.+....-..-=.|+||+..|-.
T Consensus        53 PHvNVGTIGHVDHGKTTLTaAITkila~~g~A~~~kydeID~APEEkaRGITIn~aHveYeTa~RhYaH~DCPGHADYIK  132 (449)
T KOG0460|consen   53 PHVNVGTIGHVDHGKTTLTAAITKILAEKGGAKFKKYDEIDKAPEEKARGITINAAHVEYETAKRHYAHTDCPGHADYIK  132 (449)
T ss_pred             CcccccccccccCCchhHHHHHHHHHHhccccccccHhhhhcChhhhhccceEeeeeeeeeccccccccCCCCchHHHHH
Confidence            346789999999999999877653       11110  00     01111222222222221122233469999998866


Q ss_pred             cccccccCccEEEEEEeCCCH---hhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          114 RSLPISDQLTALVMVFNLNDL---STLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       114 ~~~~~~~~ad~vIlV~Dv~~~---~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ..-.-..+.|++|+|+..+|.   ++-+.+-    ..+.-+.+.++|..||.|+.+
T Consensus       133 NMItGaaqMDGaILVVaatDG~MPQTrEHlL----LArQVGV~~ivvfiNKvD~V~  184 (449)
T KOG0460|consen  133 NMITGAAQMDGAILVVAATDGPMPQTREHLL----LARQVGVKHIVVFINKVDLVD  184 (449)
T ss_pred             HhhcCccccCceEEEEEcCCCCCcchHHHHH----HHHHcCCceEEEEEecccccC
Confidence            665667788999999999974   4444432    223335567888999999974

>cd01854 YjeQ_engC YjeQ/EngC

Probab=97.12  E-value=0.0011  Score=61.46  Aligned_cols=25  Identities=32%  Similarity=0.441  Sum_probs=22.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      -.++++|++|||||||+|.+++...
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~~~  186 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPDLD  186 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhchhh
Confidence            4699999999999999999998654

YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=97.12  E-value=0.0021  Score=59.46  Aligned_cols=87  Identities=20%  Similarity=0.178  Sum_probs=56.7

Q ss_pred             cccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCC
Q 040295          116 LPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGI  195 (289)
Q Consensus       116 ~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~  195 (289)
                      ...++.+|++++|.|...+.+.+.  .++....  ...|+++|.||+|+.+.     ...+.                  
T Consensus        19 ~~~l~~aDvIL~VvDar~p~~~~~--~~l~~~~--~~kp~iiVlNK~DL~~~-----~~~~~------------------   71 (287)
T PRK09563         19 KENLKLVDVVIEVLDARIPLSSEN--PMIDKII--GNKPRLLILNKSDLADP-----EVTKK------------------   71 (287)
T ss_pred             HHHhhhCCEEEEEEECCCCCCCCC--hhHHHHh--CCCCEEEEEEchhcCCH-----HHHHH------------------
Confidence            356788999999999987644322  1122221  14588999999999531     00000                  


Q ss_pred             CcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          196 SETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                           ..++....+.+++.+||+++            .|+.++.+.+...+
T Consensus        72 ---------------------~~~~~~~~~~~vi~vSa~~~------------~gi~~L~~~l~~~l  105 (287)
T PRK09563         72 ---------------------WIEYFEEQGIKALAINAKKG------------QGVKKILKAAKKLL  105 (287)
T ss_pred             ---------------------HHHHHHHcCCeEEEEECCCc------------ccHHHHHHHHHHHH
Confidence                                 11222334567899999999            99999998887754

>KOG1487 consensus GTP-binding protein DRG1 (ODN superfamily) [Signal transduction mechanisms]

Probab=97.11  E-value=0.0051  Score=56.07  Aligned_cols=88  Identities=17%  Similarity=0.115  Sum_probs=57.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCC-CCCCcceEEeeEEeecCcceEEEEEEEcCCch--------hhhcccccccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDA-SDSSSELLVNGWTINTKYYTADVSLWMAHLHE--------EFSIRSLPISD  120 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~-~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e--------~~~~~~~~~~~  120 (289)
                      .||.++|-|++||||++..+.+...... |..|.- ...+-.+  .++..++++.|.||.=        +-+++. ...+
T Consensus        60 a~vg~vgFPSvGksTl~~~l~g~~s~vasyefttl-~~vpG~~--~y~gaKiqlldlpgiiegakdgkgrg~qvi-avar  135 (358)
T KOG1487|consen   60 ARVGFVGFPSVGKSTLLSKLTGTFSEVAAYEFTTL-TTVPGVI--RYKGAKIQLLDLPGIIEGAKDGKGRGKQVI-AVAR  135 (358)
T ss_pred             eeeeEEecCccchhhhhhhhcCCCCccccccceeE-EEecceE--eccccceeeecCcchhcccccCCCCccEEE-EEee
Confidence            3799999999999999999976543322 222211 1112222  2334679999999741        112222 3456


Q ss_pred             CccEEEEEEeCCCHhhHHHHH
Q 040295          121 QLTALVMVFNLNDLSTLDALK  141 (289)
Q Consensus       121 ~ad~vIlV~Dv~~~~S~~~l~  141 (289)
                      .+..+++|.|+-.|-+-..+-
T Consensus       136 tcnli~~vld~~kp~~hk~~i  156 (358)
T KOG1487|consen  136 TCNLIFIVLDVLKPLSHKKII  156 (358)
T ss_pred             cccEEEEEeeccCcccHHHHH
Confidence            789999999999887776654

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=97.09  E-value=0.0041  Score=55.83  Aligned_cols=63  Identities=14%  Similarity=0.132  Sum_probs=43.9

Q ss_pred             EEEEEEcC-CchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCC
Q 040295           99 DVSLWMAH-LHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLL  165 (289)
Q Consensus        99 ~l~I~Dt~-G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~  165 (289)
                      ++.+.||- |.|.|.   +...+++|.+|+|.|.+ .+++....+...-......+++.+|.||.|-.
T Consensus       135 e~VivDtEAGiEHfg---Rg~~~~vD~vivVvDpS-~~sl~taeri~~L~~elg~k~i~~V~NKv~e~  198 (255)
T COG3640         135 EVVIVDTEAGIEHFG---RGTIEGVDLVIVVVDPS-YKSLRTAERIKELAEELGIKRIFVVLNKVDEE  198 (255)
T ss_pred             cEEEEecccchhhhc---cccccCCCEEEEEeCCc-HHHHHHHHHHHHHHHHhCCceEEEEEeeccch
Confidence            35566664 667664   35678899999999987 55665555544444444457899999999973

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=97.09  E-value=0.00047  Score=60.28  Aligned_cols=41  Identities=17%  Similarity=0.282  Sum_probs=35.2

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.++...++ .++|+|++|+|||||++.+.+-.
T Consensus         9 ~~~~~~~l~~vs~~i~~g-~~~i~G~nGsGKSTLl~~l~Gl~   49 (211)
T cd03264           9 RYGKKRALDGVSLTLGPG-MYGLLGPNGAGKTTLMRILATLT   49 (211)
T ss_pred             EECCEEEEcceeEEEcCC-cEEEECCCCCCHHHHHHHHhCCC
Confidence            355556788899999999 99999999999999999998754

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.

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.08  E-value=0.00088  Score=62.18  Aligned_cols=57  Identities=14%  Similarity=0.099  Sum_probs=0.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhc------CCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhh
Q 040295           52 ILIIGSSNVGKRTILSRLLS------VNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF  111 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~------~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~  111 (289)
                      .+++|.||||||||+|+|..      ++.+......-=++.....+...+..   .|.||||...|
T Consensus       167 svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~~gG---~iiDTPGf~~~  229 (301)
T COG1162         167 TVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPLPGGG---WIIDTPGFRSL  229 (301)
T ss_pred             EEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEcCCCC---EEEeCCCCCcc

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.07  E-value=0.00055  Score=61.46  Aligned_cols=41  Identities=24%  Similarity=0.346  Sum_probs=37.5

Q ss_pred             eec-CCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           31 LIF-GRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        31 ~~~-g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..| |+..+++..+....++--|+|+|++|+|||||++.+.+
T Consensus        11 k~yp~~~~aL~~Vnl~I~~GE~VaiIG~SGaGKSTLLR~lng   52 (258)
T COG3638          11 KTYPGGHQALKDVNLEINQGEMVAIIGPSGAGKSTLLRSLNG   52 (258)
T ss_pred             eecCCCceeeeeEeEEeCCCcEEEEECCCCCcHHHHHHHHhc
Confidence            356 88889999999999999999999999999999999976

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=97.07  E-value=0.0006  Score=61.02  Aligned_cols=38  Identities=26%  Similarity=0.270  Sum_probs=34.3

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      .+++..+.+..++--|+|+|+||||||||++.+.+-.-
T Consensus        19 ~~L~~v~l~i~~Ge~vaI~GpSGSGKSTLLniig~ld~   56 (226)
T COG1136          19 EALKDVNLEIEAGEFVAIVGPSGSGKSTLLNLLGGLDK   56 (226)
T ss_pred             EecccceEEEcCCCEEEEECCCCCCHHHHHHHHhcccC
Confidence            67888999999999999999999999999999976553

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=97.06  E-value=0.00058  Score=59.51  Aligned_cols=42  Identities=19%  Similarity=0.194  Sum_probs=36.8

Q ss_pred             ecCC-cccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGR-QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~-~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+. ..++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus         8 ~~~~~~~~l~~v~~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226           8 SYKKGTEILDDLSLDLYAGEIIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             EeCCcCceeeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4555 56888899999999999999999999999999998764

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.

>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=97.06  E-value=0.00057  Score=60.45  Aligned_cols=42  Identities=26%  Similarity=0.321  Sum_probs=37.1

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..+++..++-.++|+|++|+|||||++.+.+..
T Consensus         9 ~~~~~~~l~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260           9 YYGDKHALKDISLDIPKGEITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             EcCCceeeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            456667888899999999999999999999999999998764

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).

>PRK14974 cell division protein FtsY; Provisional

Probab=97.06  E-value=0.0019  Score=61.19  Aligned_cols=64  Identities=16%  Similarity=0.027  Sum_probs=36.1

Q ss_pred             EEEEEEEcCCchhhhc-cc---ccc--ccCccEEEEEEeCCCH-hhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295           98 ADVSLWMAHLHEEFSI-RS---LPI--SDQLTALVMVFNLNDL-STLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        98 ~~l~I~Dt~G~e~~~~-~~---~~~--~~~ad~vIlV~Dv~~~-~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      +++.+.||+|...... +.   ..+  ....+.+++|.|.+-. +..+.+..+...+.     +--+|.||.|...
T Consensus       223 ~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~~~~a~~f~~~~~-----~~giIlTKlD~~~  293 (336)
T PRK14974        223 IDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDAVEQAREFNEAVG-----IDGVILTKVDADA  293 (336)
T ss_pred             CCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhHHHHHHHHHhcCC-----CCEEEEeeecCCC
Confidence            4689999999653211 11   111  2247889999998753 22333333222221     2344689999965

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=97.06  E-value=0.00059  Score=58.76  Aligned_cols=41  Identities=22%  Similarity=0.255  Sum_probs=35.9

Q ss_pred             cCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           33 FGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        33 ~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      |+...++++.+++..++-.++|+|++|+|||||++.+.+..
T Consensus         2 ~~~~~il~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166         2 PGGPEVLKGLNFAAERGEVLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             CCccceecceeEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            35556788899999999999999999999999999998754

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.

>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=97.06  E-value=0.0006  Score=60.08  Aligned_cols=42  Identities=17%  Similarity=0.200  Sum_probs=36.9

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..++...++-.++|+|++|+|||||++.+.+..
T Consensus         9 ~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (220)
T cd03265           9 KYGDFEAVRGVSFRVRRGEIFGLLGPNGAGKTTTIKMLTTLL   50 (220)
T ss_pred             EECCEEeeeceeEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            456667888899999999999999999999999999998754

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.

>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=97.06  E-value=0.00056  Score=60.89  Aligned_cols=42  Identities=24%  Similarity=0.337  Sum_probs=37.0

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..+++..++-.++|+|++|+|||||++.+.+..
T Consensus         9 ~~~~~~~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261           9 SFGGRTVLKGVDLDVRRGEILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             EECCEEEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            456566888899999999999999999999999999998754

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.

>KOG1491 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=97.05  E-value=0.0017  Score=61.06  Aligned_cols=85  Identities=15%  Similarity=0.004  Sum_probs=52.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCC-CCC-CcceEEeeEEeec-------------CcceEEEEEEEcCCchhh-
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDA-SDS-SSELLVNGWTINT-------------KYYTADVSLWMAHLHEEF-  111 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~-~~~-t~~~~~~~~~i~~-------------~~~~~~l~I~Dt~G~e~~-  111 (289)
                      ..+|+.|+|-+|||||||+|.+.+...... ++. |+........+..             ......++++|++|.-+- 
T Consensus        19 ~~lkiGIVGlPNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvkGA   98 (391)
T KOG1491|consen   19 NNLKIGIVGLPNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVKGA   98 (391)
T ss_pred             CcceeeEeeCCCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecccccCc
Confidence            458999999999999999999998765322 221 2222222222211             122456899999985322 


Q ss_pred             ---hccccc---cccCccEEEEEEeCC
Q 040295          112 ---SIRSLP---ISDQLTALVMVFNLN  132 (289)
Q Consensus       112 ---~~~~~~---~~~~ad~vIlV~Dv~  132 (289)
                         ..+.+.   -++.+|+++-|+++.
T Consensus        99 s~G~GLGN~FLs~iR~vDaifhVVr~f  125 (391)
T KOG1491|consen   99 SAGEGLGNKFLSHIRHVDAIFHVVRAF  125 (391)
T ss_pred             ccCcCchHHHHHhhhhccceeEEEEec
Confidence               222233   367789998888743

>PRK13695 putative NTPase; Provisional

Probab=97.05  E-value=0.0095  Score=50.54  Aligned_cols=22  Identities=32%  Similarity=0.452  Sum_probs=19.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +||+|.|++|+|||||+..+.+
T Consensus         1 ~~i~ltG~~G~GKTTll~~i~~   22 (174)
T PRK13695          1 MKIGITGPPGVGKTTLVLKIAE   22 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999998654

>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=97.05  E-value=0.00053  Score=60.30  Aligned_cols=42  Identities=14%  Similarity=0.311  Sum_probs=36.5

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..++...++-.++|+|++|+|||||++.+.+..
T Consensus         9 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   50 (222)
T cd03224           9 GYGKSQILFGVSLTVPEGEIVALLGRNGAGKTTLLKTIMGLL   50 (222)
T ss_pred             ecCCeeEeeeeeEEEcCCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            455556788899999999999999999999999999987654

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.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=97.05  E-value=0.00061  Score=59.51  Aligned_cols=42  Identities=21%  Similarity=0.265  Sum_probs=36.3

Q ss_pred             ecCC--cccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGR--QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~--~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+.  ..++++.+++..++-.++|+|++|+|||||++.+.+..
T Consensus         8 ~~~~~~~~il~~vs~~i~~G~~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225           8 SYPDGARPALDDISLTIKKGEFVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             ecCCCCeeeecceEEEEcCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            3554  56788899999999999999999999999999998764

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.

>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=97.04  E-value=0.0006  Score=59.86  Aligned_cols=38  Identities=29%  Similarity=0.302  Sum_probs=34.5

Q ss_pred             cccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           36 QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        36 ~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus        17 ~~il~~~s~~i~~G~~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          17 VQALKGVSLSIEKGEFVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             eeEEeeeEEEEcCCCEEEEEcCCCCCHHHHHHHHhCCc
Confidence            46788899999999999999999999999999998764

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.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=97.04  E-value=0.00062  Score=59.60  Aligned_cols=42  Identities=19%  Similarity=0.302  Sum_probs=36.5

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.+++..++-.++|+|++|+|||||++.+.+..
T Consensus         9 ~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03259           9 TYGSVRALDDLSLTVEPGEFLALLGPSGCGKTTLLRLIAGLE   50 (213)
T ss_pred             EeCCeeeecceeEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            455556788899999999999999999999999999998754

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=97.04  E-value=0.00064  Score=59.46  Aligned_cols=42  Identities=19%  Similarity=0.290  Sum_probs=37.0

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.+++..++-.++|+|++|+|||||++.+.+..
T Consensus         9 ~~~~~~~l~~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03301           9 RFGNVTALDDLNLDIADGEFVVLLGPSGCGKTTTLRMIAGLE   50 (213)
T ss_pred             EECCeeeeeceEEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            455567888899999999999999999999999999998764

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.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=97.04  E-value=0.00062  Score=62.09  Aligned_cols=42  Identities=24%  Similarity=0.274  Sum_probs=38.3

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..|+...++++.+++..++--++|+||.|||||||++.+.+-
T Consensus        10 ~~y~~~~il~~ls~~i~~G~i~~iiGpNG~GKSTLLk~l~g~   51 (258)
T COG1120          10 FGYGGKPILDDLSFSIPKGEITGILGPNGSGKSTLLKCLAGL   51 (258)
T ss_pred             EEECCeeEEecceEEecCCcEEEEECCCCCCHHHHHHHHhcc
Confidence            467888899999999999999999999999999999999874

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=97.02  E-value=0.0007  Score=59.17  Aligned_cols=42  Identities=26%  Similarity=0.334  Sum_probs=36.8

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..++...++-.++|+|++|+|||||++.+.+..
T Consensus         9 ~~~~~~~l~~~s~~i~~G~~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03262           9 SFGDFHVLKGIDLTVKKGEVVVIIGPSGSGKSTLLRCINLLE   50 (213)
T ss_pred             EECCeEeecCceEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            355556788899999999999999999999999999998764

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

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=97.01  E-value=0.00065  Score=59.05  Aligned_cols=42  Identities=29%  Similarity=0.327  Sum_probs=36.9

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..++...++-.++|+|++|+|||||++.+.+..
T Consensus         7 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   48 (206)
T TIGR03608         7 KFGDKIILDDLNLTIEKGKMYAIIGESGSGKSTLLNIIGLLE   48 (206)
T ss_pred             EECCEEEEeceEEEEeCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            455556888899999999999999999999999999998764

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.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=97.01  E-value=0.00065  Score=59.35  Aligned_cols=42  Identities=26%  Similarity=0.312  Sum_probs=36.8

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.+++..++-.++|+|++|+|||||++.+.+..
T Consensus         9 ~~~~~~~l~~v~~~i~~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (210)
T cd03269           9 RFGRVTALDDISFSVEKGEIFGLLGPNGAGKTTTIRMILGII   50 (210)
T ss_pred             EECCEEEEeeeEEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            455556788899999999999999999999999999998764

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.

>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=97.00  E-value=0.00071  Score=59.96  Aligned_cols=42  Identities=14%  Similarity=0.294  Sum_probs=36.9

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..++...++-.++|+|++|+|||||++.+.+..
T Consensus         9 ~~~~~~~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   50 (232)
T cd03218           9 RYGKRKVVNGVSLSVKQGEIVGLLGPNGAGKTTTFYMIVGLV   50 (232)
T ss_pred             EeCCEEeeccceeEecCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            456556888899999999999999999999999999998764

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.

>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=96.99  E-value=0.00074  Score=60.36  Aligned_cols=47  Identities=21%  Similarity=0.115  Sum_probs=41.7

Q ss_pred             hhhheecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           27 FVRVLIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        27 ~~~~~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ......||...++++.++...++-.++|+|+.|+|||||++.+.+..
T Consensus        25 ~~~~~~~~~~~il~~vs~~i~~Ge~~~i~G~NGsGKSTLl~~i~Gl~   71 (236)
T cd03267          25 SLFKRKYREVEALKGISFTIEKGEIVGFIGPNGAGKTTTLKILSGLL   71 (236)
T ss_pred             HHHhcccCCeeeeeceeEEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            33457888888999999999999999999999999999999998764

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.

>PRK00098 GTPase RsgA; Reviewed

Probab=96.99  E-value=0.0013  Score=61.14  Aligned_cols=26  Identities=31%  Similarity=0.305  Sum_probs=22.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      +..++++|++|||||||+|.+++...
T Consensus       164 gk~~~~~G~sgvGKStlin~l~~~~~  189 (298)
T PRK00098        164 GKVTVLAGQSGVGKSTLLNALAPDLE  189 (298)
T ss_pred             CceEEEECCCCCCHHHHHHHHhCCcC
Confidence            44699999999999999999987653

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.99  E-value=0.00073  Score=57.02  Aligned_cols=42  Identities=19%  Similarity=0.249  Sum_probs=36.6

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..++...++-.++|+|++|+|||||++.+.+..
T Consensus         9 ~~~~~~vl~~i~~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~   50 (163)
T cd03216           9 RFGGVKALDGVSLSVRRGEVHALLGENGAGKSTLMKILSGLY   50 (163)
T ss_pred             EECCeEEEeeeEEEEeCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455556888899999999999999999999999999998765

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.

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=96.99  E-value=0.00072  Score=61.52  Aligned_cols=42  Identities=19%  Similarity=0.310  Sum_probs=37.3

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus        21 ~~~~~~il~~isl~i~~Ge~~~I~G~NGsGKSTLlk~l~Gl~   62 (257)
T PRK11247         21 RYGERTVLNQLDLHIPAGQFVAVVGRSGCGKSTLLRLLAGLE   62 (257)
T ss_pred             EECCcceeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            456667888999999999999999999999999999998764

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=96.99  E-value=0.00073  Score=60.84  Aligned_cols=44  Identities=20%  Similarity=0.332  Sum_probs=38.8

Q ss_pred             eecCCcc----cccccccccCCCceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           31 LIFGRQE----MDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        31 ~~~g~~~----~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      ..|+...    ++++.+++..++-.+.|+|++|||||||.+.+.+-.-
T Consensus        11 ~~y~~~~~~~~~l~~VS~~i~~Ge~lgivGeSGsGKSTL~r~l~Gl~~   58 (252)
T COG1124          11 IVYGGGKFAFHALNNVSLEIERGETLGIVGESGSGKSTLARLLAGLEK   58 (252)
T ss_pred             EEecCCcchhhhhcceeEEecCCCEEEEEcCCCCCHHHHHHHHhcccC
Confidence            4566666    9999999999999999999999999999999987653

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=96.98  E-value=0.00078  Score=60.12  Aligned_cols=42  Identities=19%  Similarity=0.260  Sum_probs=36.4

Q ss_pred             ecC-CcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFG-RQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g-~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+ ...++++.+++..++-.++|+|++|+|||||++.+.+..
T Consensus        10 ~~~~~~~il~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   52 (243)
T TIGR02315        10 VYPNGKQALKNINLNINPGEFVAIIGPSGAGKSTLLRCINRLV   52 (243)
T ss_pred             ecCCCcceeecceEEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            355 456888899999999999999999999999999998754

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.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=96.98  E-value=0.00072  Score=59.22  Aligned_cols=42  Identities=19%  Similarity=0.314  Sum_probs=36.5

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..+++..++-.++|+|++|+|||||++.+.+..
T Consensus         8 ~~~~~~~l~~isl~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   49 (213)
T cd03235           8 SYGGHPVLEDVSFEVKPGEFLAIVGPNGAGKSTLLKAILGLL   49 (213)
T ss_pred             EECCEEeeecceeEEcCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            455556788899999999999999999999999999998754

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.

>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=96.98  E-value=0.00073  Score=60.06  Aligned_cols=42  Identities=19%  Similarity=0.139  Sum_probs=36.4

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.+++..++-.++|+|++|+|||||++.+.+..
T Consensus         9 ~~~~~~~l~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   50 (236)
T cd03219           9 RFGGLVALDDVSFSVRPGEIHGLIGPNGAGKTTLFNLISGFL   50 (236)
T ss_pred             EECCEEEecCceEEecCCcEEEEECCCCCCHHHHHHHHcCCC
Confidence            355556788899999999999999999999999999998754

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).

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=96.96  E-value=0.00084  Score=59.22  Aligned_cols=37  Identities=22%  Similarity=0.272  Sum_probs=33.9

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .++++.+++..++-.++|+|++|+|||||++.+.+..
T Consensus        19 ~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   55 (228)
T cd03257          19 KALDDVSFSIKKGETLGLVGESGSGKSTLARAILGLL   55 (228)
T ss_pred             eeecCceeEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            5788899999999999999999999999999998764

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.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=96.96  E-value=0.00083  Score=59.83  Aligned_cols=42  Identities=21%  Similarity=0.252  Sum_probs=36.7

Q ss_pred             ecCC-cccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGR-QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~-~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+. ..++++.+++..++-.++|+|++|+|||||++.+.+..
T Consensus         9 ~~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (241)
T cd03256           9 TYPNGKKALKDVSLSINPGEFVALIGPSGAGKSTLLRCLNGLV   51 (241)
T ss_pred             ecCCccEEEecceEEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            4554 56788899999999999999999999999999998764

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.

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=96.95  E-value=0.00081  Score=58.31  Aligned_cols=42  Identities=19%  Similarity=0.246  Sum_probs=37.1

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..++...++-.++|+|+.|+|||||++.+.+..
T Consensus         9 ~~~~~~~l~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (198)
T TIGR01189         9 SRGERMLFEGLSFTLNAGEALQVTGPNGIGKTTLLRILAGLL   50 (198)
T ss_pred             EECCEEEEeeeeEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            356667888899999999999999999999999999998764

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.

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=96.95  E-value=0.00082  Score=60.09  Aligned_cols=42  Identities=17%  Similarity=0.294  Sum_probs=37.2

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus        11 ~~~~~~il~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (242)
T PRK11124         11 FYGAHQALFDITLDCPQGETLVLLGPSGAGKSSLLRVLNLLE   52 (242)
T ss_pred             EECCeeeEeeeeeEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            456667888899999999999999999999999999998764

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=96.95  E-value=0.00082  Score=59.55  Aligned_cols=42  Identities=21%  Similarity=0.363  Sum_probs=37.0

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..+++..++-.++|+|++|+|||||++.+.+..
T Consensus         9 ~~~~~~~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (230)
T TIGR03410         9 YYGQSHILRGVSLEVPKGEVTCVLGRNGVGKTTLLKTLMGLL   50 (230)
T ss_pred             EeCCeEEecceeeEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            456567888899999999999999999999999999998764

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.

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.95  E-value=0.00084  Score=58.39  Aligned_cols=42  Identities=19%  Similarity=0.159  Sum_probs=36.8

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..+++..++-.++|+|++|+|||||++.+.+..
T Consensus        10 ~~~~~~il~~~s~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~   51 (200)
T PRK13540         10 DYHDQPLLQQISFHLPAGGLLHLKGSNGAGKTTLLKLIAGLL   51 (200)
T ss_pred             EeCCeeEEeeeeEEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            355556888899999999999999999999999999998764

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=96.94  E-value=0.00084  Score=59.87  Aligned_cols=41  Identities=17%  Similarity=0.171  Sum_probs=36.3

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .|+...++++.++...++-.++|+|++|+|||||++.+.+.
T Consensus         9 ~~~~~~~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978         9 SVEDKEILKGVNLTVKKGEIHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             EECCEEEEeccceEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            35555678889999999999999999999999999999876

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.

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=96.92  E-value=0.00078  Score=59.80  Aligned_cols=43  Identities=21%  Similarity=0.160  Sum_probs=39.3

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...++++.+++..++-.++|+|++|+|||||++.+.+..
T Consensus        30 ~~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   72 (224)
T cd03220          30 GEVGEFWALKDVSFEVPRGERIGLIGRNGAGKSTLLRLLAGIY   72 (224)
T ss_pred             hhcCCeEEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3788888999999999999999999999999999999998754

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.

>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=96.92  E-value=0.00083  Score=59.16  Aligned_cols=38  Identities=21%  Similarity=0.258  Sum_probs=34.2

Q ss_pred             cccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           36 QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        36 ~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus        17 ~~il~~vs~~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~   54 (220)
T cd03293          17 VTALEDISLSVEEGEFVALVGPSGCGKSTLLRIIAGLE   54 (220)
T ss_pred             eEEEeceeEEEeCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            46788889999999999999999999999999998764

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=96.92  E-value=0.0009  Score=58.36  Aligned_cols=42  Identities=17%  Similarity=0.271  Sum_probs=36.9

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..+++..++-.++|+|++|+|||||++.+.+..
T Consensus         9 ~~~~~~~l~~~~~~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~   50 (208)
T cd03268           9 TYGKKRVLDDISLHVKKGEIYGFLGPNGAGKTTTMKIILGLI   50 (208)
T ss_pred             EECCeEeEeeeEEEEcCCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            355567888899999999999999999999999999998764

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.

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=96.92  E-value=0.00085  Score=59.93  Aligned_cols=42  Identities=10%  Similarity=0.196  Sum_probs=37.1

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus        12 ~~~~~~~l~~~sl~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   53 (241)
T PRK10895         12 AYKGRRVVEDVSLTVNSGEIVGLLGPNGAGKTTTFYMVVGIV   53 (241)
T ss_pred             EeCCEEEEeeeeEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            356567888899999999999999999999999999998764

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=96.92  E-value=0.00089  Score=60.69  Aligned_cols=42  Identities=21%  Similarity=0.316  Sum_probs=36.9

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus        10 ~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (255)
T PRK11248         10 DYGGKPALEDINLTLESGELLVVLGPSGCGKTTLLNLIAGFV   51 (255)
T ss_pred             EeCCeeeEeeeeEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455556788899999999999999999999999999998764

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=96.92  E-value=0.00084  Score=60.72  Aligned_cols=42  Identities=26%  Similarity=0.359  Sum_probs=37.2

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus        13 ~~~~~~~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~laGl~   54 (258)
T PRK14241         13 YYGSFHAVEDVNLNIEPRSVTAFIGPSGCGKSTVLRTLNRMH   54 (258)
T ss_pred             EECCEeeeeeeeEEEcCCcEEEEECCCCCCHHHHHHHHhccC
Confidence            456567888899999999999999999999999999998864

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=96.91  E-value=0.00096  Score=58.65  Aligned_cols=42  Identities=17%  Similarity=0.144  Sum_probs=36.4

Q ss_pred             ecCC--cccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGR--QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~--~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+.  ..++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus         9 ~~~~~~~~il~~is~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263           9 TYKKGTKPAVDDLSLNVYKGEIFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             EeCCCCceeecceEEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3544  56888899999999999999999999999999998764

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.

>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=96.91  E-value=0.00096  Score=56.98  Aligned_cols=42  Identities=19%  Similarity=0.355  Sum_probs=36.4

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..+++..++-.++|+|++|+|||||++.+.+..
T Consensus         9 ~~~~~~~l~~i~~~i~~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (178)
T cd03229           9 RYGQKTVLNDVSLNIEAGEIVALLGPSGSGKSTLLRCIAGLE   50 (178)
T ss_pred             EECCeEEEeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            355556788889999999999999999999999999998654

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=96.91  E-value=0.00095  Score=58.42  Aligned_cols=42  Identities=19%  Similarity=0.267  Sum_probs=36.9

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.+++..++-.++|+|++|+|||||++.+.+..
T Consensus        11 ~~~~~~~l~~is~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (207)
T PRK13539         11 VRGGRVLFSGLSFTLAAGEALVLTGPNGSGKTTLLRLIAGLL   52 (207)
T ss_pred             EECCeEEEeceEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            355556788899999999999999999999999999998865

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.91  E-value=0.0025  Score=56.08  Aligned_cols=42  Identities=14%  Similarity=0.241  Sum_probs=34.8

Q ss_pred             ecCCcc--cccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQE--MDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~--~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|.+..  ++++.+....++--|+++|++|||||||+|-+.+--
T Consensus        12 ~y~g~~~~~le~vsL~ia~ge~vv~lGpSGcGKTTLLnl~AGf~   55 (259)
T COG4525          12 SYEGKPRSALEDVSLTIASGELVVVLGPSGCGKTTLLNLIAGFV   55 (259)
T ss_pred             ecCCcchhhhhccceeecCCCEEEEEcCCCccHHHHHHHHhcCc
Confidence            354444  777888899999999999999999999999887643

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=96.91  E-value=0.00085  Score=62.34  Aligned_cols=42  Identities=14%  Similarity=0.215  Sum_probs=37.5

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .||...++++.++...++-.++|+|+.|+|||||++.+.+--
T Consensus         2 ~y~~~~~l~~vs~~i~~Ge~~~l~G~NGaGKSTLl~~l~Gl~   43 (302)
T TIGR01188         2 VYGDFKAVDGVNFKVREGEVFGFLGPNGAGKTTTIRMLTTLL   43 (302)
T ss_pred             eeCCeeEEeeeeEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            467667888899999999999999999999999999998764

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.

>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=96.90  E-value=0.00096  Score=57.10  Aligned_cols=42  Identities=24%  Similarity=0.297  Sum_probs=36.4

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus         8 ~~~~~~~l~~~~~~i~~G~~~~l~G~nGsGKStLl~~i~G~~   49 (180)
T cd03214           8 GYGGRTVLDDLSLSIEAGEIVGILGPNGAGKSTLLKTLAGLL   49 (180)
T ss_pred             EECCeeeEeeeEEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455556788889999999999999999999999999998754

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.

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=96.90  E-value=0.001  Score=57.96  Aligned_cols=42  Identities=19%  Similarity=0.199  Sum_probs=36.6

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+....++..++...++-.++|+|++|+|||||++.+.+..
T Consensus         9 ~~~~~~~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (201)
T cd03231           9 ERDGRALFSGLSFTLAAGEALQVTGPNGSGKTTLLRILAGLS   50 (201)
T ss_pred             EeCCceeeccceEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            355566788899999999999999999999999999998764

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.

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=96.90  E-value=0.00094  Score=59.64  Aligned_cols=42  Identities=19%  Similarity=0.257  Sum_probs=36.8

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.+++..++-.++|+|++|+|||||++.+.+..
T Consensus        11 ~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (239)
T cd03296          11 RFGDFVALDDVSLDIPSGELVALLGPSGSGKTTLLRLIAGLE   52 (239)
T ss_pred             EECCEEeeeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455556888899999999999999999999999999998764

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.

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=96.89  E-value=0.001  Score=59.70  Aligned_cols=42  Identities=24%  Similarity=0.234  Sum_probs=36.8

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus        12 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   53 (250)
T PRK11264         12 KFHGQTVLHGIDLEVKPGEVVAIIGPSGSGKTTLLRCINLLE   53 (250)
T ss_pred             EECCeeeeccceEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            456556888899999999999999999999999999998754

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.89  E-value=0.00098  Score=59.87  Aligned_cols=42  Identities=21%  Similarity=0.272  Sum_probs=36.8

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.+++..++-.++|+|++|+|||||++.+.+..
T Consensus        12 ~~~~~~~l~~is~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   53 (250)
T PRK14247         12 SFGQVEVLDGVNLEIPDNTITALMGPSGSGKSTLLRVFNRLI   53 (250)
T ss_pred             EECCeeeeecceeEEcCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            456566888899999999999999999999999999998764

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=96.89  E-value=0.00094  Score=60.11  Aligned_cols=41  Identities=24%  Similarity=0.304  Sum_probs=36.4

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .|+...++++.++...++-.++|+|++|+|||||++.+.+.
T Consensus        15 ~~~~~~il~~is~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   55 (253)
T PRK14242         15 FYGDFQALHDISLEFEQNQVTALIGPSGCGKSTFLRCLNRM   55 (253)
T ss_pred             EECCeeeecceeEEEeCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            45555688889999999999999999999999999999875

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=96.89  E-value=0.0011  Score=58.07  Aligned_cols=39  Identities=21%  Similarity=0.197  Sum_probs=34.6

Q ss_pred             CcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           35 RQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        35 ~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ...++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus        14 ~~~il~~is~~i~~G~~~~l~G~nGsGKSTLl~~i~Gl~   52 (214)
T TIGR02673        14 GVAALHDVSLHIRKGEFLFLTGPSGAGKTTLLKLLYGAL   52 (214)
T ss_pred             CceeecceeEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            446788899999999999999999999999999998754

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.

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.88  E-value=0.001  Score=58.03  Aligned_cols=41  Identities=20%  Similarity=0.167  Sum_probs=36.5

Q ss_pred             cCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           33 FGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        33 ~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      |+...+++..++...++-.++|+|++|+|||||++.+.+..
T Consensus        11 ~~~~~~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   51 (204)
T PRK13538         11 RDERILFSGLSFTLNAGELVQIEGPNGAGKTSLLRILAGLA   51 (204)
T ss_pred             ECCEEEEecceEEECCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            55556888899999999999999999999999999998765

>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=96.88  E-value=0.0011  Score=58.26  Aligned_cols=37  Identities=16%  Similarity=0.144  Sum_probs=33.7

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .+++..+++..++-.++|+|++|+|||||++.+.+..
T Consensus        19 ~il~~~sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (218)
T cd03266          19 QAVDGVSFTVKPGEVTGLLGPNGAGKTTTLRMLAGLL   55 (218)
T ss_pred             eeecceEEEEcCCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            5788889999999999999999999999999998754

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.

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.87  E-value=0.001  Score=59.81  Aligned_cols=42  Identities=17%  Similarity=0.275  Sum_probs=37.1

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus        13 ~~~~~~~l~~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   54 (253)
T PRK14267         13 YYGSNHVIKGVDLKIPQNGVFALMGPSGCGKSTLLRTFNRLL   54 (253)
T ss_pred             EeCCeeeeecceEEEcCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            466667888999999999999999999999999999998764

>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=96.87  E-value=0.0011  Score=58.92  Aligned_cols=37  Identities=24%  Similarity=0.214  Sum_probs=34.0

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .++++.+++..++-.++|+|++|+|||||++.+.+..
T Consensus        19 ~il~~~s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   55 (233)
T cd03258          19 TALKDVSLSVPKGEIFGIIGRSGAGKSTLIRCINGLE   55 (233)
T ss_pred             eeeecceEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            5788899999999999999999999999999998764

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.

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.87  E-value=0.0011  Score=59.76  Aligned_cols=42  Identities=24%  Similarity=0.261  Sum_probs=37.1

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus        16 ~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   57 (254)
T PRK14273         16 FYTDFKALNNINIKILKNSITALIGPSGCGKSTFLRTLNRMN   57 (254)
T ss_pred             EeCCceeecceeeEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            456567888899999999999999999999999999998764

>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI

Probab=96.87  E-value=0.00099  Score=61.91  Aligned_cols=43  Identities=19%  Similarity=0.269  Sum_probs=38.0

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...++++.+++..++-.++++|+.|+|||||++.+.+..
T Consensus        12 ~~~~~~~~l~~vsl~i~~Ge~~~l~G~NGaGKSTLl~~l~Gl~   54 (303)
T TIGR01288        12 KSYGDKVVVNDLSFTIARGECFGLLGPNGAGKSTIARMLLGMI   54 (303)
T ss_pred             EEeCCeEEEcceeEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3566667889999999999999999999999999999998754

This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.87  E-value=0.0062  Score=59.51  Aligned_cols=113  Identities=12%  Similarity=0.039  Sum_probs=60.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc------CCCC----CCC-----------CCCcceEEeeEEeecC-------------c
Q 040295           50 PGILIIGSSNVGKRTILSRLLS------VNFE----DAS-----------DSSSELLVNGWTINTK-------------Y   95 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~------~~~~----~~~-----------~~t~~~~~~~~~i~~~-------------~   95 (289)
                      -.|+++|++||||||++.++..      ....    +.+           ....+..++......+             .
T Consensus       101 ~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~~~  180 (429)
T TIGR01425       101 NVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVEKFKK  180 (429)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeEEeecCCCCHHHHHHHHHHHHHh
Confidence            4689999999999999999862      1110    111           1112222221110000             1


Q ss_pred             ceEEEEEEEcCCchhhhc-ccc---cc--ccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295           96 YTADVSLWMAHLHEEFSI-RSL---PI--SDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        96 ~~~~l~I~Dt~G~e~~~~-~~~---~~--~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ..+++.|.||||...... +..   .+  ....+.++||.|.+-...-.   .....+... .++--+|.||.|-..
T Consensus       181 ~~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~---~~a~~F~~~-~~~~g~IlTKlD~~a  253 (429)
T TIGR01425       181 ENFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAE---AQAKAFKDS-VDVGSVIITKLDGHA  253 (429)
T ss_pred             CCCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHH---HHHHHHHhc-cCCcEEEEECccCCC
Confidence            246789999999643321 111   11  22467899999987442221   122222221 124556789999864

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=96.86  E-value=0.0011  Score=59.79  Aligned_cols=42  Identities=29%  Similarity=0.358  Sum_probs=36.6

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..+++..++-.++|+|++|+|||||++.+.+..
T Consensus         9 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (252)
T TIGR03005         9 RFGILTVLDGLNFSVAAGEKVALIGPSGSGKSTILRILMTLE   50 (252)
T ss_pred             EeCCeeEEeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455556888899999999999999999999999999998754

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.

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=96.85  E-value=0.0011  Score=58.65  Aligned_cols=42  Identities=29%  Similarity=0.273  Sum_probs=37.1

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..++...++-.++|+|++|+|||||++.+.+..
T Consensus        16 ~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   57 (225)
T PRK10247         16 LAGDAKILNNISFSLRAGEFKLITGPSGCGKSTLLKIVASLI   57 (225)
T ss_pred             eeCCceeeeccEEEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            456667888999999999999999999999999999998754

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=96.85  E-value=0.0011  Score=59.15  Aligned_cols=42  Identities=17%  Similarity=0.277  Sum_probs=36.7

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..++...++-.++|+|++|+|||||++.+.+..
T Consensus        10 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (236)
T TIGR03864        10 AYGARRALDDVSFTVRPGEFVALLGPNGAGKSTLFSLLTRLY   51 (236)
T ss_pred             EECCEEEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            355556888899999999999999999999999999998764

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.

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=96.85  E-value=0.0011  Score=60.42  Aligned_cols=42  Identities=14%  Similarity=0.207  Sum_probs=36.8

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..++...++-.++|+|++|+|||||++.+.+..
T Consensus        10 ~~~~~~il~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (271)
T PRK13638         10 RYQDEPVLKGLNLDFSLSPVTGLVGANGCGKSTLFMNLSGLL   51 (271)
T ss_pred             EcCCcccccceEEEEcCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            456566888899999999999999999999999999997654

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.85  E-value=0.001  Score=60.22  Aligned_cols=42  Identities=24%  Similarity=0.285  Sum_probs=37.2

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..++...++-.++|+|++|+|||||++.+.+..
T Consensus        21 ~~~~~~~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   62 (259)
T PRK14274         21 WYGQHHALKNINLSIPENEVTAIIGPSGCGKSTFIKTLNLMI   62 (259)
T ss_pred             EECCeeeEEeeEEEEcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            466667888899999999999999999999999999998754

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.84  E-value=0.0011  Score=59.30  Aligned_cols=42  Identities=19%  Similarity=0.140  Sum_probs=36.8

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.+++..++-.++|+|++|+|||||++.+.+..
T Consensus        12 ~~~~~~~l~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   53 (241)
T PRK14250         12 SSFGKEILKDISVKFEGGAIYTIVGPSGAGKSTLIKLINRLI   53 (241)
T ss_pred             EeCCeeeeeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            355566888899999999999999999999999999998754

>PRK14239 phosphate transporter ATP-binding protein; Provisional

Probab=96.84  E-value=0.0011  Score=59.51  Aligned_cols=41  Identities=17%  Similarity=0.257  Sum_probs=36.2

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .|+...+++..++...++-.++|+|++|+|||||++.+.+.
T Consensus        14 ~~~~~~~l~~~s~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (252)
T PRK14239         14 YYNKKKALNSVSLDFYPNEITALIGPSGSGKSTLLRSINRM   54 (252)
T ss_pred             EECCeeeeeeeeEEEcCCcEEEEECCCCCCHHHHHHHHhcc
Confidence            45555688889999999999999999999999999999875

>cd03112 CobW_like The function of this protein family is unkown

Probab=96.84  E-value=0.0037  Score=52.59  Aligned_cols=22  Identities=27%  Similarity=0.442  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -+++.|..|+|||||+++++..
T Consensus         2 ~~~l~G~~GsGKTtl~~~l~~~   23 (158)
T cd03112           2 VTVLTGFLGAGKTTLLNHILTE   23 (158)
T ss_pred             EEEEEECCCCCHHHHHHHHHhc
Confidence            3689999999999999999865

The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=96.84  E-value=0.00099  Score=60.82  Aligned_cols=43  Identities=19%  Similarity=0.145  Sum_probs=38.7

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...++++.+++..++-.++|+|++|+|||||++.+.+..
T Consensus        32 ~~~~~~~il~~is~~i~~Ge~~~l~G~nGsGKSTLl~~L~Gl~   74 (269)
T cd03294          32 KKTGQTVGVNDVSLDVREGEIFVIMGLSGSGKSTLLRCINRLI   74 (269)
T ss_pred             hhcCCceEeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4577778899999999999999999999999999999998764

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.

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.84  E-value=0.0012  Score=58.06  Aligned_cols=42  Identities=17%  Similarity=0.209  Sum_probs=36.8

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+....++..++...++-.++|+|++|+|||||++.+.+..
T Consensus        20 ~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   61 (214)
T PRK13543         20 SRNEEPVFGPLDFHVDAGEALLVQGDNGAGKTTLLRVLAGLL   61 (214)
T ss_pred             ecCCceeeecceEEECCCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            355556888899999999999999999999999999998764

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=96.83  E-value=0.0063  Score=58.04  Aligned_cols=181  Identities=14%  Similarity=0.163  Sum_probs=95.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCC----------------CCC-------CcceEEeeEEeec----------Ccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDA----------------SDS-------SSELLVNGWTINT----------KYY   96 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~----------------~~~-------t~~~~~~~~~i~~----------~~~   96 (289)
                      .+++++|...+|||||+--|..++....                ...       .++++.....+++          +..
T Consensus       168 vRvAVlGg~D~GKSTLlGVLTQgeLDnG~GrARln~FRh~HEiqsGrTSsis~evlGFd~~g~vVNY~~~~taEEi~e~S  247 (591)
T KOG1143|consen  168 VRVAVLGGCDVGKSTLLGVLTQGELDNGNGRARLNIFRHPHEIQSGRTSSISNEVLGFDNRGKVVNYAQNMTAEEIVEKS  247 (591)
T ss_pred             EEEEEecCcccCcceeeeeeecccccCCCCeeeeehhcchhhhccCcccccchhcccccccccccchhhcccHHHHHhhh
Confidence            6899999999999999988876554321                111       1121111111111          111


Q ss_pred             eEEEEEEEcCCchhhhccccccc--cCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHH
Q 040295           97 TADVSLWMAHLHEEFSIRSLPIS--DQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEY  174 (289)
Q Consensus        97 ~~~l~I~Dt~G~e~~~~~~~~~~--~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~  174 (289)
                      .--+.+.|.+|+.+|..-.-.-+  -..|.+++|++....-.+.. ++-+.-+...+. |++++.+|+|+.......   
T Consensus       248 SKlvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~tT-rEHLgl~~AL~i-PfFvlvtK~Dl~~~~~~~---  322 (591)
T KOG1143|consen  248 SKLVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITWTT-REHLGLIAALNI-PFFVLVTKMDLVDRQGLK---  322 (591)
T ss_pred             cceEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCcccc-HHHHHHHHHhCC-CeEEEEEeeccccchhHH---
Confidence            22378899999988854322211  23688888888765422211 111223334333 778889999998654322   


Q ss_pred             HHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHH
Q 040295          175 RRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERL  254 (289)
Q Consensus       175 ~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l  254 (289)
                       +.++.+....+     +.|...-+-     .-...++-...+++.|..+=.|+|-+|..+|            +|++-+
T Consensus       323 -~tv~~l~nll~-----~~Gc~kvp~-----~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsG------------egl~ll  379 (591)
T KOG1143|consen  323 -KTVKDLSNLLA-----KAGCTKVPK-----RVTTKDDAVKAAQELCSGNIVPIFAVSSVSG------------EGLRLL  379 (591)
T ss_pred             -HHHHHHHHHHh-----hcCccccce-----EeechHHHHHHHHHhccCCceeEEEEeecCc------------cchhHH
Confidence             22211111111     112111110     0001122233356666655568999999999            888755


Q ss_pred             HHHH
Q 040295          255 YGAL  258 (289)
Q Consensus       255 ~~~L  258 (289)
                      ...|
T Consensus       380 ~~fL  383 (591)
T KOG1143|consen  380 RTFL  383 (591)
T ss_pred             HHHH
Confidence            4443

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=96.83  E-value=0.00084  Score=54.25  Aligned_cols=34  Identities=21%  Similarity=0.302  Sum_probs=28.6

Q ss_pred             cccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           40 STDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        40 ~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ++.++...++-.++|+|++|+|||||++.+.+..
T Consensus         2 ~~v~~~i~~g~~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen    2 KNVSLEIKPGEIVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             EEEEEEEETTSEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CceEEEEcCCCEEEEEccCCCccccceeeecccc
Confidence            3456677788899999999999999999887665

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=96.82  E-value=0.0012  Score=59.21  Aligned_cols=42  Identities=29%  Similarity=0.410  Sum_probs=36.9

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..++...++-.++|+|++|+|||||++.+.+..
T Consensus        10 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (247)
T TIGR00972        10 FYGEKEALKNINLDIPKNQVTALIGPSGCGKSTLLRSLNRMN   51 (247)
T ss_pred             EECCeeeecceeEEECCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            456556788899999999999999999999999999998765

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.

>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=96.81  E-value=0.0011  Score=57.12  Aligned_cols=35  Identities=20%  Similarity=0.172  Sum_probs=31.2

Q ss_pred             cccccccccccCCCceEEEEcCCCCCHHHHHHHHh
Q 040295           36 QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        36 ~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~   70 (289)
                      ..++++.+++..++-.++|+|++|+|||||++.++
T Consensus         8 ~~~l~~isl~i~~G~~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238           8 VHNLQNLDVSIPLNVLVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             eeeecceEEEEcCCCEEEEECCCCCCHHHHHHHHh
Confidence            35667788999999999999999999999999885

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.

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=96.81  E-value=0.0012  Score=59.44  Aligned_cols=42  Identities=24%  Similarity=0.180  Sum_probs=36.3

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.+++..++-.++|+|++|+|||||++.+.+..
T Consensus        12 ~~~~~~~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   53 (253)
T TIGR02323        12 SYGGGKGCRDVSFDLYPGEVLGIVGESGSGKSTLLGCLAGRL   53 (253)
T ss_pred             EeCCceEeecceEEEeCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            355556788889999999999999999999999999998764

Members of this family are the PhnK 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 complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.

>PRK09580 sufC cysteine desulfurase ATPase component; Reviewed

Probab=96.81  E-value=0.0012  Score=59.06  Aligned_cols=42  Identities=14%  Similarity=0.115  Sum_probs=36.6

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus        10 ~~~~~~~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (248)
T PRK09580         10 SVEDKAILRGLNLEVRPGEVHAIMGPNGSGKSTLSATLAGRE   51 (248)
T ss_pred             EeCCeeeeecceeEEcCCCEEEEECCCCCCHHHHHHHHcCCc
Confidence            455556888899999999999999999999999999998763

>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=96.80  E-value=0.0013  Score=54.40  Aligned_cols=42  Identities=17%  Similarity=0.253  Sum_probs=36.0

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+....+++.++...++-.++|+|++|+|||||++.+.+..
T Consensus         9 ~~~~~~~l~~~~~~~~~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221           9 TYGGKLLLKDISLTINPGDRIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             EECCceEEEeeEEEECCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            345456788888999999999999999999999999998765

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.

>PRK10908 cell division protein FtsE; Provisional

Probab=96.80  E-value=0.0014  Score=57.87  Aligned_cols=40  Identities=18%  Similarity=0.253  Sum_probs=35.1

Q ss_pred             CCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           34 GRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        34 g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      +...++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus        13 ~~~~~l~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (222)
T PRK10908         13 GGRQALQGVTFHMRPGEMAFLTGHSGAGKSTLLKLICGIE   52 (222)
T ss_pred             CCCeEEeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4446788889999999999999999999999999998754

>PRK14259 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.80  E-value=0.0012  Score=60.21  Aligned_cols=42  Identities=26%  Similarity=0.337  Sum_probs=37.2

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.+++..++-.++|+|++|+|||||++.+.+..
T Consensus        22 ~~~~~~il~~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   63 (269)
T PRK14259         22 SYGTFEAVKNVFCDIPRGKVTALIGPSGCGKSTVLRSLNRMN   63 (269)
T ss_pred             EECCEEEEcceEEEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            456667888999999999999999999999999999998764

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=96.79  E-value=0.0012  Score=59.49  Aligned_cols=42  Identities=19%  Similarity=0.270  Sum_probs=37.2

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus        14 ~~~~~~~l~~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (255)
T PRK11300         14 RFGGLLAVNNVNLEVREQEIVSLIGPNGAGKTTVFNCLTGFY   55 (255)
T ss_pred             EECCEEEEEeeeeEEcCCeEEEEECCCCCCHHHHHHHHhCCc
Confidence            456667888999999999999999999999999999998764

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=96.79  E-value=0.0013  Score=59.61  Aligned_cols=42  Identities=21%  Similarity=0.290  Sum_probs=36.8

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..+++..++-.++|+|++|+|||||++.+.+..
T Consensus        22 ~~~~~~il~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   63 (260)
T PRK10744         22 YYGKFHALKNINLDIAKNQVTAFIGPSGCGKSTLLRTFNRMY   63 (260)
T ss_pred             EeCCeEEeeceeEEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            456556888899999999999999999999999999998764

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=96.79  E-value=0.0014  Score=57.05  Aligned_cols=41  Identities=17%  Similarity=0.273  Sum_probs=36.1

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .|+...++++.+++..++-.++|+|++|+|||||++.+.+.
T Consensus         9 ~~~~~~~l~~is~~i~~Ge~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217           9 SVGGKEILKGVNLTIKKGEVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             EeCCEEeeeccceEECCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            45555688889999999999999999999999999999876

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.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=96.79  E-value=0.0013  Score=57.64  Aligned_cols=37  Identities=22%  Similarity=0.333  Sum_probs=33.8

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus        17 ~il~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   53 (216)
T TIGR00960        17 PALDNLNFHITKGEMVFLVGHSGAGKSTFLKLILGIE   53 (216)
T ss_pred             eEEEeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4788899999999999999999999999999998764

>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=96.78  E-value=0.0011  Score=60.40  Aligned_cols=40  Identities=23%  Similarity=0.330  Sum_probs=36.5

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHh
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~   70 (289)
                      +.|+...++++.+.+.+.+--++++|+|||||||+++.+.
T Consensus         9 k~y~~~~av~~v~l~I~~gef~vliGpSGsGKTTtLkMIN   48 (309)
T COG1125           9 KRYGNKKAVDDVNLTIEEGEFLVLIGPSGSGKTTTLKMIN   48 (309)
T ss_pred             hhcCCceeeeeeeEEecCCeEEEEECCCCCcHHHHHHHHh
Confidence            5688889999999999999999999999999999988764

>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=96.78  E-value=0.0014  Score=55.70  Aligned_cols=41  Identities=20%  Similarity=0.333  Sum_probs=35.5

Q ss_pred             cCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           33 FGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        33 ~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      |+...+++..+++..++-.++|+|++|+|||||++.+.+..
T Consensus        10 ~~~~~~l~~~~~~i~~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (173)
T cd03230          10 YGKKTALDDISLTVEKGEIYGLLGPNGAGKTTLIKIILGLL   50 (173)
T ss_pred             ECCeeeeeeeEEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            44445788899999999999999999999999999997754

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.

>PRK14240 phosphate transporter ATP-binding protein; Provisional

Probab=96.77  E-value=0.0014  Score=58.92  Aligned_cols=42  Identities=26%  Similarity=0.356  Sum_probs=36.4

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..+++..++-.++|+|++|+|||||++.+.+-.
T Consensus        12 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   53 (250)
T PRK14240         12 FYGDFQALKKINLDIEENQVTALIGPSGCGKSTFLRTLNRMN   53 (250)
T ss_pred             EECCceeeecceEEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            355556888899999999999999999999999999998753

>PRK14251 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.77  E-value=0.0014  Score=58.97  Aligned_cols=42  Identities=29%  Similarity=0.331  Sum_probs=37.1

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..++...++-.++|+|++|+|||||++.+.+..
T Consensus        13 ~~~~~~~l~~~sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   54 (251)
T PRK14251         13 SYGNYEALHGISLDFEEKELTALIGPSGCGKSTFLRCLNRMN   54 (251)
T ss_pred             EECCeeeeeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhhcc
Confidence            466667888899999999999999999999999999998764

>PRK14235 phosphate transporter ATP-binding protein; Provisional

Probab=96.77  E-value=0.0013  Score=60.03  Aligned_cols=42  Identities=24%  Similarity=0.332  Sum_probs=37.1

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus        28 ~~~~~~il~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   69 (267)
T PRK14235         28 FYGEKQALFDVDLDIPEKTVTAFIGPSGCGKSTFLRCLNRMN   69 (267)
T ss_pred             EECCEEEEEEEEEEEcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            456666888999999999999999999999999999998754

>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional

Probab=96.77  E-value=0.0013  Score=59.55  Aligned_cols=42  Identities=21%  Similarity=0.277  Sum_probs=37.2

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..+++..++-.++|+|++|+|||||++.+.+..
T Consensus        11 ~~~~~~il~~is~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   52 (258)
T PRK13548         11 RLGGRTLLDDVSLTLRPGEVVAILGPNGAGKSTLLRALSGEL   52 (258)
T ss_pred             EeCCeeeeeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            466667888899999999999999999999999999998764

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=96.76  E-value=0.0013  Score=61.05  Aligned_cols=45  Identities=18%  Similarity=0.171  Sum_probs=40.5

Q ss_pred             heecC-CcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           30 VLIFG-RQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        30 ~~~~g-~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      ...|| ...++++.++...++--++++|+.|+|||||++.+.+.-.
T Consensus        11 ~k~~~~~~~~l~~vs~~i~~Gei~gllG~NGAGKTTllk~l~gl~~   56 (293)
T COG1131          11 TKKYGGDKTALDGVSFEVEPGEIFGLLGPNGAGKTTLLKILAGLLK   56 (293)
T ss_pred             EEEeCCCCEEEeceeEEEcCCeEEEEECCCCCCHHHHHHHHhCCcC
Confidence            35788 6899999999999999999999999999999999987654

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=96.76  E-value=0.0014  Score=58.46  Aligned_cols=42  Identities=24%  Similarity=0.386  Sum_probs=36.6

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.+++..++-.++|+|++|+|||||++.+.+..
T Consensus        10 ~~~~~~il~~~s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   51 (240)
T PRK09493         10 HFGPTQVLHNIDLNIDQGEVVVIIGPSGSGKSTLLRCINKLE   51 (240)
T ss_pred             EECCeEEeeeeeEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            355556788899999999999999999999999999998764

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=96.75  E-value=0.0013  Score=59.77  Aligned_cols=42  Identities=17%  Similarity=0.093  Sum_probs=36.9

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus        20 ~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   61 (265)
T PRK10575         20 RVPGRTLLHPLSLTFPAGKVTGLIGHNGSGKSTLLKMLGRHQ   61 (265)
T ss_pred             EECCEEEEeeeeeEEcCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            455557888899999999999999999999999999998754

>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.75  E-value=0.0015  Score=58.75  Aligned_cols=42  Identities=26%  Similarity=0.354  Sum_probs=36.4

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..+++..++-.++|+|++|+|||||++.+.+-.
T Consensus        12 ~~~~~~~l~~i~~~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl~   53 (250)
T PRK14262         12 YYGEKKAVKNVTMKIFKNQITAIIGPSGCGKTTLLRSINRMN   53 (250)
T ss_pred             EeCCceeEeeeeEeecCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            455556788899999999999999999999999999998753

>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=96.75  E-value=0.0015  Score=57.08  Aligned_cols=38  Identities=18%  Similarity=0.246  Sum_probs=34.2

Q ss_pred             cccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           36 QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        36 ~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..+++..+++..++-.++|+|++|+|||||++.+.+..
T Consensus        14 ~~~l~~~sl~i~~G~~~~i~G~nGsGKSTLl~~l~G~~   51 (214)
T cd03292          14 TAALDGINISISAGEFVFLVGPSGAGKSTLLKLIYKEE   51 (214)
T ss_pred             ceeeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            46788889999999999999999999999999998754

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=96.74  E-value=0.0014  Score=59.23  Aligned_cols=42  Identities=24%  Similarity=0.252  Sum_probs=36.4

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus        15 ~~~~~~il~~is~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   56 (258)
T PRK11701         15 LYGPRKGCRDVSFDLYPGEVLGIVGESGSGKTTLLNALSARL   56 (258)
T ss_pred             EcCCceeeeeeeEEEeCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            345456788889999999999999999999999999998764

>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.74  E-value=0.0015  Score=59.52  Aligned_cols=42  Identities=26%  Similarity=0.397  Sum_probs=37.0

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..++...++-.++|+|++|+|||||++.+.+-.
T Consensus        30 ~~~~~~il~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   71 (268)
T PRK14248         30 YYGEKRAVNDISMDIEKHAVTALIGPSGCGKSTFLRSINRMN   71 (268)
T ss_pred             EeCCceeeeceEEEEcCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            456667888899999999999999999999999999998753

>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=96.74  E-value=0.0015  Score=58.42  Aligned_cols=42  Identities=19%  Similarity=0.277  Sum_probs=36.3

Q ss_pred             ecCC-cccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGR-QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~-~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+. ..+++..++...++-.++|+|++|+|||||++.+.+..
T Consensus         9 ~~~~~~~~l~~is~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (242)
T cd03295           9 RYGGGKKAVNNLNLEIAKGEFLVLIGPSGSGKTTTMKMINRLI   51 (242)
T ss_pred             EeCCcceEeeeeEEEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3554 46788899999999999999999999999999998754

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.

>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.74  E-value=0.0014  Score=58.74  Aligned_cols=42  Identities=24%  Similarity=0.354  Sum_probs=36.7

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+....++..+++..++-.++|+|++|+|||||++.+.+..
T Consensus        11 ~~~~~~~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (246)
T PRK14269         11 FYGKKQALFDINMQIEQNKITALIGASGCGKSTFLRCFNRMN   52 (246)
T ss_pred             EECCEeeeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            466567888899999999999999999999999999998753

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=96.73  E-value=0.081  Score=51.57  Aligned_cols=141  Identities=11%  Similarity=0.023  Sum_probs=81.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCC----------------C-----CCCCcceEEee---EEee-cCcceEEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFED----------------A-----SDSSSELLVNG---WTIN-TKYYTADVSLWM  104 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~----------------~-----~~~t~~~~~~~---~~i~-~~~~~~~l~I~D  104 (289)
                      +=|.|+||--+||||||+||...-..+                +     ...|....|.+   ..+. .++-.+++++.|
T Consensus        18 IYiGVVGPVRTGKSTFIKRFMel~VlPnI~d~~~reRa~DELPQS~aGktImTTEPKFiP~eAv~I~l~~~~~~kVRLiD   97 (492)
T PF09547_consen   18 IYIGVVGPVRTGKSTFIKRFMELLVLPNIEDEYERERARDELPQSGAGKTIMTTEPKFIPNEAVEITLDDGIKVKVRLID   97 (492)
T ss_pred             eEEEeecCcccCchhHHHHHHHHhcCCCCCCHHHHHHhhhcCCcCCCCCceeccCCcccCCcceEEEecCCceEEEEEEe
Confidence            569999999999999999998421111                1     11222222311   1222 345678889999


Q ss_pred             cCCc-------------hhh-hccc---------------ccccc--CccEEEEEEeCC----CHhhHHHHH-HHHHHhh
Q 040295          105 AHLH-------------EEF-SIRS---------------LPISD--QLTALVMVFNLN----DLSTLDALK-HWVPSID  148 (289)
Q Consensus       105 t~G~-------------e~~-~~~~---------------~~~~~--~ad~vIlV~Dv~----~~~S~~~l~-~~~~~i~  148 (289)
                      +.|-             ++. ..-|               +..++  ..=|+|+.-|-+    .++.+..+. +-+..++
T Consensus        98 CVGy~V~gA~Gy~e~~~pRmV~TPWfd~eIPF~eAAeiGT~KVI~dHSTIGiVVTTDGSi~dipRe~Y~eAEervI~ELk  177 (492)
T PF09547_consen   98 CVGYMVEGALGYEEEEGPRMVKTPWFDEEIPFEEAAEIGTRKVITDHSTIGIVVTTDGSITDIPRENYVEAEERVIEELK  177 (492)
T ss_pred             ecceeecCccccccCCCceeecCCCCCCCCCHHHHHhhcccceeccCCceeEEEecCCCccCCChHHHHHHHHHHHHHHH
Confidence            7751             111 0001               00111  122777777755    456665554 5667777


Q ss_pred             hcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeE
Q 040295          149 LQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEY  228 (289)
Q Consensus       149 ~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  228 (289)
                      ..+. |++++.|=.+=..      +..+++                                      +.++..+|+++.
T Consensus       178 ~igK-PFvillNs~~P~s------~et~~L--------------------------------------~~eL~ekY~vpV  212 (492)
T PF09547_consen  178 EIGK-PFVILLNSTKPYS------EETQEL--------------------------------------AEELEEKYDVPV  212 (492)
T ss_pred             HhCC-CEEEEEeCCCCCC------HHHHHH--------------------------------------HHHHHHHhCCcE
Confidence            7666 4555666544311      334444                                      889999999998


Q ss_pred             EEeecCC
Q 040295          229 IEACASN  235 (289)
Q Consensus       229 ie~Sa~~  235 (289)
                      +.+++..
T Consensus       213 lpvnc~~  219 (492)
T PF09547_consen  213 LPVNCEQ  219 (492)
T ss_pred             EEeehHH
Confidence            8877654

It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.

>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=96.73  E-value=0.00085  Score=62.30  Aligned_cols=163  Identities=17%  Similarity=0.173  Sum_probs=97.9

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCC---CCCCCCCCcceE--EeeEEe----------------------------
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVN---FEDASDSSSELL--VNGWTI----------------------------   91 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~---~~~~~~~t~~~~--~~~~~i----------------------------   91 (289)
                      .-+..+.|.-+|.-.-||||+++.+.+-.   |-.+...++...  |.+-.+                            
T Consensus        34 sRQATiNIGTIGHVAHGKSTvVkAiSGv~TvrFK~ELERNITIKLGYANAKIYkc~~~kCprP~cy~s~gS~k~d~~~c~  113 (466)
T KOG0466|consen   34 SRQATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYKCDDPKCPRPGCYRSFGSSKEDRPPCD  113 (466)
T ss_pred             hheeeeeecceeccccCcceeeeeeccceEEEehhhhhcceeEEeccccceEEecCCCCCCCcchhhccCCCCCCCCCcc
Confidence            34556889999999999999999887632   111111111111  111010                            


Q ss_pred             -ecCc---c-eEEEEEEEcCCchhhhccccccccCccEEEEEEeCC----CHhhHHHHHHHHHHhhhcCCCeEEEEeeCC
Q 040295           92 -NTKY---Y-TADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLN----DLSTLDALKHWVPSIDLQKFEILLCIGNKV  162 (289)
Q Consensus        92 -~~~~---~-~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~----~~~S~~~l~~~~~~i~~~~~~~iivvgnK~  162 (289)
                       ..-.   + ...+.+.|.||++-.-+-+-.-..-.|++++....+    +|++-+.+..    +....-+.+|++-||+
T Consensus       114 ~~g~~~~~klvRHVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHLaa----veiM~LkhiiilQNKi  189 (466)
T KOG0466|consen  114 RPGCEGKMKLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHLAA----VEIMKLKHIIILQNKI  189 (466)
T ss_pred             cCCCCCceEEEEEEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHHHH----HHHhhhceEEEEechh
Confidence             0000   0 134678899999866432211222247777777655    5666665542    2222334588899999


Q ss_pred             CCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHc---CCeEEEeecCCCccc
Q 040295          163 DLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEH---RIEYIEACASNVDFD  239 (289)
Q Consensus       163 Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~ie~Sa~~~~~~  239 (289)
                      ||......       .                                 +..++++.|.+..   +.+++.+||.-+   
T Consensus       190 Dli~e~~A-------~---------------------------------eq~e~I~kFi~~t~ae~aPiiPisAQlk---  226 (466)
T KOG0466|consen  190 DLIKESQA-------L---------------------------------EQHEQIQKFIQGTVAEGAPIIPISAQLK---  226 (466)
T ss_pred             hhhhHHHH-------H---------------------------------HHHHHHHHHHhccccCCCceeeehhhhc---
Confidence            99753211       1                                 2223366666544   467999999999   


Q ss_pred             ccccCCCCchhHHHHHHHHHHhcc
Q 040295          240 KCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       240 ~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                               +||+-+.+++++.+-
T Consensus       227 ---------yNId~v~eyivkkIP  241 (466)
T KOG0466|consen  227 ---------YNIDVVCEYIVKKIP  241 (466)
T ss_pred             ---------cChHHHHHHHHhcCC
Confidence                     999999999998773

>PRK10253 iron-enterobactin transporter ATP-binding protein; Provisional

Probab=96.73  E-value=0.0014  Score=59.50  Aligned_cols=42  Identities=21%  Similarity=0.287  Sum_probs=37.0

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus        16 ~~~~~~~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   57 (265)
T PRK10253         16 GYGKYTVAENLTVEIPDGHFTAIIGPNGCGKSTLLRTLSRLM   57 (265)
T ss_pred             EECCEEEeeecceEECCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            455567888999999999999999999999999999998764

>PRK14256 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.73  E-value=0.0015  Score=58.75  Aligned_cols=42  Identities=24%  Similarity=0.362  Sum_probs=36.7

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..+++..++-.++|+|++|+|||||++.+.+..
T Consensus        13 ~~~~~~~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   54 (252)
T PRK14256         13 HFGKNHAVKDVSMDFPENSVTAIIGPSGCGKSTVLRSINRMH   54 (252)
T ss_pred             EeCCeeEEecceEEEcCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            455556788899999999999999999999999999998764

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=96.72  E-value=0.0015  Score=57.38  Aligned_cols=37  Identities=30%  Similarity=0.308  Sum_probs=33.8

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .+++..++...++-.++|+|++|+|||||++.+.+..
T Consensus        19 ~~l~~isl~i~~G~~~~i~G~nGsGKSTLl~~i~G~~   55 (221)
T TIGR02211        19 RVLKGVSLSIGKGEIVAIVGSSGSGKSTLLHLLGGLD   55 (221)
T ss_pred             EeEeeeEEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4788889999999999999999999999999998764

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.

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=96.72  E-value=0.015  Score=55.77  Aligned_cols=122  Identities=16%  Similarity=0.166  Sum_probs=71.3

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCC----------------CCcceEEeeEEeec---------------
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASD----------------SSSELLVNGWTINT---------------   93 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~----------------~t~~~~~~~~~i~~---------------   93 (289)
                      ....-+.|.+.|.-+.|||||+-.|..+...+...                .+....+.-.-+..               
T Consensus       113 ~~~~hv~Vg~aGhVdhGKSTlvG~LvtG~~DDG~G~tR~~ldv~kHEverGlsa~iS~~v~Gf~dgk~~rlknPld~aE~  192 (527)
T COG5258         113 EAPEHVLVGVAGHVDHGKSTLVGVLVTGRLDDGDGATRSYLDVQKHEVERGLSADISLRVYGFDDGKVVRLKNPLDEAEK  192 (527)
T ss_pred             CCCceEEEEEeccccCCcceEEEEEEecCCCCCCcchhhhhhhhhHHHhhccccceeEEEEEecCCceEeecCcccHHHH
Confidence            34555789999999999999998888765443211                11111111111111               


Q ss_pred             ----CcceEEEEEEEcCCchhhhc--cccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCC
Q 040295           94 ----KYYTADVSLWMAHLHEEFSI--RSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPG  167 (289)
Q Consensus        94 ----~~~~~~l~I~Dt~G~e~~~~--~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~  167 (289)
                          +...-.+.+.||.|+|+|-.  +.-..-++.|-.++|...++..+-  +-.-..-+..--.-|+|+|.+|+|+.++
T Consensus       193 ~~vv~~aDklVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~--~tkEHLgi~~a~~lPviVvvTK~D~~~d  270 (527)
T COG5258         193 AAVVKRADKLVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTK--MTKEHLGIALAMELPVIVVVTKIDMVPD  270 (527)
T ss_pred             hHhhhhcccEEEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcch--hhhHhhhhhhhhcCCEEEEEEecccCcH
Confidence                01113468899999998843  112234568999999998876332  1111111111112289999999999875


Q ss_pred             C
Q 040295          168 H  168 (289)
Q Consensus       168 ~  168 (289)
                      .
T Consensus       271 d  271 (527)
T COG5258         271 D  271 (527)
T ss_pred             H
Confidence            3

>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=96.71  E-value=0.0015  Score=58.18  Aligned_cols=42  Identities=19%  Similarity=0.300  Sum_probs=36.9

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.++...++-.++|+|++|+|||||++.+.+..
T Consensus        14 ~~~~~~~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   55 (237)
T PRK11614         14 HYGKIQALHEVSLHINQGEIVTLIGANGAGKTTLLGTLCGDP   55 (237)
T ss_pred             eeCCceeeeeeEEEEcCCcEEEEECCCCCCHHHHHHHHcCCC
Confidence            355556888899999999999999999999999999998764

>PRK11231 fecE iron-dicitrate transporter ATP-binding subunit; Provisional

Probab=96.71  E-value=0.0015  Score=58.92  Aligned_cols=42  Identities=21%  Similarity=0.256  Sum_probs=37.1

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...++++.+++..++-.++|+|++|+|||||++.+.+..
T Consensus        11 ~~~~~~il~~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   52 (255)
T PRK11231         11 GYGTKRILNDLSLSLPTGKITALIGPNGCGKSTLLKCFARLL   52 (255)
T ss_pred             EECCEEEEeeeeeEEcCCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            466667888899999999999999999999999999998753

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=96.71  E-value=0.0016  Score=58.18  Aligned_cols=42  Identities=17%  Similarity=0.178  Sum_probs=36.9

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..+++..++-.++|+|++|+|||||++.+.+..
T Consensus        11 ~~~~~~~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   52 (242)
T TIGR03411        11 SFDGFKALNDLSLYVDPGELRVIIGPNGAGKTTMMDVITGKT   52 (242)
T ss_pred             EcCCeEEeeeeeEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            455556888899999999999999999999999999998764

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.

>PRK14243 phosphate transporter ATP-binding protein; Provisional

Probab=96.71  E-value=0.0016  Score=59.25  Aligned_cols=41  Identities=24%  Similarity=0.241  Sum_probs=36.5

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .|+...++++.+++..++-.++|+|++|+|||||++.+.+-
T Consensus        19 ~~~~~~il~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   59 (264)
T PRK14243         19 YYGSFLAVKNVWLDIPKNQITAFIGPSGCGKSTILRCFNRL   59 (264)
T ss_pred             EECCEEEeecceEEEcCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            45666788889999999999999999999999999999864

>cd03114 ArgK-like The function of this protein family is unkown

Probab=96.70  E-value=0.01  Score=49.47  Aligned_cols=58  Identities=17%  Similarity=0.143  Sum_probs=34.4

Q ss_pred             eEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCC
Q 040295           97 TADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVD  163 (289)
Q Consensus        97 ~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~D  163 (289)
                      .+++.|.||+|.....   ...+..+|-+|+|...+-.+.+.-++-  ..+..    -=+++.||+|
T Consensus        91 ~~D~iiIDtaG~~~~~---~~~~~~Ad~~ivv~tpe~~D~y~~~k~--~~~~~----~~~~~~~k~~  148 (148)
T cd03114          91 GFDVIIVETVGVGQSE---VDIASMADTTVVVMAPGAGDDIQAIKA--GIMEI----ADIVVVNKAD  148 (148)
T ss_pred             CCCEEEEECCccChhh---hhHHHhCCEEEEEECCCchhHHHHhhh--hHhhh----cCEEEEeCCC
Confidence            4678899999865332   246778998888886653333333221  11111    1245789987

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>PRK14265 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.70  E-value=0.0016  Score=59.66  Aligned_cols=42  Identities=24%  Similarity=0.278  Sum_probs=36.8

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..++...++-.++|+|++|+|||||++.+.+-.
T Consensus        29 ~~~~~~~l~~vs~~i~~Ge~~~IiG~nGsGKSTLl~~l~Gl~   70 (274)
T PRK14265         29 FYGGFLALVDVHLKIPAKKIIAFIGPSGCGKSTLLRCFNRMN   70 (274)
T ss_pred             EeCCeEEEeeeeeEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            355556888899999999999999999999999999998653

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=96.70  E-value=0.0016  Score=58.95  Aligned_cols=42  Identities=21%  Similarity=0.360  Sum_probs=36.5

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..++...++-.++|+|++|+|||||++.+.+..
T Consensus        13 ~~~~~~vl~~vs~~i~~Ge~~~I~G~NGsGKSTLl~~i~Gl~   54 (251)
T PRK09544         13 SFGQRRVLSDVSLELKPGKILTLLGPNGAGKSTLVRVVLGLV   54 (251)
T ss_pred             EECCceEEEeEEEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            355556788899999999999999999999999999998754

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=96.70  E-value=0.0015  Score=62.18  Aligned_cols=43  Identities=19%  Similarity=0.329  Sum_probs=37.6

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      .||...++++.++...++-.++|+|++|||||||++.+.+-..
T Consensus        15 ~~~~~~~l~~isl~i~~Ge~~~llGpsGsGKSTLLr~IaGl~~   57 (351)
T PRK11432         15 RFGSNTVIDNLNLTIKQGTMVTLLGPSGCGKTTVLRLVAGLEK   57 (351)
T ss_pred             EECCeEEEeeeEEEEcCCCEEEEECCCCCcHHHHHHHHHCCCC
Confidence            4666677888999999999999999999999999999987653

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.69  E-value=0.01  Score=57.03  Aligned_cols=31  Identities=26%  Similarity=0.423  Sum_probs=24.8

Q ss_pred             cccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           42 DRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        42 ~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .......+--++++|++||||||++.+|...
T Consensus       130 ~~~~~~~g~ii~lvGptGvGKTTtiakLA~~  160 (374)
T PRK14722        130 EDALMERGGVFALMGPTGVGKTTTTAKLAAR  160 (374)
T ss_pred             CCccccCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3444555667999999999999999998753

>PRK14260 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.69  E-value=0.0016  Score=58.96  Aligned_cols=42  Identities=19%  Similarity=0.256  Sum_probs=37.2

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+...+++..+++..++-.++|+|++|+|||||++.+.+..
T Consensus        16 ~~~~~~il~~isl~i~~Ge~~~l~G~nGsGKSTLlk~l~Gl~   57 (259)
T PRK14260         16 YYNTSKAIEGISMDIYRNKVTAIIGPSGCGKSTFIKTLNRIS   57 (259)
T ss_pred             EECCeEeecceEEEEcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            456667888899999999999999999999999999998754

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	289
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		9e-07
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		4e-05
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		3e-04
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		3e-04
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		4e-04

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score = 50.8 bits (120), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 34/129 (26%), Positives = 60/129 (46%), Gaps = 2/129 (1%)
Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           +L+IG S VGK  +L R     + D+  S+  +     TI+ +  T  + +W     E F
Sbjct: 12  LLLIGDSGVGKSCLLLRFADDTYTDSYISTIGVDFKIRTISLENKTVKLQIWDTAGQERF 71
Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEIL--LCIGNKVDLLPGHP 169
              +         +++V+++ D  + D +K W+  ID    E +  L +GNK DL+    
Sbjct: 72  RTITSSYYRGAHGIIIVYDVTDRDSFDNVKQWIQEIDRYAMENVNKLLVGNKCDLVSKRV 131
Query: 170 VHAEYRRRL 178
           V ++  R L
Sbjct: 132 VTSDEGREL 140

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score = 45.4 bits (106), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 29/114 (25%), Positives = 52/114 (45%), Gaps = 2/114 (1%)
Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++IIGS  VGK +++ R     F +A  S+  +     T+  +     + +W     E F
Sbjct: 29  VIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERF 88
Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEI--LLCIGNKVD 163
           +  +         +++V+++    T D L  W+  ID    E   LL +GNK+D
Sbjct: 89  NSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLD 142

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 33/137 (24%), Positives = 63/137 (45%), Gaps = 12/137 (8%)
Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSS--SELLVNGWTINTKYYTADVSLWMAHLHE 109
           ++++G + VGK +I+ R +S +F +  + +  +  L    TIN   +T    +W     E
Sbjct: 6   LVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINE--HTVKFEIWDTAGQE 63
Query: 110 EFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPG 167
            F+  +        A ++V+++    +    +HWV  +  Q  +  I+  +GNK+D L  
Sbjct: 64  RFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQ- 122
Query: 168 HPVHAEYRRRLLKREES 184
                E   R + REE 
Sbjct: 123 -----EGGERKVAREEG 134

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 28/116 (24%), Positives = 51/116 (43%), Gaps = 4/116 (3%)
Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
            L+IG++  GK  +L + +   F+D S+ +  +      IN       + +W     E F
Sbjct: 13  FLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERF 72
Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDL---QKFEILLCIGNKVDL 164
              +          ++V+++    T +AL +W+    +   Q   I+LC GNK DL
Sbjct: 73  RSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILC-GNKKDL 127

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score = 42.0 bits (97), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 28/116 (24%), Positives = 51/116 (43%), Gaps = 4/116 (3%)
Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
            L+IG++  GK  +L + +   F+D S+ +  +      IN       + +W     E F
Sbjct: 14  FLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERF 73
Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDL---QKFEILLCIGNKVDL 164
              +          ++V+++    T +AL +W+    +   Q   I+LC GNK DL
Sbjct: 74  RSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILC-GNKKDL 128

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	289
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	1e-05
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	1e-05
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	4e-05
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	4e-05
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	7e-05
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	7e-05
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	1e-04
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	1e-04
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	1e-04
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	1e-04
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	1e-04
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	1e-04
3llu_A	196	RAS-related GTP-binding protein C; structural geno	2e-04
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	2e-04
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	2e-04
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	2e-04
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	2e-04
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	3e-04
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	3e-04
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	4e-04
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	5e-04
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	5e-04
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	6e-04
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	6e-04
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	6e-04
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	7e-04
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	7e-04
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	8e-04
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	9e-04
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	9e-04
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	9e-04

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens} Length = 195

 Score = 44.5 bits (106), Expect = 1e-05
 Identities = 20/128 (15%), Positives = 44/128 (34%), Gaps = 26/128 (20%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSL--WMAHLH- 108
           ++++G S VGK T+      +  + A +                Y   + +      L  
Sbjct: 26  VMLVGESGVGKSTLAGTFGGLQGDSAHEP---------ENPEDTYERRIMVDKEEVTLVV 76

Query: 109 ------EEFS--IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI----DLQKFEILL 156
                  +    +R   +     A ++VF++ D  +   +   +  +          ++L
Sbjct: 77  YDIWEQGDAGGWLRDHCLQTGD-AFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVIL 135

Query: 157 CIGNKVDL 164
            +GNK DL
Sbjct: 136 -VGNKSDL 142

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B* Length = 184

 Score = 43.9 bits (104), Expect = 1e-05
 Identities = 28/131 (21%), Positives = 62/131 (47%), Gaps = 11/131 (8%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVN--GWTI---NTKYYTADVSLWMAH 106
           ++I+G++  GK T+L +L+     D    S+ + ++   W I   + +     +++W   
Sbjct: 5   LMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFA 64

Query: 107 LHEEF-SIRSLPISDQLTALVMVFNLNDL-STLDALKHWVPSIDLQ--KFEILLCIGNKV 162
             EEF S     ++ +   L  V++L+   + +DA+K W+ +I  +     ++L +G  +
Sbjct: 65  GREEFYSTHPHFMTQRALYLA-VYDLSKGQAEVDAMKPWLFNIKARASSSPVIL-VGTHL 122

Query: 163 DLLPGHPVHAE 173
           D+       A 
Sbjct: 123 DVSDEKQRKAC 133

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 43.4 bits (102), Expect = 4e-05
 Identities = 37/256 (14%), Positives = 88/256 (34%), Gaps = 19/256 (7%)

Query: 49  RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSL--WMAH 106
              +L++G S  GK ++ S + S     A D+           +   +  +++L  W   
Sbjct: 3   GSKLLLMGRSGSGKSSMRSIIFSNY--SAFDTRRLGATIDVEHSHLRFLGNMTLNLWDCG 60

Query: 107 LHEEFSIRSLP-----ISDQLTALVMVFNLNDLSTLDALKHWVPSI-DLQKFE---ILLC 157
             + F           I   +  L+ VF++     L  ++ +  ++  L+K+     +  
Sbjct: 61  GQDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFV 120

Query: 158 IGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSC 217
           + +K+DL+        ++  +    E+S++  F       T        +  S  +    
Sbjct: 121 LLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIGFPTSIWDESLYKAWSQIVCSLI 180

Query: 218 --LEWCTEHRIEYIEACASN--VDFDK--CLSIDGDSQGVERLYGALSAHMWPGMVLKSG 271
             +     +  ++ E   +   + F++   L I   +          S +    +  K  
Sbjct: 181 PNMSNHQSNLKKFKEIMNALEIILFERTTFLVICSSNGENSNENHDSSDNNNVLLDPKRF 240

Query: 272 DKITEPSLPVKEVMMK 287
           +KI+      K+   K
Sbjct: 241 EKISNIMKNFKQSCTK 256

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens} Length = 187

 Score = 42.6 bits (101), Expect = 4e-05
 Identities = 25/126 (19%), Positives = 51/126 (40%), Gaps = 23/126 (18%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDS------SSELLVNGWTINTKYY-TADVSLWM 104
           + I+G    GK  +  + L+  F    D       SSE  V+   ++ +   TAD     
Sbjct: 24  LAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYSSEETVDHQPVHLRVMDTAD----- 78

Query: 105 AHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFE------ILLCI 158
               +        ++    A ++V++++   + D+   ++  + L   E       LL +
Sbjct: 79  ---LDTPRNCERYLNWA-HAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALL-L 133

Query: 159 GNKVDL 164
           GNK+D+
Sbjct: 134 GNKLDM 139

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score = 41.7 bits (99), Expect = 7e-05
 Identities = 19/127 (14%), Positives = 47/127 (37%), Gaps = 24/127 (18%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDS-------SSELLVNGWTINTKYY-TADVSLW 103
           ++++G S VGK T+      +  + A +           ++V+   +    Y   +    
Sbjct: 5   VMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWE---- 60

Query: 104 MAHLHEEFS--IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI----DLQKFEILLC 157
                 +    ++   +     A ++VF++ D  +   +   +  +          ++L 
Sbjct: 61  ----QGDAGGWLQDHCLQTG-DAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVIL- 114

Query: 158 IGNKVDL 164
           +GNK DL
Sbjct: 115 VGNKSDL 121

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A* Length = 177

 Score = 41.3 bits (98), Expect = 7e-05
 Identities = 22/145 (15%), Positives = 47/145 (32%), Gaps = 58/145 (40%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++++G   VGK ++++R ++  F+              TI                  EF
Sbjct: 10  VILLGDGGVGKSSLMNRYVTNKFDTQLFH---------TIGV----------------EF 44

Query: 112 SIRSLPISDQL-------TA------------------LVMVFNLNDLSTLDALKHWVPS 146
             + L +           TA                   ++ F+++D  +   L +W   
Sbjct: 45  LNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKE 104

Query: 147 IDLQ-------KFEILLCIGNKVDL 164
                       F  ++ +GNK+D+
Sbjct: 105 FIYYADVKEPESFPFVI-LGNKIDI 128

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R* Length = 167

 Score = 40.9 bits (97), Expect = 1e-04
 Identities = 28/126 (22%), Positives = 55/126 (43%), Gaps = 24/126 (19%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTI-NTKYYTADVSLWMAHLH-- 108
           ++++GS  VGK  +  + ++  F +  D          TI +      +V    + L   
Sbjct: 6   VVVLGSGGVGKSALTVQFVTGTFIEKYDP---------TIEDFYRKEIEVDSSPSVLEIL 56

Query: 109 -----EEFS-IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI----DLQKFEILLCI 158
                E+F+ +R L I +     ++V++L +  +   +K     I      +K  ++L +
Sbjct: 57  DTAGTEQFASMRDLYIKN-GQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVIL-V 114

Query: 159 GNKVDL 164
           GNKVDL
Sbjct: 115 GNKVDL 120

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 196

 Score = 41.4 bits (98), Expect = 1e-04
 Identities = 22/124 (17%), Positives = 47/124 (37%), Gaps = 21/124 (16%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDS------SSELLVNGWTINTKYY-TADVSLWM 104
           + I G + VGK  ++ R L+  F    D         +  ++   ++ +   TA      
Sbjct: 31  LAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQATIDDEVVSMEILDTAG----- 85

Query: 105 AHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI----DLQKFEILLCIGN 160
               E+   R   +       V+V+++ D  + + +      +      +   ++L +GN
Sbjct: 86  ---QEDTIQREGHMRWG-EGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLIL-VGN 140

Query: 161 KVDL 164
           K DL
Sbjct: 141 KADL 144

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A* Length = 181

 Score = 41.0 bits (97), Expect = 1e-04
 Identities = 28/126 (22%), Positives = 48/126 (38%), Gaps = 24/126 (19%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTI-NTKYYTADVSLWMAHLH-- 108
           ++++G   VGK  +  + +   F    D          TI ++      V    A L   
Sbjct: 12  LVVVGGGGVGKSALTIQFIQSYFVSDYDP---------TIEDSYTKICSVDGIPARLDIL 62

Query: 109 -----EEFS-IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI----DLQKFEILLCI 158
                EEF  +R   +       ++VF +ND  + + +      I    D   F ++L +
Sbjct: 63  DTAGQEEFGAMREQYMRA-GHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVL-V 120

Query: 159 GNKVDL 164
           GNK DL
Sbjct: 121 GNKADL 126

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A* Length = 182

 Score = 40.6 bits (96), Expect = 1e-04
 Identities = 26/174 (14%), Positives = 62/174 (35%), Gaps = 68/174 (39%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDS-------SSELLVNG--------W------- 89
           ++I+G S VGK +++ R ++  +     +       + E+ V+G        W       
Sbjct: 11  VIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQER 70

Query: 90  --TINTKYY-TADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPS 146
             ++   +Y  AD                          V+V+++ + S+ + +K W   
Sbjct: 71  FQSLGVAFYRGAD------------------------CCVLVYDVTNASSFENIKSWRDE 106

Query: 147 IDLQ-------KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQS 193
             +         F  ++ +GNK+D         E  ++++  + +       +S
Sbjct: 107 FLVHANVNSPETFPFVI-LGNKIDA--------EESKKIVSEKSAQE---LAKS 148

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A* Length = 192

 Score = 40.7 bits (96), Expect = 1e-04
 Identities = 23/129 (17%), Positives = 47/129 (36%), Gaps = 27/129 (20%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSS--------ELLVNGWTINTKYY----TAD 99
           +++IG   VGK T+ +    V+    SD            L+V+G +             
Sbjct: 9   VVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWENKG 68

Query: 100 VSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI----DLQKFEIL 155
                     E+ +    +     A ++V+++ D ++ +        +      +   I+
Sbjct: 69  --------ENEW-LHDHCMQVG-DAYLIVYSITDRASFEKASELRIQLRRARQTEDIPII 118

Query: 156 LCIGNKVDL 164
           L +GNK DL
Sbjct: 119 L-VGNKSDL 126

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi} Length = 218

 Score = 41.1 bits (97), Expect = 1e-04
 Identities = 25/141 (17%), Positives = 43/141 (30%), Gaps = 53/141 (37%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           I +IG   VGK T ++R+L   FE   ++         T+                    
Sbjct: 14  ICLIGDGGVGKTTYINRVLDGRFEKNYNA---------TVGA---------------VNH 49

Query: 112 SIRSLPISDQL-------TA------------------LVMVFNLNDLSTLDALKHWVPS 146
            +  L     +       TA                   ++ F++    T   L  WV  
Sbjct: 50  PVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKE 109

Query: 147 IDLQ---KFEILLCIGNKVDL 164
                  +  I++C  NK+D+
Sbjct: 110 FQAVVGNEAPIVVC-ANKIDI 129

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A* Length = 196

 Score = 40.7 bits (95), Expect = 2e-04
 Identities = 25/159 (15%), Positives = 48/159 (30%), Gaps = 12/159 (7%)

Query: 47  EKRPGILIIGSSNVGKRTILSRLLS-VNFEDASDSSSELLVNGWTINTKYYTADVSLWMA 105
             +P IL++G    GK +I   +   ++  +     S    N    +    ++ V+  + 
Sbjct: 18  GSKPRILLMGLRRSGKSSIQKVVFHKMSPNETLFLES---TNKIYKDDISNSSFVNFQIW 74

Query: 106 HLHEEFSIRSL-----PISDQLTALVMVFNLNDLSTLDA--LKHWVPSIDLQKFEI-LLC 157
               +            I     AL+ V +  D        L   V        ++    
Sbjct: 75  DFPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMNFEV 134

Query: 158 IGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGIS 196
             +KVD L         R    +  +  AD    +  +S
Sbjct: 135 FIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLS 173

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A* Length = 168

 Score = 40.2 bits (95), Expect = 2e-04
 Identities = 24/140 (17%), Positives = 46/140 (32%), Gaps = 53/140 (37%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++++G+  VGK +++ R     F               TI                  +F
Sbjct: 8   MVVVGNGAVGKSSMIQRYCKGIFTKDYKK---------TIGV----------------DF 42

Query: 112 SIRSLPISDQL-------TA------------------LVMVFNLNDLSTLDALKHWVPS 146
             R + ++D+        TA                   V+VF+  D  + +A+  W   
Sbjct: 43  LERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREK 102

Query: 147 IDLQ--KFEILLCIGNKVDL 164
           +  +       L + NK+DL
Sbjct: 103 VVAEVGDIPTAL-VQNKIDL 121

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 Length = 172

 Score = 39.8 bits (94), Expect = 2e-04
 Identities = 25/126 (19%), Positives = 51/126 (40%), Gaps = 23/126 (18%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSE------LLVNGWTINTKYY-TADVSLWM 104
           + + G+  VGK +++ R +   F ++   + E      +  +      +   T       
Sbjct: 6   VAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDKSICTLQITDTTG----- 60

Query: 105 AHLHEEFS-IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI-----DLQKFEILLCI 158
                +F  ++ L IS    A ++V+++    +L+ LK     I     D++   I+L  
Sbjct: 61  ---SHQFPAMQRLSISK-GHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLV- 115

Query: 159 GNKVDL 164
           GNK D 
Sbjct: 116 GNKCDE 121

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B* Length = 207

 Score = 40.3 bits (95), Expect = 2e-04
 Identities = 27/145 (18%), Positives = 53/145 (36%), Gaps = 58/145 (40%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++I+G S VGK +++++ ++  F +   +         TI                  +F
Sbjct: 11  VIILGDSGVGKTSLMNQYVNKKFSNQYKA---------TIGA----------------DF 45

Query: 112 SIRSLPISDQL-------TA------------------LVMVFNLNDLSTLDALKHWVPS 146
             + + + D+L       TA                   V+VF++   +T   L  W   
Sbjct: 46  LTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDE 105

Query: 147 IDLQ-------KFEILLCIGNKVDL 164
             +Q        F  ++ +GNK+DL
Sbjct: 106 FLIQASPRDPENFPFVV-LGNKIDL 129

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 1qg4_A* 3ea5_A* 1qg2_A* 1byu_A* 3ran_A* 3gjx_C* ... Length = 221

 Score = 40.4 bits (95), Expect = 2e-04
 Identities = 25/142 (17%), Positives = 44/142 (30%), Gaps = 57/142 (40%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++++G    GK T + R L+  FE    +         T+                  E 
Sbjct: 18  LVLVGDGGTGKTTFVKRHLTGEFEKKYVA---------TLGV----------------EV 52

Query: 112 SIRSLPISDQL-------TA------------------LVMVFNLNDLSTLDALKHWVPS 146
                  +          TA                   +++F++    T   + +W   
Sbjct: 53  HPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHR- 111

Query: 147 IDLQK----FEILLCIGNKVDL 164
            DL +      I+LC GNKVD+
Sbjct: 112 -DLVRVCENIPIVLC-GNKVDI 131

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A* Length = 183

 Score = 39.8 bits (94), Expect = 3e-04
 Identities = 27/126 (21%), Positives = 53/126 (42%), Gaps = 24/126 (19%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTI-NTKYYTADVSLWMAHLH-- 108
           ++++G   VGK  +  +     F D  D          TI ++     ++    A L   
Sbjct: 21  LVVVGDGGVGKSALTIQFFQKIFVDDYDP---------TIEDSYLKHTEIDNQWAILDVL 71

Query: 109 -----EEFS-IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI----DLQKFEILLCI 158
                EEFS +R   +       ++V+++ D ++ + +  +   I    D + F ++L +
Sbjct: 72  DTAGQEEFSAMREQYMRT-GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMIL-V 129

Query: 159 GNKVDL 164
            NKVDL
Sbjct: 130 ANKVDL 135

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score = 41.1 bits (96), Expect = 3e-04
 Identities = 24/176 (13%), Positives = 55/176 (31%), Gaps = 29/176 (16%)

Query: 22  EDRLSFVRVLIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSS 81
           E    + + +   R + ++       K   + +IG    GK ++L +L+   F+     +
Sbjct: 17  EAVRQYFQSIEEARSKGEALVHLQEIK---VHLIGDGMAGKTSLLKQLIGETFDPKESQT 73

Query: 82  SELLVNGWTINTKYYTAD--------VSLW-------MAHLHEEFSIRSLPISDQLTALV 126
             L V            +           W       M   H+ F      ++     ++
Sbjct: 74  HGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQFF------MTRSSVYML 127

Query: 127 MVFNLNDLSTLDALKHWVPSIDLQ-KFEILLCIGNKVDLLPGHPVHAEYRRRLLKR 181
            +    D  T     +W+  I+       ++ + NK+D  P + +  +        
Sbjct: 128 -LL---DSRTDSNKHYWLRHIEKYGGKSPVIVVMNKIDENPSYNIEQKKINERFPA 179

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} Length = 184

 Score = 39.5 bits (93), Expect = 4e-04
 Identities = 28/203 (13%), Positives = 59/203 (29%), Gaps = 74/203 (36%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSL--WMAHLH- 108
           + I+G+ + GK  ++ R L+  +                     +  ++ +      L  
Sbjct: 23  VGIVGNLSSGKSALVHRYLTGTYVQEESP---------EGGR--FKKEIVVDGQSYLLLI 71

Query: 109 ------EEFS-IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI----DLQKFEILLC 157
                  E          D   A+V VF+L D  +   + ++   +    +  +  ++L 
Sbjct: 72  RDEGGPPELQFAAW---VD---AVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVL- 124

Query: 158 IGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSC 217
           +G +  +   +P           R             I ++    L              
Sbjct: 125 VGTQDAISAANP-----------RV------------IDDSRARKL-------------S 148

Query: 218 LEWCTEHRIEYIEACA---SNVD 237
            +     R  Y E CA    NV+
Sbjct: 149 TDL---KRCTYYETCATYGLNVE 168

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 24/126 (19%), Positives = 50/126 (39%), Gaps = 24/126 (19%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTIN---TKYYTADVSLWMAHL- 107
           ++I+G   VGK ++  + +   F +  D          T+    +K  T     +  HL 
Sbjct: 27  VVILGYRCVGKTSLAHQFVEGEFSEGYDP---------TVENTYSKIVTLGKDEFHLHLV 77

Query: 108 ----HEEFS-IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI----DLQKFEILLCI 158
                +E+S +    I       V+V+++  L +   ++     +       +  ++L +
Sbjct: 78  DTAGQDEYSILPYSFIIGVH-GYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVL-V 135

Query: 159 GNKVDL 164
           GNK DL
Sbjct: 136 GNKADL 141

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A* Length = 217

 Score = 39.6 bits (93), Expect = 5e-04
 Identities = 28/139 (20%), Positives = 49/139 (35%), Gaps = 39/139 (28%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTI----NTKYYTADVSLWMAHL 107
           +L +G S VGK T L R     F     +         T+      K    +        
Sbjct: 28  LLALGDSGVGKTTFLYRYTDNKFNPKFIT---------TVGIDFREKRVVYNAQGPNGSS 78

Query: 108 HEEFSIRSLPISDQLTA------------------LVMVFNLNDLSTLDALKHWVPSI-- 147
            + F +  L + D  TA                   +++F+L    +   +++W+  +  
Sbjct: 79  GKAFKVH-LQLWD--TAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQA 135

Query: 148 --DLQKFEILLCIGNKVDL 164
               +  +I+L IGNK DL
Sbjct: 136 NAYCENPDIVL-IGNKADL 153

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 199

 Score = 39.1 bits (92), Expect = 6e-04
 Identities = 24/126 (19%), Positives = 49/126 (38%), Gaps = 23/126 (18%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSE------LLVNGWTINTKYY-TADVSLWM 104
           +++ G+  VGK +++ R +   F D    + E      +  +      +   T       
Sbjct: 11  VVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYRQVISCDKSVCTLQITDTTG----- 65

Query: 105 AHLHEEFS-IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI-----DLQKFEILLCI 158
                +F  ++ L IS    A ++VF++    +L+ L      I      ++   ++L  
Sbjct: 66  ---SHQFPAMQRLSISK-GHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLV- 120

Query: 159 GNKVDL 164
           GNK D 
Sbjct: 121 GNKCDE 126

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A* Length = 168

 Score = 38.6 bits (91), Expect = 6e-04
 Identities = 23/125 (18%), Positives = 51/125 (40%), Gaps = 22/125 (17%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSE------LLVNGWTINTKYY-TADVSLWM 104
           ++++GS  VGK  +  + +   F +  + +        ++++G  +      TA      
Sbjct: 7   VIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAG----- 61

Query: 105 AHLHEEFS-IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI----DLQKFEILLCIG 159
               E+++ IR           + VF++ ++ +  A   +   I    + +    LL +G
Sbjct: 62  ---QEDYAAIRDNYFRS-GEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLL-VG 116

Query: 160 NKVDL 164
           NK DL
Sbjct: 117 NKSDL 121

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A* Length = 187

 Score = 39.1 bits (92), Expect = 6e-04
 Identities = 23/125 (18%), Positives = 51/125 (40%), Gaps = 22/125 (17%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSE------LLVNGWTINTKYY-TADVSLWM 104
           ++++GS  VGK  +  + +   F +  + +        ++++G  +      TA      
Sbjct: 21  VIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAG----- 75

Query: 105 AHLHEEFS-IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI----DLQKFEILLCIG 159
               E+++ IR           + VF++ ++ +  A   +   I    + +    LL +G
Sbjct: 76  ---QEDYAAIRDNYFRS-GEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLL-VG 130

Query: 160 NKVDL 164
           NK DL
Sbjct: 131 NKSDL 135

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens} Length = 200

 Score = 38.8 bits (91), Expect = 7e-04
 Identities = 32/168 (19%), Positives = 54/168 (32%), Gaps = 59/168 (35%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
            L+IGS+  GK  +L + +   F+  S+          TI                  EF
Sbjct: 28  FLVIGSAGTGKSCLLHQFIENKFKQDSNH---------TIGV----------------EF 62

Query: 112 SIRSLPISDQL-------TA------------------LVMVFNLNDLSTLDALKHWVPS 146
             R + +  +        TA                   ++V+++    T ++L  W+  
Sbjct: 63  GSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTD 122

Query: 147 IDL---QKFEILLCIGNKVDLLPGHPVHAEYRRRLLKRE-----ESSA 186
                     ++L  GNK DL P   V      R  +       E+SA
Sbjct: 123 ARTLASPNIVVIL-CGNKKDLDPEREVTFLEASRFAQENELMFLETSA 169

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A* Length = 190

 Score = 38.7 bits (91), Expect = 7e-04
 Identities = 27/125 (21%), Positives = 53/125 (42%), Gaps = 22/125 (17%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDS------SSELLVNGWTINTKYY-TADVSLWM 104
           ++++G+  VGK  +  +L+  +F D  D         +++++G T       TA      
Sbjct: 24  LVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAG----- 78

Query: 105 AHLHEEFS-IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI----DLQKFEILLCIG 159
               EE+S +R   +       + VF +N+  +   +  +   I    D     ++L +G
Sbjct: 79  ---QEEYSAMRDQYMRT-GEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVL-VG 133

Query: 160 NKVDL 164
           NK DL
Sbjct: 134 NKCDL 138

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A Length = 170

 Score = 38.3 bits (90), Expect = 8e-04
 Identities = 29/141 (20%), Positives = 55/141 (39%), Gaps = 54/141 (38%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           IL+IG S VGK  +L R +   F  +  +         TI                  +F
Sbjct: 6   ILLIGDSGVGKSCLLVRFVEDKFNPSFIT---------TIGI----------------DF 40

Query: 112 SIRSLPISDQL-------TA------------------LVMVFNLNDLSTLDALKHWVPS 146
            I+++ I+ +        TA                  +++V+++ D  T   +K W  +
Sbjct: 41  KIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKT 100

Query: 147 IDL---QKFEILLCIGNKVDL 164
           ++     + ++LL +GNK D+
Sbjct: 101 VNEHANDEAQLLL-VGNKSDM 120

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A* Length = 199

 Score = 38.4 bits (90), Expect = 9e-04
 Identities = 30/141 (21%), Positives = 50/141 (35%), Gaps = 54/141 (38%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           +++IG S VGK  +LSR     F   S S         TI                  EF
Sbjct: 8   VVLIGDSGVGKSNLLSRFTRNEFNLESKS---------TIGV----------------EF 42

Query: 112 SIRSLPISDQL-------TA------------------LVMVFNLNDLSTLDALKHWVPS 146
           + RS+ +  +        TA                   ++V+++    T + ++ W+  
Sbjct: 43  ATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKE 102

Query: 147 IDL---QKFEILLCIGNKVDL 164
           +         I+L +GNK DL
Sbjct: 103 LRDHADSNIVIML-VGNKSDL 122

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D* Length = 167

 Score = 38.2 bits (90), Expect = 9e-04
 Identities = 27/125 (21%), Positives = 54/125 (43%), Gaps = 22/125 (17%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSE------LLVNGWTINTKYY-TADVSLWM 104
           ++++GS  VGK  +  + +   F +  D + E      + V+      +   TA      
Sbjct: 6   LVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAG----- 60

Query: 105 AHLHEEFS-IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI----DLQKFEILLCIG 159
               E+F+ +R L + +      +V+++   ST + L+     I    D +   ++L +G
Sbjct: 61  ---TEQFTAMRDLYMKN-GQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMIL-VG 115

Query: 160 NKVDL 164
           NK DL
Sbjct: 116 NKCDL 120

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ... Length = 166

 Score = 38.2 bits (90), Expect = 9e-04
 Identities = 28/125 (22%), Positives = 55/125 (44%), Gaps = 22/125 (17%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSE------LLVNGWTINTKYY-TADVSLWM 104
           ++++G+  VGK  +  +L+  +F D  D + E      ++++G T       TA      
Sbjct: 6   LVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSYRKQVVIDGETCLLDILDTAG----- 60

Query: 105 AHLHEEFS-IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI----DLQKFEILLCIG 159
               EE+S +R   +       + VF +N+  + + +  +   I    D     ++L +G
Sbjct: 61  ---QEEYSAMRDQYMRT-GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL-VG 115

Query: 160 NKVDL 164
           NK DL
Sbjct: 116 NKSDL 120

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	289
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	100.0
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.97
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.97
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.97
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.97
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.97
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.97
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.97
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.97
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.97
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.97
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.97
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.97
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.97
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.97
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.97
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.96
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.96
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.96
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.96
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.96
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.96
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.96
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.96
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.96
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.96
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.96
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.96
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.96
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.96
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.96
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.96
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.96
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.96
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.96
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.96
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.96
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.96
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.96
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.96
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.96
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.96
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.96
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.96
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.96
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.96
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.96
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.96
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.96
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.96
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.96
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.96
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.96
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.96
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.96
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.96
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.96
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.96
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.96
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.96
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.96
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.96
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.96
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.96
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.95
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.95
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.95
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.95
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.95
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.95
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.95
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.95
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.95
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.95
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.95
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.95
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.95
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.95
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.95
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.95
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.95
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.95
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.95
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.95
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.95
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.94
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.94
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.94
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.94
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.94
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.94
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.94
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.94
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.94
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.94
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.93
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.93
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.93
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.88
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.93
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.92
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.92
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.92
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.91
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.91
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.91
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.9
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.9
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.9
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.9
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.89
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.89
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.89
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.88
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.88
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.87
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.86
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.86
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.86
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.85
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.85
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.85
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.84
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.84
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.82
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.8
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.8
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.8
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.79
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.78
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.78
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.78
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.77
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.77
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.77
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.77
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.76
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.75
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.75
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.75
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.75
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.74
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.74
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.74
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.74
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.74
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.73
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.73
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.73
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.73
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.73
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.73
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.72
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.72
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.71
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.71
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.71
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.71
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.71
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.71
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.7
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.7
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.7
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.67
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.67
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.66
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.66
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.66
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.65
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.65
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.64
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.63
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.63
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.63
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.62
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.61
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.61
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.6
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.6
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.6
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.57
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.56
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.56
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.55
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.54
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.52
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.5
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.5
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.5
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.47
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.46
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.44
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.43
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.42
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.37
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.36
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.35
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.29
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.27
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.26
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.23
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	99.21
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.15
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.06
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	98.98
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	98.97
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	98.8
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	98.79
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	98.77
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	98.73
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.61
3uc9_A	233	Increased recombination centers protein 6; rossman	98.57
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	98.56
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	98.49
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.42
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	98.41
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	98.28
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	98.19
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.17
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.14
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.07
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.06
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	97.98
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	97.92
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	97.52
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	97.52
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.48
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	97.44
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	97.26
1b0u_A	262	Histidine permease; ABC transporter, transport pro	97.22
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	97.21
1g6h_A	257	High-affinity branched-chain amino acid transport	97.2
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	97.17
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	97.16
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	97.15
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	97.13
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	97.13
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	97.13
1ji0_A	240	ABC transporter; ATP binding protein, structural g	97.12
1sgw_A	214	Putative ABC transporter; structural genomics, P p	97.12
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	97.12
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	97.12
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	97.11
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	97.08
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	97.06
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	97.06
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	97.05
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	97.04
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	97.0
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.99
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.98
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.98
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	96.98
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	96.96
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.96
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.93
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	96.92
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.91
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	96.91
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.87
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.87
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	96.86
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.84
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.81
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	96.76
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	96.75
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.75
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.72
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.7
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	96.69
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	96.64
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.63
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.6
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.59
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.57
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.56
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.53
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.51
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.5
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.49
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	96.49
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.47
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.46
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.45
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.45
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.42
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.41
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.4
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.4
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.36
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.32
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.32
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.29
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.29
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.29
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.26
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.22
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	96.2
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.14
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.12
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.08
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	96.05
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.99
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	95.98
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	95.97
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.96
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	95.91
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	95.9
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	95.89
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.83
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.81
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	95.8
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.77
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	95.75
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	95.74
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	95.72
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.7
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.69
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	95.69
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	95.67
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	95.67
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.66
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.65
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.65
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	95.65
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.64
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.6
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	95.59
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.58
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.58
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	95.57
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	95.56
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.54
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.53
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.49
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	95.46
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.45
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	95.44
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.44
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.41
4a74_A	231	DNA repair and recombination protein RADA; hydrola	95.4
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.39
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.38
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.38
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	95.38
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.37
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	95.36
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.35
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	95.35
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.35
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	95.35
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.34
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.28
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	95.25
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.22
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	95.2
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.2
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	95.17
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	95.05
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.02
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.01
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.0
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	95.0
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.0
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.0
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	94.94
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	94.93
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	94.93
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	94.92
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	94.89
3kta_A	182	Chromosome segregation protein SMC; structural mai	94.89
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	94.89
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	94.86
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	94.84
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.83
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	94.82
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	94.81
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	94.8
1via_A	175	Shikimate kinase; structural genomics, transferase	94.76
2vli_A	183	Antibiotic resistance protein; transferase, tunica	94.75
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	94.68
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	94.66
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	94.64
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	94.59
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	94.58
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	94.56
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	94.55
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	94.54
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	94.53
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	94.52
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	94.5
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	94.49
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.48
2og2_A	359	Putative signal recognition particle receptor; nuc	94.48
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.47
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	94.43
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	94.42
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	94.41
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	94.4
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	94.39
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	94.38
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	94.34
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.32
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	94.3
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	94.29
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	94.27
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	94.27
2cvh_A	220	DNA repair and recombination protein RADB; filamen	94.24
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	94.23
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	94.22
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	94.22
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	94.2
3cwq_A	209	Para family chromosome partitioning protein; alpha	94.16
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	94.15
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	94.13
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	94.12
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	94.12
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	94.12
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	94.11
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	94.1
3bos_A	242	Putative DNA replication factor; P-loop containing	94.03
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	93.96
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	93.96
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	93.92
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	93.9
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	93.8
2ewv_A	372	Twitching motility protein PILT; pilus retraction	93.8
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	93.79
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	93.78
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	93.77
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	93.74
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	93.74
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	93.65
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	93.65
2chg_A	226	Replication factor C small subunit; DNA-binding pr	93.6
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	93.55
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	93.53
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	93.53
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	93.49
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	93.25
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	93.17
1p9r_A	418	General secretion pathway protein E; bacterial typ	93.06
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	93.04
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	93.02
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	93.01
4aby_A	415	DNA repair protein RECN; hydrolase, double strand	93.0
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	92.99
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	92.98
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	92.81
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	92.8
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	92.72
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	92.68
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	92.66
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	92.58
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	92.53
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	92.41
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	92.36
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	92.29
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	92.28
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	92.27
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	92.27
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	92.16
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	92.13
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	92.13
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	92.13
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	92.08
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	92.06
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	92.04
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	91.96
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	91.88
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	91.74
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	91.67
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	91.65
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	91.57
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	91.56
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	91.54
2fna_A	357	Conserved hypothetical protein; structural genomic	91.52
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	91.49
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	91.44
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	91.43
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	91.41
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	91.4
1tue_A	212	Replication protein E1; helicase, replication, E1E	91.39
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	91.38
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	91.35
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	91.35
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	91.32
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	91.32
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	91.28
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	91.25
3co5_A	143	Putative two-component system transcriptional RES	91.19
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	91.11
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	91.1
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	91.09
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	91.05
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	91.02
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	91.02
2o5v_A	359	DNA replication and repair protein RECF; ABC ATPas	90.95
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	90.95
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	90.93

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=100.00  E-value=5.9e-36  Score=263.76  Aligned_cols=167  Identities=19%  Similarity=0.320  Sum_probs=136.2

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      .+.+.+||+|+|++|||||||++||+.+.|...+.+|++.++....+..++..+.++||||+|+++|+.+...|++++++
T Consensus         9 ~P~k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~   88 (216)
T 4dkx_A            9 NPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRDSAA   88 (216)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEECSSCEEEEEEECCSCTTTCGGGHHHHHTTCSE
T ss_pred             CCCCcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceEEEEEEEECCCchhhhhHHHHHhccccE
Confidence            45567999999999999999999999999999999999999888888888889999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      +|+|||+++++||+.+..|+..+.....  .|++|||||+|+..        .|++                        
T Consensus        89 ~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~~--------~r~V------------------------  136 (216)
T 4dkx_A           89 AVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLAD--------KRQV------------------------  136 (216)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGG--------GCCS------------------------
T ss_pred             EEEEeecchhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchHh--------cCcc------------------------
Confidence            9999999999999999999999976643  39999999999943        3334                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                        +.+        ++.+++..++++|+||||++|            .||+++|+.|++.+...
T Consensus       137 --~~~--------e~~~~a~~~~~~~~e~SAktg------------~nV~e~F~~i~~~i~~~  177 (216)
T 4dkx_A          137 --SIE--------EGERKAKELNVMFIETSAKAG------------YNVKQLFRRVAAALPGM  177 (216)
T ss_dssp             --CHH--------HHHHHHHHHTCEEEEEBTTTT------------BSHHHHHHHHHHHC---
T ss_pred             --cHH--------HHhhHHHHhCCeeEEEeCCCC------------cCHHHHHHHHHHHHHhh
Confidence              222        288999999999999999999            99999999999987643

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.97  E-value=5.7e-30  Score=217.27  Aligned_cols=170  Identities=22%  Similarity=0.327  Sum_probs=146.3

Q ss_pred             cccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCcc
Q 040295           44 ASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLT  123 (289)
Q Consensus        44 ~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad  123 (289)
                      ......+||+|+|++|||||||+++|+++.+...+.++.+.++....+..++..+.+.+|||||++.+..++..+++.+|
T Consensus        11 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   90 (196)
T 3tkl_A           11 PEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAH   90 (196)
T ss_dssp             CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTHHHHHTTCS
T ss_pred             cccccceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHHhhCC
Confidence            34456689999999999999999999999988888888888887777777777889999999999999999999999999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          124 ALVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       124 ~vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      ++|+|||++++.+|+.+..|+..+....  ..|+++|+||+|+.......                              
T Consensus        91 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~~~------------------------------  140 (196)
T 3tkl_A           91 GIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVD------------------------------  140 (196)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSC------------------------------
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccC------------------------------
Confidence            9999999999999999999999987764  34999999999996432111                              


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcc
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMV  267 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~  267 (289)
                                  ...+..++..++++|++|||+++            .|++++|.+|.+.+.....
T Consensus       141 ------------~~~~~~~~~~~~~~~~~~Sa~~g------------~gv~~l~~~l~~~i~~~~~  182 (196)
T 3tkl_A          141 ------------YTTAKEFADSLGIPFLETSAKNA------------TNVEQSFMTMAAEIKKRMG  182 (196)
T ss_dssp             ------------HHHHHHHHHHTTCCEEEECTTTC------------TTHHHHHHHHHHHHHHHC-
T ss_pred             ------------HHHHHHHHHHcCCcEEEEeCCCC------------CCHHHHHHHHHHHHHHHhc
Confidence                        12267889999999999999999            9999999999998876543

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=99.97  E-value=1.7e-30  Score=218.46  Aligned_cols=167  Identities=19%  Similarity=0.284  Sum_probs=114.0

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||+|+|++|||||||+++|.++.+...+.+|.+.++....+..++..+.+.+|||||++.|..++..+++.+|++|
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   85 (183)
T 2fu5_C            6 DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIM   85 (183)
T ss_dssp             SEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhhhhhHHHHHhcCCEEE
Confidence            45689999999999999999999999887777788887776666666777789999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      +|||++++.+|+.+..|+..+....  ..|+++||||+|+.....+.                                 
T Consensus        86 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~v~---------------------------------  132 (183)
T 2fu5_C           86 LVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVS---------------------------------  132 (183)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSC---------------------------------
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCCccCcCC---------------------------------
Confidence            9999999999999999999987753  34999999999996432111                                 


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMV  267 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~  267 (289)
                               ...+..++..++++|++|||+++            .|++++|.+|.+.+.....
T Consensus       133 ---------~~~~~~~~~~~~~~~~~~Sa~~~------------~~i~~l~~~l~~~i~~~~~  174 (183)
T 2fu5_C          133 ---------KERGEKLALDYGIKFMETSAKAN------------INVENAFFTLARDIKAKMD  174 (183)
T ss_dssp             ---------HHHHHHHHHHHTCEEEECCC---------------CCHHHHHHHHHHHHHHHHH
T ss_pred             ---------HHHHHHHHHHcCCeEEEEeCCCC------------CCHHHHHHHHHHHHHHHhh
Confidence                     12267888889999999999999            9999999999998876543

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.97  E-value=1.1e-29  Score=211.86  Aligned_cols=167  Identities=17%  Similarity=0.270  Sum_probs=141.5

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ..+.+||+|+|++|||||||+++|.++.+...+.++.+.++....+...+..+.+.+|||||++.+..++..+++.+|++
T Consensus         6 ~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~   85 (181)
T 3tw8_B            6 YDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGV   85 (181)
T ss_dssp             CCEEEEEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCCGGGGTTCSEE
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhHHHHhccCCEE
Confidence            45568999999999999999999999998878888888888777777777778999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |+|||++++.+|+.+..|+..+..... .|+++|+||+|+.....        +                          
T Consensus        86 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~--------~--------------------------  131 (181)
T 3tw8_B           86 IVVYDVTSAESFVNVKRWLHEINQNCDDVCRILVGNKNDDPERKV--------V--------------------------  131 (181)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHCTTSEEEEEEECTTCGGGCC--------S--------------------------
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECCCCchhcc--------c--------------------------
Confidence            999999999999999999999876653 49999999999853211        1                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                      .        ...+..++...+++++++||++|            .|++++|++|.+.+....
T Consensus       132 ~--------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~~~~~  173 (181)
T 3tw8_B          132 E--------TEDAYKFAGQMGIQLFETSAKEN------------VNVEEMFNCITELVLRAK  173 (181)
T ss_dssp             C--------HHHHHHHHHHHTCCEEECBTTTT------------BSHHHHHHHHHHHHHHHH
T ss_pred             C--------HHHHHHHHHHcCCeEEEEECCCC------------CCHHHHHHHHHHHHHHHh
Confidence            0        12267888889999999999999            999999999999876554

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=99.97  E-value=1.4e-29  Score=208.80  Aligned_cols=163  Identities=17%  Similarity=0.292  Sum_probs=139.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +.+||+|+|++|||||||+++|+++.+...+.++.+..+....+...+..+.+.+|||||++.|...+..+++.+|++|+
T Consensus         5 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~   84 (170)
T 1r2q_A            5 CQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIV   84 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHhhhhhHHhccCCCEEEE
Confidence            45899999999999999999999999888788888888766666667778899999999999999999899999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      |||++++.+|+.+..|+..+....  ..|+++||||+|+....        .+                          .
T Consensus        85 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~--------~~--------------------------~  130 (170)
T 1r2q_A           85 VYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKR--------AV--------------------------D  130 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC--------CS--------------------------C
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCcccc--------cc--------------------------C
Confidence            999999999999999999887664  33899999999995321        11                          0


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                              .+.+..++..++++|+++||++|            .|++++|++|.+.+.+
T Consensus       131 --------~~~~~~~~~~~~~~~~~~Sa~~g------------~gi~~l~~~i~~~~~~  169 (170)
T 1r2q_A          131 --------FQEAQSYADDNSLLFMETSAKTS------------MNVNEIFMAIAKKLPK  169 (170)
T ss_dssp             --------HHHHHHHHHHTTCEEEECCTTTC------------TTHHHHHHHHHHTSCC
T ss_pred             --------HHHHHHHHHHcCCeEEEEeCCCC------------CCHHHHHHHHHHHHhh
Confidence                    12267888889999999999999            9999999999987643

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=99.97  E-value=1.7e-29  Score=208.98  Aligned_cols=164  Identities=17%  Similarity=0.269  Sum_probs=134.3

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||+|+|++|||||||+++|.++.+...+.++.+..+....+..++..+.+.+|||||++.+..++..+++.+|++|
T Consensus         4 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i   83 (170)
T 1z08_A            4 AYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAI   83 (170)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEE
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHhccCCEEE
Confidence            34589999999999999999999999988778888888877677777778889999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      +|||++++.+|+.+..|+..+....  ..|+++|+||+|+....        .+                          
T Consensus        84 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--------~~--------------------------  129 (170)
T 1z08_A           84 LVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKER--------HV--------------------------  129 (170)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGC--------CS--------------------------
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECccccccc--------cc--------------------------
Confidence            9999999999999999998886643  34899999999995321        11                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                      +        .+.+..++...+++++++||+++            .|++++|++|++.+.+
T Consensus       130 ~--------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~~~  169 (170)
T 1z08_A          130 S--------IQEAESYAESVGAKHYHTSAKQN------------KGIEELFLDLCKRMIE  169 (170)
T ss_dssp             C--------HHHHHHHHHHTTCEEEEEBTTTT------------BSHHHHHHHHHHHHHC
T ss_pred             C--------HHHHHHHHHHcCCeEEEecCCCC------------CCHHHHHHHHHHHHhh
Confidence            1        12267888889999999999999            9999999999987653

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=99.97  E-value=3.5e-29  Score=210.07  Aligned_cols=164  Identities=16%  Similarity=0.177  Sum_probs=139.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..+||+|+|++|||||||+++|.++.+...+.+|.+..+ ...+..++..+.+.+|||||++.|..++..+++.+|++|+
T Consensus         5 ~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~   83 (181)
T 3t5g_A            5 KSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYIL   83 (181)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTTTCSEEEE
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEeCCCchhhhHHHHHHHhcCCEEEE
Confidence            358999999999999999999999988888888888777 4555667777899999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |||++++.+|+.+..|+..+....   ..|+++||||+|+......                                  
T Consensus        84 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~----------------------------------  129 (181)
T 3t5g_A           84 VYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVI----------------------------------  129 (181)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTTCCS----------------------------------
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhccee----------------------------------
Confidence            999999999999999998885542   3489999999999542211                                  


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                      .        ...+..++..++++|+++||+++            .|++++|..|++.+....
T Consensus       130 ~--------~~~~~~~~~~~~~~~~~~Sa~~~------------~~v~~l~~~l~~~~~~~~  171 (181)
T 3t5g_A          130 S--------YEEGKALAESWNAAFLESSAKEN------------QTAVDVFRRIILEAEKMD  171 (181)
T ss_dssp             C--------HHHHHHHHHHTTCEEEECCTTSH------------HHHHHHHHHHHHHHHTC-
T ss_pred             c--------HHHHHHHHHHhCCcEEEEecCCC------------CCHHHHHHHHHHHHHHhc
Confidence            1        12278899999999999999999            999999999999887654

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.97  E-value=1.1e-29  Score=219.82  Aligned_cols=168  Identities=19%  Similarity=0.324  Sum_probs=144.3

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      .....+||+|+|++|||||||+++|.++.+...+.+|.+.++....+..++..+.+.+|||+|++.|..+...+++.+|+
T Consensus        22 ~~~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~  101 (201)
T 2ew1_A           22 DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANA  101 (201)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSE
T ss_pred             ccccceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHHhcCCE
Confidence            44566899999999999999999999999988888899888877777777778899999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      +|+|||++++.+|+.+..|+..+....  ..|+++||||+|+...        +++                        
T Consensus       102 ~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~--------~~v------------------------  149 (201)
T 2ew1_A          102 LILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAER--------REV------------------------  149 (201)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGG--------CSS------------------------
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccc--------ccc------------------------
Confidence            999999999999999999999987764  3489999999999532        111                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                        .        .+.+..++...+++|++|||++|            .||+++|.+|++.+....
T Consensus       150 --~--------~~~~~~~~~~~~~~~~~~Sa~~g------------~gv~~l~~~l~~~i~~~~  191 (201)
T 2ew1_A          150 --S--------QQRAEEFSEAQDMYYLETSAKES------------DNVEKLFLDLACRLISEA  191 (201)
T ss_dssp             --C--------HHHHHHHHHHHTCCEEECCTTTC------------TTHHHHHHHHHHHHHHHH
T ss_pred             --C--------HHHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHHHHHH
Confidence              1        12267788888999999999999            999999999999887543

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=99.97  E-value=4.2e-29  Score=206.31  Aligned_cols=162  Identities=18%  Similarity=0.308  Sum_probs=140.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +.+||+|+|++|||||||+++|.++.+...+.++.+..+....+...+....+.+|||||++.+..+...+++.+|++|+
T Consensus         5 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~   84 (170)
T 1z0j_A            5 RELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAII   84 (170)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEE
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCCCchhhhcccHhhCcCCCEEEE
Confidence            45899999999999999999999999888888888888776667667777899999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcCCC--eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~~~--~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      |||++++.+++.+..|+..+.....+  |+++|+||+|+....        ++                           
T Consensus        85 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~--------~v---------------------------  129 (170)
T 1z0j_A           85 VYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVR--------EV---------------------------  129 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGC--------CS---------------------------
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCcccccc--------cc---------------------------
Confidence            99999999999999999999776433  899999999995321        11                           


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                             ..+.+..++..++++++++||+++            .|++++|++|.+.+.
T Consensus       130 -------~~~~~~~~~~~~~~~~~~~Sa~~~------------~~i~~l~~~i~~~i~  168 (170)
T 1z0j_A          130 -------MERDAKDYADSIHAIFVETSAKNA------------ININELFIEISRRIP  168 (170)
T ss_dssp             -------CHHHHHHHHHHTTCEEEECBTTTT------------BSHHHHHHHHHHHCC
T ss_pred             -------CHHHHHHHHHHcCCEEEEEeCCCC------------cCHHHHHHHHHHHHh
Confidence                   012267888889999999999999            999999999998764

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=99.97  E-value=2.6e-29  Score=218.93  Aligned_cols=182  Identities=16%  Similarity=0.152  Sum_probs=139.8

Q ss_pred             cccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccC
Q 040295           42 DRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQ  121 (289)
Q Consensus        42 ~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~  121 (289)
                      ........+||+|+|++|||||||+++|+++.+...+.+|.+..+ ...+..++..+.+.+|||+|++.|..++..+++.
T Consensus        20 ~~~~~~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~   98 (214)
T 3q3j_B           20 APQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPYYDNVRPLCYSD   98 (214)
T ss_dssp             -------CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC--CEEEEEEEEECCSGGGTTTGGGGCTT
T ss_pred             CCCCccceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeE-EEEEEECCEEEEEEEEECCCCHhHHHHHHHHcCC
Confidence            344556679999999999999999999999999888888988776 3455566678899999999999999999999999


Q ss_pred             ccEEEEEEeCCCHhhHHH-HHHHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCccc
Q 040295          122 LTALVMVFNLNDLSTLDA-LKHWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETE  199 (289)
Q Consensus       122 ad~vIlV~Dv~~~~S~~~-l~~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~  199 (289)
                      +|++|+|||++++.+|+. +..|+..+..... .|+++||||+|+.....    ....+.                    
T Consensus        99 ~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~----~~~~~~--------------------  154 (214)
T 3q3j_B           99 SDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRVLLIGCKTDLRTDLS----TLMELS--------------------  154 (214)
T ss_dssp             CSEEEEEEETTCTHHHHHHHTHHHHHHHHHCTTSEEEEEEECGGGGGCHH----HHHHHH--------------------
T ss_pred             CeEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccchh----hhhhhc--------------------
Confidence            999999999999999999 6899999977643 49999999999964210    000000                    


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchh-HHHHHHHHHHhcccCc
Q 040295          200 GSSLLGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQG-VERLYGALSAHMWPGM  266 (289)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~-i~~l~~~L~~~~~~~~  266 (289)
                            ...........+..++..+++ +|+||||++|            .| |+++|+.|++.+....
T Consensus       155 ------~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g------------~g~v~~lf~~l~~~~~~~~  205 (214)
T 3q3j_B          155 ------HQKQAPISYEQGCAIAKQLGAEIYLEGSAFTS------------EKSIHSIFRTASMLCLNKP  205 (214)
T ss_dssp             ------HTTCCCCCHHHHHHHHHHHTCSEEEECCTTTC------------HHHHHHHHHHHHHHHHC--
T ss_pred             ------ccccCccCHHHHHHHHHHcCCCEEEEeccCCC------------cccHHHHHHHHHHHHhccC
Confidence                  000000112347899999999 9999999999            98 9999999999887654

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=99.97  E-value=1.6e-29  Score=212.77  Aligned_cols=168  Identities=17%  Similarity=0.301  Sum_probs=143.8

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      .....+||+|+|++|||||||+++|.+..+...+.++.+.++....+..++..+.+.+|||||++.|..++..+++.+|+
T Consensus         6 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   85 (186)
T 2bme_A            6 TYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAG   85 (186)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSE
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHHhcCCE
Confidence            34556999999999999999999999999888888888888777777777777899999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      +|+|||++++.+|+.+..|+..+....  ..|+++|+||+|+....        .+                        
T Consensus        86 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--------~~------------------------  133 (186)
T 2bme_A           86 ALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADR--------EV------------------------  133 (186)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC--------CS------------------------
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccccc--------cc------------------------
Confidence            999999999999999999998887653  34999999999995321        11                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                        .        ..++..++...+++|++|||+++            .|++++|.+|++.+....
T Consensus       134 --~--------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~~~~~  175 (186)
T 2bme_A          134 --T--------FLEASRFAQENELMFLETSALTG------------ENVEEAFVQCARKILNKI  175 (186)
T ss_dssp             --C--------HHHHHHHHHHTTCEEEECCTTTC------------TTHHHHHHHHHHHHHHHH
T ss_pred             --C--------HHHHHHHHHHcCCEEEEecCCCC------------CCHHHHHHHHHHHHHHHh
Confidence              1        12267888889999999999999            999999999999887654

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=99.97  E-value=5.9e-29  Score=208.11  Aligned_cols=166  Identities=17%  Similarity=0.308  Sum_probs=140.9

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ....+||+|+|++|||||||+++|.+..+...+.++.+..+....+...+..+.+.+|||||++.|..++..+++.+|++
T Consensus         9 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~   88 (181)
T 2efe_B            9 KSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAAA   88 (181)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGGTHHHHTTCSEE
T ss_pred             CccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhhhHHHhccCCEE
Confidence            34568999999999999999999999998877778888777666666677778999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      |+|||++++.+|+.+..|+..+....  ..|+++|+||+|+.......                                
T Consensus        89 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~--------------------------------  136 (181)
T 2efe_B           89 IIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVT--------------------------------  136 (181)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSC--------------------------------
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccccCC--------------------------------
Confidence            99999999999999999999987765  34899999999996422110                                


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                .+.+..++..++++|+++||+++            .|++++|++|++.+...
T Consensus       137 ----------~~~~~~~~~~~~~~~~~~Sa~~g------------~gi~~l~~~l~~~~~~~  176 (181)
T 2efe_B          137 ----------AEDAQTYAQENGLFFMETSAKTA------------TNVKEIFYEIARRLPRV  176 (181)
T ss_dssp             ----------HHHHHHHHHHTTCEEEECCSSSC------------TTHHHHHHHHHHTCC--
T ss_pred             ----------HHHHHHHHHHcCCEEEEEECCCC------------CCHHHHHHHHHHHHHhc
Confidence                      12267888889999999999999            99999999999977543

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.97  E-value=8.3e-30  Score=212.73  Aligned_cols=165  Identities=14%  Similarity=0.199  Sum_probs=137.8

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCc-ceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKY-YTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~-~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      .+.+||+|+|++|||||||+++|.++.+...+.+|.+.++....+...+ ..+.+.+|||||++.|..++..+++.+|++
T Consensus         4 ~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~   83 (178)
T 2hxs_A            4 MRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQGV   83 (178)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTTHHHHHTTCSEE
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCccccchhhHHHhhCCEE
Confidence            3468999999999999999999999988766777887666655555544 568899999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhc-----CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQ-----KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~-----~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      |+|||++++.+|+.+..|+..+...     ..+++++||||+|+...        +.+                      
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~--------~~~----------------------  133 (178)
T 2hxs_A           84 LLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHM--------RTI----------------------  133 (178)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGG--------CSS----------------------
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccc--------ccc----------------------
Confidence            9999999999999999999988664     34458999999999531        111                      


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                          +        .+.+..++..+++++++|||+++            .|++++|++|++.+...
T Consensus       134 ----~--------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~~~~  174 (178)
T 2hxs_A          134 ----K--------PEKHLRFCQENGFSSHFVSAKTG------------DSVFLCFQKVAAEILGI  174 (178)
T ss_dssp             ----C--------HHHHHHHHHHHTCEEEEECTTTC------------TTHHHHHHHHHHHHTTC
T ss_pred             ----C--------HHHHHHHHHHcCCcEEEEeCCCC------------CCHHHHHHHHHHHHHhh
Confidence                1        12267888889999999999999            99999999999987654

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=99.97  E-value=2.5e-29  Score=213.97  Aligned_cols=166  Identities=13%  Similarity=0.143  Sum_probs=132.8

Q ss_pred             cccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccC
Q 040295           42 DRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQ  121 (289)
Q Consensus        42 ~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~  121 (289)
                      ........+||+|+|++|||||||+++|+++.+...+.+|.+..+. ..+..++..+.+.+|||+|++.|..+ ..+++.
T Consensus        14 ~~~~~~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~-~~~~~~   91 (187)
T 3c5c_A           14 LYFQGPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYS-SEETVDHQPVHLRVMDTADLDTPRNC-ERYLNW   91 (187)
T ss_dssp             ------CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCC---CCCT-HHHHTT
T ss_pred             HHhCCCceEEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccceee-EEEEECCEEEEEEEEECCCCCcchhH-HHHHhh
Confidence            3344556799999999999999999999999988888888887663 34455667789999999999999875 578999


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHhhhc-----CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCC
Q 040295          122 LTALVMVFNLNDLSTLDALKHWVPSIDLQ-----KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGIS  196 (289)
Q Consensus       122 ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~-----~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~  196 (289)
                      +|++|+|||++++.+|+.+..|+..+...     ...|+++||||+|+...        +.+                  
T Consensus        92 ~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~--------~~v------------------  145 (187)
T 3c5c_A           92 AHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQY--------RQV------------------  145 (187)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGG--------CSS------------------
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhc--------Ccc------------------
Confidence            99999999999999999999999998765     35589999999999431        112                  


Q ss_pred             cccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeec-CCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          197 ETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACA-SNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       197 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa-~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                              +        .+.+.+++..++++|++||| +++            .||+++|+.|++.+.
T Consensus       146 --------~--------~~~~~~~~~~~~~~~~e~Sa~~~g------------~gv~~lf~~l~~~i~  185 (187)
T 3c5c_A          146 --------T--------KAEGVALAGRFGCLFFEVSACLDF------------EHVQHVFHEAVREAR  185 (187)
T ss_dssp             --------C--------HHHHHHHHHHHTCEEEECCSSSCS------------HHHHHHHHHHHHHHH
T ss_pred             --------C--------HHHHHHHHHHcCCcEEEEeecCcc------------ccHHHHHHHHHHHHh
Confidence                    1        12277889999999999999 899            999999999998764

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=99.97  E-value=1.8e-29  Score=214.77  Aligned_cols=170  Identities=18%  Similarity=0.301  Sum_probs=140.2

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCc
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQL  122 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~a  122 (289)
                      .....+.+||+|+|++|||||||+++|.++.+...+.++.+.++....+..++..+.+.+|||+|++.|..++..+++.+
T Consensus        15 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   94 (191)
T 2a5j_A           15 VPRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGA   94 (191)
T ss_dssp             CCTTCEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTC
T ss_pred             ccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCchhhhhhHHHHhccC
Confidence            34456679999999999999999999999998877778888777666666677778999999999999999999999999


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          123 TALVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       123 d~vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      |++|+|||++++.+|+.+..|+..+....  ..|+++|+||+|+...        +.+                      
T Consensus        95 d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~--------~~v----------------------  144 (191)
T 2a5j_A           95 AGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESR--------RDV----------------------  144 (191)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG--------CCS----------------------
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCCc--------ccc----------------------
Confidence            99999999999999999999999987653  3499999999999532        111                      


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                          .        .+.+..++..++++|++|||+++            .|++++|.+|++.+....
T Consensus       145 ----~--------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~i~~~~  186 (191)
T 2a5j_A          145 ----K--------REEGEAFAREHGLIFMETSAKTA------------CNVEEAFINTAKEIYRKI  186 (191)
T ss_dssp             ----C--------HHHHHHHHHHHTCEEEEECTTTC------------TTHHHHHHHHHHHHHHHH
T ss_pred             ----C--------HHHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHHHHHH
Confidence                1        12267888889999999999999            999999999999886543

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=99.97  E-value=2.8e-29  Score=209.01  Aligned_cols=166  Identities=18%  Similarity=0.289  Sum_probs=141.1

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      .....+||+|+|++|||||||+++|.++.+...+.++.+.++....+...+..+.+.+|||||++.+..++..+++.+|+
T Consensus        11 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   90 (179)
T 1z0f_A           11 NYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAG   90 (179)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSE
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChHhhhhHHHHhccCCE
Confidence            34456899999999999999999999999887788888877766666667778899999999999999988899999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      +|+|||++++.+++.+..|+..+....  ..|+++|+||+|+....        .+                        
T Consensus        91 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--------~~------------------------  138 (179)
T 1z0f_A           91 ALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQR--------DV------------------------  138 (179)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC--------CS------------------------
T ss_pred             EEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccccc--------cc------------------------
Confidence            999999999999999999999887654  34999999999995321        11                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                        .        .+.+.+++..++++++++||+++            .|++++|++|++.+..
T Consensus       139 --~--------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~i~~  178 (179)
T 1z0f_A          139 --T--------YEEAKQFAEENGLLFLEASAKTG------------ENVEDAFLEAAKKIYQ  178 (179)
T ss_dssp             --C--------HHHHHHHHHHTTCEEEECCTTTC------------TTHHHHHHHHHHHHC-
T ss_pred             --C--------HHHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHHhh
Confidence              1        12267888889999999999999            9999999999987754

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=99.96  E-value=1.1e-29  Score=218.84  Aligned_cols=169  Identities=17%  Similarity=0.258  Sum_probs=134.6

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCc
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQL  122 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~a  122 (289)
                      .......+||+|+|++|||||||+++|.++.+...+.+|.+.++....+..++..+.+.+|||+|++.|..++..+++.+
T Consensus        23 ~~~~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~  102 (201)
T 2hup_A           23 DEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSA  102 (201)
T ss_dssp             ---CCEEEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHHHHHTTC
T ss_pred             ccccccceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHHhhC
Confidence            34456679999999999999999999999998877888888777666666677778999999999999999999999999


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          123 TALVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       123 d~vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      |++|+|||++++.+|+.+..|+..+....  ..|+++||||+|+...        +.+                      
T Consensus       103 d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~--------~~v----------------------  152 (201)
T 2hup_A          103 NGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSEL--------REV----------------------  152 (201)
T ss_dssp             SEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG--------CCS----------------------
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCccccc--------ccc----------------------
Confidence            99999999999999999999999987754  3499999999999531        111                      


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                          .        .+.+.+++...++ +|++|||+++            .||+++|.+|++.+...
T Consensus       153 ----~--------~~~~~~~~~~~~~~~~~~~SA~~g------------~gi~~l~~~l~~~i~~~  194 (201)
T 2hup_A          153 ----S--------LAEAQSLAEHYDILCAIETSAKDS------------SNVEEAFLRVATELIMR  194 (201)
T ss_dssp             ----C--------HHHHHHHHHHTTCSEEEECBTTTT------------BSHHHHHHHHHHHHHHH
T ss_pred             ----C--------HHHHHHHHHHcCCCEEEEEeCCCC------------CCHHHHHHHHHHHHHHh
Confidence                1        1226788889999 9999999999            99999999999988654

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.96  E-value=4.8e-29  Score=205.63  Aligned_cols=164  Identities=18%  Similarity=0.319  Sum_probs=139.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||+++|.++.+...+.++.+.++....+...+..+.+.+|||||++.+..++..+++.+|++|+|
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v   82 (170)
T 1ek0_A            3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALVV   82 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCChhhhhhhhhhhccCcEEEEE
Confidence            47999999999999999999999998877888888877666666677788999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      ||++++.+|+.+..|+..+....  ..|+++|+||+|+.....     .++                             
T Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~-----~~~-----------------------------  128 (170)
T 1ek0_A           83 YDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGG-----ERK-----------------------------  128 (170)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSC-----CCC-----------------------------
T ss_pred             EecCChHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcccccc-----ccC-----------------------------
Confidence            99999999999999999887664  349999999999964210     011                             


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                           ...+.+..++..++++|+++||+++            .|++++|++|.+.+.
T Consensus       129 -----v~~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~i~  168 (170)
T 1ek0_A          129 -----VAREEGEKLAEEKGLLFFETSAKTG------------ENVNDVFLGIGEKIP  168 (170)
T ss_dssp             -----SCHHHHHHHHHHHTCEEEECCTTTC------------TTHHHHHHHHHTTSC
T ss_pred             -----CCHHHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHHh
Confidence                 1122367888889999999999999            999999999998664

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=99.96  E-value=6.5e-29  Score=213.50  Aligned_cols=167  Identities=20%  Similarity=0.327  Sum_probs=143.3

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ....+||+|+|++|||||||+++|.+..+...+.++.+.++....+..++..+.+.+|||||++.|..++..+++.+|++
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~v   84 (206)
T 2bcg_Y            5 YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGI   84 (206)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEE
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHHHHhccCCCEE
Confidence            34568999999999999999999999998888888888887766666677788999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      |+|||++++.+|+.+..|+..+....  ..|+++|+||+|+.......                                
T Consensus        85 ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~--------------------------------  132 (206)
T 2bcg_Y           85 IIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVE--------------------------------  132 (206)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSC--------------------------------
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccC--------------------------------
Confidence            99999999999999999999987654  34999999999996422111                                


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                                ...+..++..++++++++||++|            .|++++|.+|.+.+....
T Consensus       133 ----------~~~~~~~~~~~~~~~~~~Sa~~g------------~gi~~l~~~l~~~i~~~~  173 (206)
T 2bcg_Y          133 ----------YDVAKEFADANKMPFLETSALDS------------TNVEDAFLTMARQIKESM  173 (206)
T ss_dssp             ----------HHHHHHHHHHTTCCEEECCTTTC------------TTHHHHHHHHHHHHHHHC
T ss_pred             ----------HHHHHHHHHHcCCeEEEEeCCCC------------CCHHHHHHHHHHHHHHHH
Confidence                      11267788889999999999999            999999999999886554

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=99.96  E-value=4.5e-29  Score=211.73  Aligned_cols=167  Identities=17%  Similarity=0.267  Sum_probs=142.9

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      ..+..+||+|+|++|||||||+++|.++.+...+.++.+.++....+...+..+.+.+|||+|++.|..++..+++.+|+
T Consensus        18 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   97 (189)
T 2gf9_A           18 GSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMG   97 (189)
T ss_dssp             TCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGGGTTCSE
T ss_pred             ccCceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHhccCCCE
Confidence            34556899999999999999999999999887788888887766666667778899999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      +|+|||++++.+|+.+..|+..+....  ..|+++|+||+|+....        .+                        
T Consensus        98 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~--------~~------------------------  145 (189)
T 2gf9_A           98 FLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDER--------VV------------------------  145 (189)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC--------CS------------------------
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccccccc--------CC------------------------
Confidence            999999999999999999999987764  44999999999995321        11                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                        .        .+.+..++..++++++++||+++            .|++++|++|++.+...
T Consensus       146 --~--------~~~~~~~~~~~~~~~~~~Sa~~g------------~gi~~l~~~l~~~i~~~  186 (189)
T 2gf9_A          146 --P--------AEDGRRLADDLGFEFFEASAKEN------------INVKQVFERLVDVICEK  186 (189)
T ss_dssp             --C--------HHHHHHHHHHHTCEEEECBTTTT------------BSHHHHHHHHHHHHHHH
T ss_pred             --C--------HHHHHHHHHHcCCeEEEEECCCC------------CCHHHHHHHHHHHHHHH
Confidence              0        12267888889999999999999            99999999999887543

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=99.96  E-value=5e-29  Score=213.43  Aligned_cols=167  Identities=20%  Similarity=0.289  Sum_probs=143.6

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      .+..+||+|+|++|||||||+++|++..+...+.++.+.++....+...+..+.+.+|||||++.|..++..+++.+|++
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~i   84 (203)
T 1zbd_A            5 FDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMGF   84 (203)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTGGGCSEE
T ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhhcchHHHhhcCCCEE
Confidence            34568999999999999999999999998878888888887766776677788999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      |+|||++++.+|+.+..|+..+....  ..|+++|+||+|+.......                                
T Consensus        85 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~--------------------------------  132 (203)
T 1zbd_A           85 ILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVS--------------------------------  132 (203)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCTTSCCSC--------------------------------
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCcccccC--------------------------------
Confidence            99999999999999999999987764  34999999999996422111                                


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                                ...+..++..++++|++|||+++            .|++++|.+|.+.+...+
T Consensus       133 ----------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~i~~~~  173 (203)
T 1zbd_A          133 ----------SERGRQLADHLGFEFFEASAKDN------------INVKQTFERLVDVICEKM  173 (203)
T ss_dssp             ----------HHHHHHHHHHHTCEEEECBTTTT------------BSSHHHHHHHHHHHHHHH
T ss_pred             ----------HHHHHHHHHHCCCeEEEEECCCC------------CCHHHHHHHHHHHHHHHH
Confidence                      12267888888999999999999            999999999999887654

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=99.96  E-value=2.8e-29  Score=213.36  Aligned_cols=171  Identities=16%  Similarity=0.284  Sum_probs=144.0

Q ss_pred             cccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccC
Q 040295           42 DRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQ  121 (289)
Q Consensus        42 ~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~  121 (289)
                      ........+||+|+|++|||||||+++|.+..+...+.++.+..+....+...+..+.+.+|||||++.|..++..+++.
T Consensus        18 ~~~~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   97 (193)
T 2oil_A           18 GSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRG   97 (193)
T ss_dssp             --CCCSEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTTHHHHHTT
T ss_pred             cccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhcc
Confidence            34445667999999999999999999999999887888888888776666667778899999999999999999999999


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCccc
Q 040295          122 LTALVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETE  199 (289)
Q Consensus       122 ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~  199 (289)
                      +|++|+|||++++.+|+.+..|+..+....  ..|+++|+||+|+.....        +                     
T Consensus        98 ~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~--------~---------------------  148 (193)
T 2oil_A           98 AVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQARE--------V---------------------  148 (193)
T ss_dssp             CCEEEEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGGGGCC--------S---------------------
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcccccc--------c---------------------
Confidence            999999999999999999999999987653  349999999999953211        1                     


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          200 GSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                           .        ...+..++...+++|++|||+++            .|++++|.+|.+.+....
T Consensus       149 -----~--------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~i~~~~  190 (193)
T 2oil_A          149 -----P--------TEEARMFAENNGLLFLETSALDS------------TNVELAFETVLKEIFAKV  190 (193)
T ss_dssp             -----C--------HHHHHHHHHHTTCEEEEECTTTC------------TTHHHHHHHHHHHHHHHH
T ss_pred             -----C--------HHHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHHHHHh
Confidence                 0        12267888889999999999999            999999999999886543

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=99.96  E-value=5.1e-29  Score=205.81  Aligned_cols=163  Identities=21%  Similarity=0.324  Sum_probs=134.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..+||+|+|++|||||||+++|.+..+...+.++.+.++....+..++..+.+.+|||||++.+...+..+++.+|++|+
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   81 (170)
T 1g16_A            2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIIL   81 (170)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEE
T ss_pred             CceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCChhhhhhHHHHhccCCEEEE
Confidence            35899999999999999999999999887788888877766677777778899999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      |||++++.+|+.+..|+..+....  ..|+++|+||+|+... ...                                  
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~-~~~----------------------------------  126 (170)
T 1g16_A           82 VYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETR-VVT----------------------------------  126 (170)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTC-CSC----------------------------------
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCCcC-ccC----------------------------------
Confidence            999999999999999999887764  3499999999999321 100                                  


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                              .+.+..++..++++++++||+++            .|++++|.+|.+.+...
T Consensus       127 --------~~~~~~~~~~~~~~~~~~Sa~~~------------~gv~~l~~~l~~~~~~~  166 (170)
T 1g16_A          127 --------ADQGEALAKELGIPFIESSAKND------------DNVNEIFFTLAKLIQEK  166 (170)
T ss_dssp             --------HHHHHHHHHHHTCCEEECBTTTT------------BSHHHHHHHHHHHHHHT
T ss_pred             --------HHHHHHHHHHcCCeEEEEECCCC------------CCHHHHHHHHHHHHHHH
Confidence                    11267888888999999999999            99999999999887654

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=99.96  E-value=5.2e-29  Score=209.44  Aligned_cols=164  Identities=20%  Similarity=0.198  Sum_probs=139.1

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      ...+.+||+|+|++|||||||+++|.++.+...+.++.+..+ ...+..++..+.+.+|||||++.|..+...+++.+|+
T Consensus        14 ~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~   92 (183)
T 3kkq_A           14 ENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDG   92 (183)
T ss_dssp             CCCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSE
T ss_pred             cCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCcccee-EEEEEeCCcEEEEEEEECCCchhhHHHHHHHHhcCCE
Confidence            345679999999999999999999999998888888888776 4455566777889999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      +|+|||++++.+|+.+..|+..+...   ...|+++|+||+|+.....+                               
T Consensus        93 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~v-------------------------------  141 (183)
T 3kkq_A           93 FLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKV-------------------------------  141 (183)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCS-------------------------------
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchhccCc-------------------------------
Confidence            99999999999999999999888553   33489999999999642211                               


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecC-CCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHRIEYIEACAS-NVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~-~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                         .        .+.+..++..++++|++|||+ ++            .|++++|+.|++.+.
T Consensus       142 ---~--------~~~~~~~~~~~~~~~~~~Sa~~~~------------~~v~~l~~~l~~~i~  181 (183)
T 3kkq_A          142 ---T--------RDQGKEMATKYNIPYIETSAKDPP------------LNVDKTFHDLVRVIR  181 (183)
T ss_dssp             ---C--------HHHHHHHHHHHTCCEEEEBCSSSC------------BSHHHHHHHHHHHHH
T ss_pred             ---C--------HHHHHHHHHHhCCeEEEeccCCCC------------CCHHHHHHHHHHHHh
Confidence               1        122788899999999999999 99            999999999998764

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=99.96  E-value=5.4e-29  Score=207.33  Aligned_cols=164  Identities=18%  Similarity=0.320  Sum_probs=139.7

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||+|+|++|||||||+++|+++.+...+.++.+.++....+...+..+.+.+|||||++.+...+..+++.+|++|
T Consensus        12 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i   91 (179)
T 2y8e_A           12 LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAV   91 (179)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHHHHTCSEEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHHhcCCCEEE
Confidence            44589999999999999999999999988888888888877777777777789999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      +|||++++.+|+.+..|+..+....  ..|+++|+||+|+....        .+                          
T Consensus        92 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~--------~~--------------------------  137 (179)
T 2y8e_A           92 VVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKR--------QV--------------------------  137 (179)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGGGGC--------CS--------------------------
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccC--------cC--------------------------
Confidence            9999999999999999999886653  44899999999995321        11                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                      .        .+.+..++...+++++++||+++            .|++++|++|.+.+..
T Consensus       138 ~--------~~~~~~~~~~~~~~~~~~Sa~~~------------~~i~~l~~~l~~~~~~  177 (179)
T 2y8e_A          138 S--------TEEGERKAKELNVMFIETSAKAG------------YNVKQLFRRVAAALPG  177 (179)
T ss_dssp             C--------HHHHHHHHHHHTCEEEEEBTTTT------------BSHHHHHHHHHHTCC-
T ss_pred             C--------HHHHHHHHHHcCCeEEEEeCCCC------------CCHHHHHHHHHHHHhh
Confidence            0        12267788888999999999999            9999999999987654

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.96  E-value=1.3e-28  Score=208.28  Aligned_cols=164  Identities=17%  Similarity=0.344  Sum_probs=139.5

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcce----------------------------
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYT----------------------------   97 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~----------------------------   97 (289)
                      ..+.+||+|+|++|||||||+++|++..+...+.+|.+..+....+...+..                            
T Consensus         4 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (208)
T 3clv_A            4 KKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIITNQH   83 (208)
T ss_dssp             CCSSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC------------------------------
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCcccccccccccccccccccccccccccccc
Confidence            3457999999999999999999999999888888888887776666665544                            


Q ss_pred             ---------EEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCC
Q 040295           98 ---------ADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGH  168 (289)
Q Consensus        98 ---------~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~  168 (289)
                               +.+.+|||||++.|..+...+++.+|++|+|||++++.+|+.+..|+..+......|+++|+||+|+ ...
T Consensus        84 ~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~piilv~NK~D~-~~~  162 (208)
T 3clv_A           84 NNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISSNYIIILVANKIDK-NKF  162 (208)
T ss_dssp             -CCCTTTCEEEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCCEEEEEEECTTC-C-C
T ss_pred             ccccCccceeEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCCCcEEEEEECCCc-ccc
Confidence                     7899999999999999999999999999999999999999999999999987766899999999993 211


Q ss_pred             CchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCc
Q 040295          169 PVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDS  248 (289)
Q Consensus       169 ~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~  248 (289)
                      .        +                          .        .+.+..++..++++++++||+++            
T Consensus       163 ~--------~--------------------------~--------~~~~~~~~~~~~~~~~~~Sa~~~------------  188 (208)
T 3clv_A          163 Q--------V--------------------------D--------ILEVQKYAQDNNLLFIQTSAKTG------------  188 (208)
T ss_dssp             C--------S--------------------------C--------HHHHHHHHHHTTCEEEEECTTTC------------
T ss_pred             c--------C--------------------------C--------HHHHHHHHHHcCCcEEEEecCCC------------
Confidence            1        1                          0        12267888889999999999999            


Q ss_pred             hhHHHHHHHHHHhccc
Q 040295          249 QGVERLYGALSAHMWP  264 (289)
Q Consensus       249 ~~i~~l~~~L~~~~~~  264 (289)
                      .|++++|++|.+.+..
T Consensus       189 ~~i~~l~~~l~~~~~~  204 (208)
T 3clv_A          189 TNIKNIFYMLAEEIYK  204 (208)
T ss_dssp             TTHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            9999999999987754

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.96  E-value=4.4e-30  Score=218.60  Aligned_cols=171  Identities=17%  Similarity=0.267  Sum_probs=145.0

Q ss_pred             cccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccC
Q 040295           42 DRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQ  121 (289)
Q Consensus        42 ~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~  121 (289)
                      .+......+||+|+|++|||||||+++|.++.+...+.++.+.++....+...+..+.+.+|||+|++.|..+...+++.
T Consensus        16 ~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   95 (191)
T 3dz8_A           16 FQGNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRG   95 (191)
T ss_dssp             ETTEEEECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHHHHHCHHHHHHHHTT
T ss_pred             cccccCeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHcc
Confidence            34455677999999999999999999999999887777777777766666666677899999999999999999999999


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCccc
Q 040295          122 LTALVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETE  199 (289)
Q Consensus       122 ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~  199 (289)
                      +|++|+|||++++.+|+.+..|+..+....  ..|+++||||+|+....        .+                     
T Consensus        96 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~--------~~---------------------  146 (191)
T 3dz8_A           96 AMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEER--------VV---------------------  146 (191)
T ss_dssp             CCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC--------CS---------------------
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcccc--------cc---------------------
Confidence            999999999999999999999999997764  34999999999995321        11                     


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          200 GSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                           .        ...+..++..++++|++|||++|            .|++++|++|++.+...+
T Consensus       147 -----~--------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~i~~~~  188 (191)
T 3dz8_A          147 -----P--------TEKGQLLAEQLGFDFFEASAKEN------------ISVRQAFERLVDAICDKM  188 (191)
T ss_dssp             -----C--------HHHHHHHHHHHTCEEEECBTTTT------------BSHHHHHHHHHHHHHHHC
T ss_pred             -----C--------HHHHHHHHHHcCCeEEEEECCCC------------CCHHHHHHHHHHHHHHhc
Confidence                 1        12267888999999999999999            999999999999886553

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=99.96  E-value=7.8e-29  Score=211.06  Aligned_cols=168  Identities=18%  Similarity=0.246  Sum_probs=141.0

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ....+||+|+|++|||||||+++|.++.+...+.+|.+..+.. .+..++..+.+.+|||||++.|..++..+++.+|++
T Consensus        20 ~~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~-~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~   98 (194)
T 3reg_A           20 GKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSH-VMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVV   98 (194)
T ss_dssp             -CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEE-EEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             cceeeEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeEE-EEEECCEEEEEEEEECCCcHHHHHHhHhhccCCcEE
Confidence            3456899999999999999999999999888888888877653 445566778899999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHH-HHHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          126 VMVFNLNDLSTLDAL-KHWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l-~~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      |+|||++++.+|+.+ ..|+..+..... .|+++||||+|+....      .+.+                         
T Consensus        99 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~------~~~~-------------------------  147 (194)
T 3reg_A           99 LLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTVLVGLKVDLRKDG------SDDV-------------------------  147 (194)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHCTTSEEEEEEECGGGCCTT------TTCC-------------------------
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccCC------CCcc-------------------------
Confidence            999999999999997 689988876644 4999999999996421      1111                         


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCe-EEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIE-YIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~-~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                               ..+.+..++..+++. |++|||++|            .||+++|++|++.+....
T Consensus       148 ---------~~~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~i~~~~  190 (194)
T 3reg_A          148 ---------TKQEGDDLCQKLGCVAYIEASSVAK------------IGLNEVFEKSVDCIFSNK  190 (194)
T ss_dssp             ---------CHHHHHHHHHHHTCSCEEECBTTTT------------BSHHHHHHHHHHHHHCSC
T ss_pred             ---------cHHHHHHHHHhcCCCEEEEeecCCC------------CCHHHHHHHHHHHHHhcC
Confidence                     122378899999997 999999999            999999999999887653

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=99.96  E-value=7.9e-29  Score=211.24  Aligned_cols=167  Identities=20%  Similarity=0.285  Sum_probs=142.1

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      ...+.+||+|+|++|||||||+++|.++.+...+.++.+..+....+...+..+.+.+|||||++.|..+...+++.+|+
T Consensus        19 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   98 (192)
T 2fg5_A           19 SAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAA   98 (192)
T ss_dssp             --CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHHHHTTCSE
T ss_pred             ccCCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHHhhccCCE
Confidence            34556999999999999999999999999887888899988877777777778899999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      +|+|||++++.+|+.+..|+..+....  ..|+++|+||+|+...        +.+                        
T Consensus        99 iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~--------~~v------------------------  146 (192)
T 2fg5_A           99 AVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDI--------REV------------------------  146 (192)
T ss_dssp             EEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGG--------CCS------------------------
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccc--------ccc------------------------
Confidence            999999999999999999999997764  3499999999999531        111                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                        .        .+.+.+++...+++|++|||+++            .|++++|++|.+.+...
T Consensus       147 --~--------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~i~~~  187 (192)
T 2fg5_A          147 --P--------LKDAKEYAESIGAIVVETSAKNA------------INIEELFQGISRQIPPL  187 (192)
T ss_dssp             --C--------HHHHHHHHHTTTCEEEECBTTTT------------BSHHHHHHHHHHTCC--
T ss_pred             --C--------HHHHHHHHHHcCCEEEEEeCCCC------------cCHHHHHHHHHHHHHhh
Confidence              1        12267888889999999999999            99999999999977543

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=99.96  E-value=8.9e-29  Score=209.38  Aligned_cols=169  Identities=22%  Similarity=0.332  Sum_probs=144.6

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      ...+.+||+|+|++|||||||+++|.+..+...+.++.+.++....+...+..+.+.+|||||++.|..++..+++.+|+
T Consensus        11 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   90 (195)
T 1x3s_A           11 DVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQG   90 (195)
T ss_dssp             TEEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCE
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhhHHHhccCCE
Confidence            34456899999999999999999999999888888888888776677667778899999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      +|+|||++++.+|+.+..|+..+....   ..|+++|+||+|+....         +                       
T Consensus        91 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~~---------~-----------------------  138 (195)
T 1x3s_A           91 VILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENRE---------V-----------------------  138 (195)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSCC---------S-----------------------
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCcccc---------c-----------------------
Confidence            999999999999999999999987653   34999999999994211         1                       


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCccc
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVL  268 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~  268 (289)
                                 ..+.+..++..++++|+++||+++            .|++++|++|.+.+.....+
T Consensus       139 -----------~~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~~~~~~~  182 (195)
T 1x3s_A          139 -----------DRNEGLKFARKHSMLFIEASAKTC------------DGVQCAFEELVEKIIQTPGL  182 (195)
T ss_dssp             -----------CHHHHHHHHHHTTCEEEECCTTTC------------TTHHHHHHHHHHHHHTSGGG
T ss_pred             -----------CHHHHHHHHHHcCCEEEEecCCCC------------CCHHHHHHHHHHHHHhhhhh
Confidence                       012267888889999999999999            99999999999988766543

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.96  E-value=1.7e-28  Score=205.17  Aligned_cols=166  Identities=18%  Similarity=0.296  Sum_probs=132.5

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCC-CCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFE-DASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~-~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      ....+||+|+|++|||||||+++|.+..+. ..+.+|.+..+....+..++..+.+.+|||||++.|..++..+++.+|+
T Consensus         7 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~   86 (180)
T 2g6b_A            7 YDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHA   86 (180)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHccCCCE
Confidence            345689999999999999999999999885 4567888888776666667778899999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      +|+|||++++.+|+.+..|+..+....  ..|+++|+||+|+.......                               
T Consensus        87 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~-------------------------------  135 (180)
T 2g6b_A           87 LLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVK-------------------------------  135 (180)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSC-------------------------------
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCcccccC-------------------------------
Confidence            999999999999999999999887654  34999999999996422111                               


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                 .+.+..++..++++++++||+++            .|++++|++|.+.+...
T Consensus       136 -----------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~~~~  175 (180)
T 2g6b_A          136 -----------REDGEKLAKEYGLPFMETSAKTG------------LNVDLAFTAIAKELKRR  175 (180)
T ss_dssp             -----------HHHHHHHHHHHTCCEEECCTTTC------------TTHHHHHHHHHHHHHC-
T ss_pred             -----------HHHHHHHHHHcCCeEEEEeCCCC------------CCHHHHHHHHHHHHHHH
Confidence                       12267788888999999999999            99999999999877543

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=99.96  E-value=4.1e-29  Score=206.01  Aligned_cols=163  Identities=16%  Similarity=0.232  Sum_probs=139.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..+||+|+|++|||||||+++|.++.+...+.+|.+.++....+...+..+.+.+|||||++.+..+...+++.+|++|+
T Consensus         4 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   83 (168)
T 1z2a_A            4 VAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVL   83 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEE
T ss_pred             eeEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEEEEEEEEcCCCcHhHHHHHHHHhcCCCEEEE
Confidence            45899999999999999999999999888888888877776777667777899999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      |||++++.+|+.+..|+..+.... ..|+++|+||+|+....        .+                          . 
T Consensus        84 v~d~~~~~s~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~--------~~--------------------------~-  128 (168)
T 1z2a_A           84 VFSTTDRESFEAISSWREKVVAEVGDIPTALVQNKIDLLDDS--------CI--------------------------K-  128 (168)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCSCCEEEEEECGGGGGGC--------SS--------------------------C-
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccCccc--------cc--------------------------C-
Confidence            999999999999999999886653 44899999999995321        11                          0 


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                             .+.+..++..++++++++||+++            .|++++|++|.+.++.
T Consensus       129 -------~~~~~~~~~~~~~~~~~~Sa~~~------------~~i~~l~~~l~~~~~~  167 (168)
T 1z2a_A          129 -------NEEAEGLAKRLKLRFYRTSVKED------------LNVSEVFKYLAEKHLQ  167 (168)
T ss_dssp             -------HHHHHHHHHHHTCEEEECBTTTT------------BSSHHHHHHHHHHHHC
T ss_pred             -------HHHHHHHHHHcCCeEEEEecCCC------------CCHHHHHHHHHHHHhh
Confidence                   12267888889999999999999            9999999999987753

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.96  E-value=7.6e-29  Score=216.63  Aligned_cols=171  Identities=19%  Similarity=0.307  Sum_probs=136.6

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ....+||+|+|++|||||||+++|.+..+...+.++.+.++....+...+..+.+.+|||||++.|..++..+++.+|++
T Consensus        10 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~v   89 (223)
T 3cpj_B           10 YDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVGA   89 (223)
T ss_dssp             CCEEEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGTTTCCEE
T ss_pred             CCeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCccchhhhHHHHhccCCEE
Confidence            34568999999999999999999999998877888888777766666677778999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      |+|||++++.+|+.+..|+..+....  ..|+++|+||+|+...        +.+                         
T Consensus        90 ilV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~--------~~v-------------------------  136 (223)
T 3cpj_B           90 LIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHL--------RAV-------------------------  136 (223)
T ss_dssp             EEEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGGGG--------CCS-------------------------
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccc--------ccc-------------------------
Confidence            99999999999999999999987763  3499999999999531        111                         


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCccccc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKS  270 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~  270 (289)
                       .        ...+..++..++++|+++||+++            .||+++|++|++.+......++
T Consensus       137 -~--------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~i~~~~~~~~  182 (223)
T 3cpj_B          137 -P--------TEESKTFAQENQLLFTETSALNS------------ENVDKAFEELINTIYQKVSKHQ  182 (223)
T ss_dssp             -C--------HHHHHHHHHHTTCEEEECCCC-C------------CCHHHHHHHHHHHHTTCC----
T ss_pred             -C--------HHHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHHHHHhhhcc
Confidence             1        12267888889999999999999            9999999999999987665443

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.96  E-value=9.6e-29  Score=212.17  Aligned_cols=167  Identities=15%  Similarity=0.212  Sum_probs=136.7

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      .....+||+|+|++|||||||+++|.++.+...+.+|.+..+ ...+...+..+.+.+|||||++.|..++..+++.+|+
T Consensus        20 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   98 (201)
T 3oes_A           20 PLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHG   98 (201)
T ss_dssp             ---CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEE-EEEEC----CEEEEEEEECCCCTTCCCCGGGTTTCCE
T ss_pred             CCCCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEECCCccchHHHHHHHHhcCCE
Confidence            345679999999999999999999999999888888888776 4455555667889999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      +|+|||++++.+|+.+..|+..+....   ..|+++||||+|+.+..        .+                       
T Consensus        99 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~--------~v-----------------------  147 (201)
T 3oes_A           99 YVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPER--------EV-----------------------  147 (201)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGGC--------CS-----------------------
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCcccc--------cc-----------------------
Confidence            999999999999999999999987652   34899999999995321        11                       


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                         .        ...+..++..++++|+++||++|            .|++++|.+|.+.+....
T Consensus       148 ---~--------~~~~~~~~~~~~~~~~~~Sa~~~------------~~v~~l~~~l~~~i~~~~  189 (201)
T 3oes_A          148 ---Q--------AVEGKKLAESWGATFMESSAREN------------QLTQGIFTKVIQEIARVE  189 (201)
T ss_dssp             ---C--------HHHHHHHHHHHTCEEEECCTTCH------------HHHHHHHHHHHHHHHHC-
T ss_pred             ---C--------HHHHHHHHHHhCCeEEEEeCCCC------------CCHHHHHHHHHHHHHhhh
Confidence               1        12267888999999999999999            999999999999886654

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=99.96  E-value=3.9e-29  Score=214.85  Aligned_cols=169  Identities=12%  Similarity=0.112  Sum_probs=131.9

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc-cccccccC
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI-RSLPISDQ  121 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~-~~~~~~~~  121 (289)
                      +......+||+|+|++|||||||+++|.+..+.....++.+.++....+..++..+.+.+|||+|++.+.. +...+++.
T Consensus        17 ~~~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~   96 (195)
T 3cbq_A           17 QGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQT   96 (195)
T ss_dssp             -----CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEEEEEEEECCCCCSGGGHHHHHHHHHH
T ss_pred             CCCCCcEEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEECCEEEEEEEEecCCCccchhhhHHHhhcc
Confidence            34455679999999999999999999976544333334444445555556677788999999999988764 66778899


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcc
Q 040295          122 LTALVMVFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISET  198 (289)
Q Consensus       122 ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~  198 (289)
                      ++++|+|||++++.+|+.+..|+..+....   ..|+++||||+|+.....        +                    
T Consensus        97 ~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~--------v--------------------  148 (195)
T 3cbq_A           97 GDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSRE--------V--------------------  148 (195)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTTTCC--------S--------------------
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhccccCC--------c--------------------
Confidence            999999999999999999999999987653   348999999999964221        1                    


Q ss_pred             cCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          199 EGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                            +        .+.+..++..++++|+||||+++            .|++++|++|++.+...
T Consensus       149 ------~--------~~~~~~~a~~~~~~~~e~Sa~~~------------~~v~~lf~~l~~~i~~~  189 (195)
T 3cbq_A          149 ------S--------LEEGRHLAGTLSCKHIETSAALH------------HNTRELFEGAVRQIRLR  189 (195)
T ss_dssp             ------C--------HHHHHHHHHHTTCEEEEEBTTTT------------BSHHHHHHHHHHHHHTT
T ss_pred             ------C--------HHHHHHHHHHhCCEEEEEcCCCC------------CCHHHHHHHHHHHHHHh
Confidence                  1        11267888888999999999999            99999999999887543

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=99.96  E-value=1.8e-28  Score=207.48  Aligned_cols=175  Identities=17%  Similarity=0.174  Sum_probs=137.7

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||+|+|++|||||||+++|.++.+...+.+|.+..+. ..+..++..+.+.+|||||++.|..++..+++.+|++|
T Consensus         5 ~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i   83 (184)
T 1m7b_A            5 NVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVL   83 (184)
T ss_dssp             -CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE-EEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEE
T ss_pred             ceEEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEE-EEEEECCEEEEEEEEECCCChhhhhhHHhhcCCCcEEE
Confidence            34589999999999999999999999988778888876653 34555667789999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHH-HHHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          127 MVFNLNDLSTLDAL-KHWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       127 lV~Dv~~~~S~~~l-~~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      +|||++++.+|+.+ ..|+..+.... ..|+++||||+|+....    .....+.                         
T Consensus        84 ~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~----~~~~~~~-------------------------  134 (184)
T 1m7b_A           84 ICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDV----STLVELS-------------------------  134 (184)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCH----HHHHHHH-------------------------
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEcchhhcch----hhHhhhh-------------------------
Confidence            99999999999999 68998887654 34999999999996321    0001110                         


Q ss_pred             CCCCCcHHHHHHHHHHHHHcC-CeEEEeecC-CCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHR-IEYIEACAS-NVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~-~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                       .........+.+..++..++ ++|++|||+ ++            .|++++|..|++.++.
T Consensus       135 -~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~------------~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          135 -NHRQTPVSYDQGANMAKQIGAATYIECSALQSE------------NSVRDIFHVATLACVN  183 (184)
T ss_dssp             -TTTCCCCCHHHHHHHHHHHTCSEEEECBTTTBH------------HHHHHHHHHHHHHHHT
T ss_pred             -hcccCCCCHHHHHHHHHHcCCcEEEEeeecCCC------------cCHHHHHHHHHHHHhc
Confidence             00000011233788898888 689999999 68            8999999999988764

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=99.96  E-value=4.8e-29  Score=214.40  Aligned_cols=167  Identities=18%  Similarity=0.301  Sum_probs=132.7

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ....+||+|+|++|||||||+++|+++.+...+.++.+.++....+..++..+.+.+|||||++.|..++..+++.+|++
T Consensus        22 ~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~  101 (200)
T 2o52_A           22 SDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGA  101 (200)
T ss_dssp             CCEEEEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEEETTEEEEEEEECCTTHHHHSCCCHHHHTTCSEE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEEcCCCcHhHHHHHHHHhccCCEE
Confidence            45568999999999999999999999998877888888777666776677778999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      |+|||++++.+|+.+..|+..+....  ..|+++|+||+|+...        +.+                         
T Consensus       102 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--------~~v-------------------------  148 (200)
T 2o52_A          102 LLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPE--------REV-------------------------  148 (200)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGGGG--------CCS-------------------------
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcccc--------ccc-------------------------
Confidence            99999999999999999999887653  3499999999999532        111                         


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                       +        ..++..++...+++|++|||++|            .|++++|.+|++.+....
T Consensus       149 -~--------~~~~~~~~~~~~~~~~~~SA~~g------------~gi~~l~~~l~~~i~~~~  190 (200)
T 2o52_A          149 -T--------FLEASRFAQENELMFLETSALTG------------ENVEEAFLKCARTILNKI  190 (200)
T ss_dssp             -C--------HHHHHHHHHHTTCEEEEECTTTC------------TTHHHHHHHHHHHHHHHH
T ss_pred             -C--------HHHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHHHHHH
Confidence             1        12267888889999999999999            999999999999887654

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=99.96  E-value=6.9e-29  Score=205.48  Aligned_cols=162  Identities=13%  Similarity=0.115  Sum_probs=121.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc-cccccccCccEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI-RSLPISDQLTALVM  127 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~-~~~~~~~~ad~vIl  127 (289)
                      .+||+|+|++|||||||+++|.+..+...+..+.+..+....+..++..+.+.+|||+|++.+.. +...+++.+|++|+
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~   81 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLI   81 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC------------CEEEEEEEETTEEEEEEEECCCCC--------CHHHHHCSEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEECCeEEEEEEEECCCccccchhhhhhhhccCCEEEE
Confidence            37999999999999999999998877665555555666666666777788999999999998876 66677889999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |||++++++|+.+..|+..+....   ..|+++||||+|+....        .+                          
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~--------~~--------------------------  127 (169)
T 3q85_A           82 VFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSR--------EV--------------------------  127 (169)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGGC--------CS--------------------------
T ss_pred             EEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhcc--------cC--------------------------
Confidence            999999999999999999987664   34999999999995321        11                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                      .        ...+..++..++++|++|||+++            .|++++|++|++.+..
T Consensus       128 ~--------~~~~~~~~~~~~~~~~~~Sa~~~------------~~v~~l~~~l~~~i~~  167 (169)
T 3q85_A          128 S--------LEEGRHLAGTLSCKHIETSAALH------------HNTRELFEGAVRQIRL  167 (169)
T ss_dssp             C--------HHHHHHHHHHTTCEEEECBTTTT------------BSHHHHHHHHHHHHHH
T ss_pred             C--------HHHHHHHHHHcCCcEEEecCccC------------CCHHHHHHHHHHHHHh
Confidence            1        12277889999999999999999            9999999999987654

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=99.96  E-value=1.1e-28  Score=205.74  Aligned_cols=165  Identities=18%  Similarity=0.223  Sum_probs=138.3

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ....+||+|+|++|||||||+++|.+..+...+.+|.+..+. ..+..++..+.+.+|||||++.|..++..+++.+|++
T Consensus         6 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~   84 (181)
T 2fn4_A            6 PSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGF   84 (181)
T ss_dssp             SSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEECCEEEEEEEEECCCchhhHHHHHHHHhhCCEE
Confidence            345689999999999999999999999988888888887765 4455566678899999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      |+|||++++.+|+.+..|+..+...   ...|+++|+||+|+....        .+                        
T Consensus        85 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--------~v------------------------  132 (181)
T 2fn4_A           85 LLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQR--------QV------------------------  132 (181)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGC--------CS------------------------
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccc--------cc------------------------
Confidence            9999999999999999999888332   234899999999995321        11                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                        .        ...+..++..++++|+++||++|            .|++++|++|.+.+...
T Consensus       133 --~--------~~~~~~~~~~~~~~~~~~Sa~~~------------~gv~~l~~~l~~~~~~~  173 (181)
T 2fn4_A          133 --P--------RSEASAFGASHHVAYFEASAKLR------------LNVDEAFEQLVRAVRKY  173 (181)
T ss_dssp             --C--------HHHHHHHHHHTTCEEEECBTTTT------------BSHHHHHHHHHHHHHHH
T ss_pred             --C--------HHHHHHHHHHcCCeEEEecCCCC------------CCHHHHHHHHHHHHHHh
Confidence              1        12267888888999999999999            99999999999988654

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.96  E-value=2.1e-28  Score=208.17  Aligned_cols=175  Identities=15%  Similarity=0.179  Sum_probs=139.9

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||+|+|++|||||||+++|.++.+...+.+|.+..+ ...+..++..+.+.+|||+|+++|..++..+++.+|++|
T Consensus        16 ~~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   94 (194)
T 2atx_A           16 ALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFL   94 (194)
T ss_dssp             EEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCE-EEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCcchhHHHHHhcCCCCEEE
Confidence            3568999999999999999999999998877888887665 334556666789999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHH-HHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          127 MVFNLNDLSTLDALK-HWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~-~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      +|||++++.+|+.+. .|+..+.... ..|+++||||+|+....    .....+                          
T Consensus        95 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~----~~~~~~--------------------------  144 (194)
T 2atx_A           95 ICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDP----KTLARL--------------------------  144 (194)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCH----HHHHHH--------------------------
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhcccc----cchhhc--------------------------
Confidence            999999999999998 8999887763 34899999999996531    111111                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                      ............+..++..+++ +|++|||++|            .|++++|++|++.++.
T Consensus       145 ~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g------------~gi~~l~~~l~~~i~~  193 (194)
T 2atx_A          145 NDMKEKPICVEQGQKLAKEIGACCYVECSALTQ------------KGLKTVFDEAIIAILT  193 (194)
T ss_dssp             TTTTCCCCCHHHHHHHHHHHTCSCEEECCTTTC------------TTHHHHHHHHHHHHHC
T ss_pred             ccccCcccCHHHHHHHHHHcCCcEEEEeeCCCC------------CCHHHHHHHHHHHHhc
Confidence            0000000112347889998998 8999999999            9999999999987764

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=99.96  E-value=1.5e-28  Score=209.05  Aligned_cols=163  Identities=15%  Similarity=0.186  Sum_probs=133.4

Q ss_pred             cccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCcc
Q 040295           44 ASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLT  123 (289)
Q Consensus        44 ~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad  123 (289)
                      ....+.+||+|+|++|||||||+++|+++.+...+.+|.+ .+ ...+..++..+.+.+|||+|++.|.     +++.+|
T Consensus        15 ~~~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t~~-~~-~~~~~~~~~~~~l~i~Dt~G~~~~~-----~~~~~~   87 (184)
T 3ihw_A           15 YFQGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPEGG-RF-KKEIVVDGQSYLLLIRDEGGPPELQ-----FAAWVD   87 (184)
T ss_dssp             -CCCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTTCE-EE-EEEEEETTEEEEEEEEECSSSCCHH-----HHHHCS
T ss_pred             CCCCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCCcc-eE-EEEEEECCEEEEEEEEECCCChhhh-----eecCCC
Confidence            3455679999999999999999999999999877777744 33 3556667778899999999999886     778899


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          124 ALVMVFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       124 ~vIlV~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      ++|+|||++++.+|+.+..|+..+....   ..|+++||||+|+....      .+.+                      
T Consensus        88 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~------~~~v----------------------  139 (184)
T 3ihw_A           88 AVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAAN------PRVI----------------------  139 (184)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTB------CCCS----------------------
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccc------cccc----------------------
Confidence            9999999999999999999999997764   33999999999995311      0111                      


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                          +        .+.+.+++..++ ++|++|||++|            .||+++|.+|++.+...
T Consensus       140 ----~--------~~~~~~~~~~~~~~~~~e~Sa~~~------------~gv~~lf~~l~~~i~~~  181 (184)
T 3ihw_A          140 ----D--------DSRARKLSTDLKRCTYYETCATYG------------LNVERVFQDVAQKVVAL  181 (184)
T ss_dssp             ----C--------HHHHHHHHHHTTTCEEEEEBTTTT------------BTHHHHHHHHHHHHHHH
T ss_pred             ----C--------HHHHHHHHHHcCCCeEEEecCCCC------------CCHHHHHHHHHHHHHHH
Confidence                1        123788999887 89999999999            99999999999987654

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=99.96  E-value=1.5e-28  Score=204.15  Aligned_cols=163  Identities=15%  Similarity=0.150  Sum_probs=124.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchh--hhccccccccCccEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEE--FSIRSLPISDQLTAL  125 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~--~~~~~~~~~~~ad~v  125 (289)
                      +.+||+|+|++|||||||+++|.+..+...+ ++.+.++....+..++..+.+.+|||+|++.  +..+...+++.++++
T Consensus         3 ~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~   81 (175)
T 2nzj_A            3 ALYRVVLLGDPGVGKTSLASLFAGKQERDLH-EQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAY   81 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCC-----C-CCSSSSEEEEEEEETTEEEEEEEECCC-------CHHHHHTTTSCSEE
T ss_pred             eEEEEEEECCCCccHHHHHHHHhcCCCcccc-CccccceeEEEEEECCEEEEEEEEecCCCCccchhhhHHhhcccCCEE
Confidence            4589999999999999999999998876544 3455555555566667778899999999987  566667788999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      |+|||++++.+|+.+..|+..+....   ..|+++||||+|+.....+.                               
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~v~-------------------------------  130 (175)
T 2nzj_A           82 VIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCREVS-------------------------------  130 (175)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTCCSC-------------------------------
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhccccccC-------------------------------
Confidence            99999999999999999999887652   34899999999996432111                               


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                 ...+..++..++++|++|||++|            .|++++|++|++.+...
T Consensus       131 -----------~~~~~~~~~~~~~~~~~~Sa~~g------------~gi~~l~~~l~~~~~~~  170 (175)
T 2nzj_A          131 -----------VEEGRACAVVFDCKFIETSATLQ------------HNVAELFEGVVRQLRLR  170 (175)
T ss_dssp             -----------HHHHHHHHHHHTSEEEECBTTTT------------BSHHHHHHHHHHHHHHH
T ss_pred             -----------HHHHHHHHHHcCCeEEEEecCCC------------CCHHHHHHHHHHHHHHh
Confidence                       11266788888999999999999            99999999999887543

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.96  E-value=7.4e-29  Score=214.06  Aligned_cols=177  Identities=16%  Similarity=0.182  Sum_probs=138.5

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ....+||+|+|++|||||||+++|.++.+...+.+|.+..+ ...+..++..+.+.+|||||++.|..++..+++.+|++
T Consensus         6 ~~~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~   84 (212)
T 2j0v_A            6 VSKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGADIF   84 (212)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCE-EEEEECSSCEEEEEEECCCCCCCCCC--CGGGTTCSEE
T ss_pred             cCceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeE-EEEEEECCEEEEEEEEECCCcHHHHHHHHhhccCCCEE
Confidence            34569999999999999999999999998877888887665 33455666778999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHH-HHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          126 VMVFNLNDLSTLDALK-HWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~-~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      |+|||++++.+|+.+. .|+..+.... ..|+++||||+|+...        +.+..                       
T Consensus        85 ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--------~~~~~-----------------------  133 (212)
T 2j0v_A           85 VLAFSLISKASYENVLKKWMPELRRFAPNVPIVLVGTKLDLRDD--------KGYLA-----------------------  133 (212)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECHHHHTC--------HHHHH-----------------------
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeCHHhhhC--------ccccc-----------------------
Confidence            9999999999999997 8999987764 3489999999999532        11100                       


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcccc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLK  269 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~  269 (289)
                       .  .........+..++..+++ +|++|||+++            .|++++|++|++.+......+
T Consensus       134 -~--~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g------------~gi~~l~~~l~~~~~~~~~~~  185 (212)
T 2j0v_A          134 -D--HTNVITSTQGEELRKQIGAAAYIECSSKTQ------------QNVKAVFDTAIKVVLQPPRRK  185 (212)
T ss_dssp             -T--CSSCCCHHHHHHHHHHHTCSEEEECCTTTC------------TTHHHHHHHHHHHHHCC----
T ss_pred             -c--ccCCCCHHHHHHHHHHcCCceEEEccCCCC------------CCHHHHHHHHHHHHhhhhhhc
Confidence             0  0000112337788888896 8999999999            999999999999887665433

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=99.96  E-value=2.4e-28  Score=201.66  Aligned_cols=160  Identities=14%  Similarity=0.144  Sum_probs=112.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||+++|.+..+. ...++.+..+ ...+...+..+.+.+|||+|++.|..+...+++.++++++|
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   79 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDG-PEAEAAGHTY-DRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIV   79 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC-----------CEE-EEEEEETTEEEEEEEEECC---------------CCEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCcccc-CCCCccccce-EEEEEECCEEEEEEEEECCCCccchhhhhhhhhhCCEEEEE
Confidence            589999999999999999999977654 3334455444 34445567788999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      ||++++.+|+.+..|+..+....   ..|+++||||+|+.+.....                                  
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~----------------------------------  125 (166)
T 3q72_A           80 YSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVS----------------------------------  125 (166)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCCSSCCSC----------------------------------
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccccccccC----------------------------------
Confidence            99999999999999999887652   34999999999996432111                                  


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                              ...+..++..++++|++|||++|            .|++++|++|.+.+..
T Consensus       126 --------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~~~  164 (166)
T 3q72_A          126 --------VDEGRACAVVFDCKFIETSAALH------------HNVQALFEGVVRQIRL  164 (166)
T ss_dssp             --------HHHHHHHHHHTTCEEEECBGGGT------------BSHHHHHHHHHHHHHH
T ss_pred             --------HHHHHHHHHHhCCcEEEeccCCC------------CCHHHHHHHHHHHHHh
Confidence                    12267888889999999999999            9999999999987653

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=99.96  E-value=3.6e-28  Score=202.63  Aligned_cols=163  Identities=15%  Similarity=0.314  Sum_probs=135.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..+||+|+|++|||||||+++|+++.+...+.++.+.++....+..++..+.+.+|||||++.+..++..+++.+|++|+
T Consensus         6 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~   85 (177)
T 1wms_A            6 SLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLL   85 (177)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhHHHHHhcCCEEEE
Confidence            45899999999999999999999999888888888888777777777777899999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhc------CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQ------KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~------~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      |||++++.+|+.+..|+..+...      ...|+++|+||+|+... ...                              
T Consensus        86 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~-~~~------------------------------  134 (177)
T 1wms_A           86 TFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISER-QVS------------------------------  134 (177)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSSC-SSC------------------------------
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCccccc-ccC------------------------------
Confidence            99999999999999999988654      23489999999999521 110                              


Q ss_pred             CCCCCCCCcHHHHHHHHHHHH-HcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          202 SLLGDEEPSWEIRRSCLEWCT-EHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                  ...+..++. ..+++++++||+++            .|++++|++|++.++..
T Consensus       135 ------------~~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~~~~  175 (177)
T 1wms_A          135 ------------TEEAQAWCRDNGDYPYFETSAKDA------------TNVAAAFEEAVRRVLAT  175 (177)
T ss_dssp             ------------HHHHHHHHHHTTCCCEEECCTTTC------------TTHHHHHHHHHHHHHTC
T ss_pred             ------------HHHHHHHHHhcCCceEEEEeCCCC------------CCHHHHHHHHHHHHHhh
Confidence                        112567777 55689999999999            99999999999987653

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=99.96  E-value=2.5e-28  Score=204.30  Aligned_cols=161  Identities=15%  Similarity=0.171  Sum_probs=127.6

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      .+.+||+++|++|||||||+++|.++.+.. +.+|.+..+ ...+..++..+.+.+|||+|++++     .+++++|++|
T Consensus         5 ~~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~-----~~~~~~d~~i   77 (178)
T 2iwr_A            5 IPELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQY-KKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVI   77 (178)
T ss_dssp             CCEEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSSSEE-EEEEEETTEEEEEEEEECSSSCCH-----HHHHHCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCcceeE-EEEEEECCEEEEEEEEECCCCchh-----HHHHhCCEEE
Confidence            456899999999999999999999999876 677777554 345555667789999999999873     5778899999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhc-----CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQ-----KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~-----~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      +|||++++.+|+.+..|+..+...     ...|+++||||+|+....      .+.+                       
T Consensus        78 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~------~~~v-----------------------  128 (178)
T 2iwr_A           78 FVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASS------PRVV-----------------------  128 (178)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTB------CCCS-----------------------
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccc------cCcC-----------------------
Confidence            999999999999999977665443     234999999999994211      0111                       


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHc-CCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEH-RIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                         +        .+.+..++... +++|++|||++|            .|++++|++|++.+....
T Consensus       129 ---~--------~~~~~~~~~~~~~~~~~~~Sa~~~------------~~i~~lf~~l~~~~~~~~  171 (178)
T 2iwr_A          129 ---G--------DARARALXADMKRCSYYETXATYG------------LNVDRVFQEVAQKVVTLR  171 (178)
T ss_dssp             ---C--------HHHHHHHHHHHSSEEEEEEBTTTT------------BTHHHHHHHHHHHHHHHH
T ss_pred             ---C--------HHHHHHHHHhhcCCeEEEEecccc------------CCHHHHHHHHHHHHHHHH
Confidence               1        12267787776 689999999999            999999999999886543

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=99.96  E-value=2.2e-28  Score=206.02  Aligned_cols=167  Identities=17%  Similarity=0.259  Sum_probs=140.3

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEe-eEEeecCcc---------eEEEEEEEcCCchhhhccc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVN-GWTINTKYY---------TADVSLWMAHLHEEFSIRS  115 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~-~~~i~~~~~---------~~~l~I~Dt~G~e~~~~~~  115 (289)
                      ....+||+|+|++|||||||+++|.++.+...+.+|.+.++. ...+...+.         .+.+.+|||||++.|....
T Consensus         8 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~   87 (195)
T 3bc1_A            8 YDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLERFRSLT   87 (195)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGGGHHHH
T ss_pred             cceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHHHHHHH
Confidence            455689999999999999999999999988888888888776 445554444         6889999999999999999


Q ss_pred             cccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccC
Q 040295          116 LPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQ  192 (289)
Q Consensus       116 ~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~  192 (289)
                      ..+++.+|++|+|||++++.+++.+..|+..+....   ..|+++|+||+|+....        .+              
T Consensus        88 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~--------~~--------------  145 (195)
T 3bc1_A           88 TAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQR--------AV--------------  145 (195)
T ss_dssp             HHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGC--------CS--------------
T ss_pred             HHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccc--------cc--------------
Confidence            999999999999999999999999999999987654   34899999999995321        11              


Q ss_pred             CCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          193 SGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                                  .        .+.+..++..++++++++||+++            .|++++|++|.+.+....
T Consensus       146 ------------~--------~~~~~~~~~~~~~~~~~~Sa~~~------------~~v~~l~~~l~~~~~~~~  187 (195)
T 3bc1_A          146 ------------K--------EEEARELAEKYGIPYFETSAANG------------TNISHAIEMLLDLIMKRM  187 (195)
T ss_dssp             ------------C--------HHHHHHHHHHHTCCEEECCTTTC------------TTHHHHHHHHHHHHHHHH
T ss_pred             ------------C--------HHHHHHHHHHcCCCEEEEECCCC------------CCHHHHHHHHHHHHHHHh
Confidence                        0        12267888888999999999999            999999999999886543

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=99.96  E-value=9.8e-29  Score=211.82  Aligned_cols=174  Identities=15%  Similarity=0.164  Sum_probs=131.2

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCc
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQL  122 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~a  122 (289)
                      +......+||+|+|++|||||||+++|+++.+...+.++.+.++....+..++..+.+.+|||||++.|..++..+++.+
T Consensus        22 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~  101 (199)
T 2p5s_A           22 SFSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKA  101 (199)
T ss_dssp             ------CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEETTEEEEEEEEECTTCTTCHHHHHHHHHHC
T ss_pred             CcCcCCCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEEEEEEEEECCCCcchhhhHHHHHhhC
Confidence            44556679999999999999999999999998777778888777666666677778899999999999999888999999


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          123 TALVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       123 d~vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      |++|+|||++++.+|+.+..|+..+....  ..|+++|+||+|+..        ....                      
T Consensus       102 d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~--------~~~~----------------------  151 (199)
T 2p5s_A          102 DGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRD--------TAAT----------------------  151 (199)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHC---CCEEEEEECGGGHH--------HHHH----------------------
T ss_pred             CEEEEEEECCChHHHHHHHHHHHHHHHhcCCCCCEEEEEECccccc--------cccc----------------------
Confidence            99999999999999999999999887654  348999999999942        1110                      


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                          ..  ......+.+..++...+++|++|||+++            .||+++|.+|++.+..
T Consensus       152 ----~~--~~~v~~~~~~~~~~~~~~~~~~~SA~~g------------~gv~el~~~l~~~i~~  197 (199)
T 2p5s_A          152 ----EG--QKCVPGHFGEKLAMTYGALFCETSAKDG------------SNIVEAVLHLAREVKK  197 (199)
T ss_dssp             ----TT--CCCCCHHHHHHHHHHHTCEEEECCTTTC------------TTHHHHHHHHHHHHTC
T ss_pred             ----cc--ccccCHHHHHHHHHHcCCeEEEeeCCCC------------CCHHHHHHHHHHHHHh
Confidence                00  0001123377888889999999999999            9999999999987754

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.96  E-value=1e-28  Score=210.86  Aligned_cols=167  Identities=20%  Similarity=0.340  Sum_probs=133.9

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      .....+||+|+|++|||||||+++|.++.+...+.++.+.++....+..++..+.+.+|||+|++.|..++..+++.+|+
T Consensus        22 ~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~  101 (192)
T 2il1_A           22 PADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKG  101 (192)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHHHHHHCSE
T ss_pred             ccCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHHHHHhcCCCE
Confidence            34556899999999999999999999999887788888888776677667777899999999999999988899999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      +|+|||++++.+|+.+..|+..+....  ..|+++|+||+|+....        .+                        
T Consensus       102 iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~~~--------~v------------------------  149 (192)
T 2il1_A          102 IILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDR--------EI------------------------  149 (192)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC--------CS------------------------
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccccc--------cc------------------------
Confidence            999999999999999999999887764  34999999999995321        11                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHc-CCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEH-RIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~-~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                        .        .+.+..++... ++++++|||++|            .|++++|++|++.+..+
T Consensus       150 --~--------~~~~~~~~~~~~~~~~~~~SA~~g------------~gi~~l~~~l~~~i~~~  191 (192)
T 2il1_A          150 --T--------RQQGEKFAQQITGMRFCEASAKDN------------FNVDEIFLKLVDDILKK  191 (192)
T ss_dssp             --C--------HHHHHHHHHTSTTCEEEECBTTTT------------BSHHHHHHHHHHHHHHT
T ss_pred             --C--------HHHHHHHHHhcCCCeEEEEeCCCC------------CCHHHHHHHHHHHHHHh
Confidence              1        11266777774 789999999999            99999999999877543

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=99.96  E-value=2.6e-28  Score=200.93  Aligned_cols=160  Identities=16%  Similarity=0.213  Sum_probs=134.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||+++|.++.+...+.+|.+..+. ..+..++..+.+.+|||||++.+..++..+++.+|++|+|
T Consensus         3 ~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v   81 (167)
T 1c1y_A            3 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALV   81 (167)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceEE-EEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEE
Confidence            489999999999999999999999988788888876653 4455566678899999999999999888999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      ||++++.+|+.+..|+..+...   ...|+++|+||+|+....        .+                          .
T Consensus        82 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~--------~~--------------------------~  127 (167)
T 1c1y_A           82 YSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDER--------VV--------------------------G  127 (167)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGC--------CS--------------------------C
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECccccccc--------cC--------------------------C
Confidence            9999999999999999888654   244899999999995321        11                          1


Q ss_pred             CCCCcHHHHHHHHHHHHHc-CCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          206 DEEPSWEIRRSCLEWCTEH-RIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~-~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                              .+.+..++..+ +++|+++||++|            .|++++|++|.+.+.
T Consensus       128 --------~~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~i~  166 (167)
T 1c1y_A          128 --------KEQGQNLARQWCNCAFLESSAKSK------------INVNEIFYDLVRQIN  166 (167)
T ss_dssp             --------HHHHHHHHHHTTSCEEEECBTTTT------------BSHHHHHHHHHHHHT
T ss_pred             --------HHHHHHHHHHccCCcEEEecCCCC------------CCHHHHHHHHHHHHh
Confidence                    12267788877 789999999999            999999999998763

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=99.96  E-value=3.9e-28  Score=210.58  Aligned_cols=175  Identities=17%  Similarity=0.170  Sum_probs=137.7

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ....+||+|+|++|||||||+++|.+..+...+.+|.+..+ ...+..++..+.+.+|||+|++.|..+...+++.++++
T Consensus        25 ~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~  103 (205)
T 1gwn_A           25 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAV  103 (205)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEESSSSEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeE-EEEEEECCEEEEEEEEeCCCcHhhhHHHHhhccCCCEE
Confidence            45568999999999999999999999999877888887766 34556667788999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHH-HHHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          126 VMVFNLNDLSTLDAL-KHWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l-~~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      |+|||++++.+|+.+ ..|+..+.... ..|+++||||+|+....    ....++.                        
T Consensus       104 ilv~D~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~----~~~~~~~------------------------  155 (205)
T 1gwn_A          104 LICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDV----STLVELS------------------------  155 (205)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCH----HHHHHHH------------------------
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEechhhccch----hhhhhhc------------------------
Confidence            999999999999999 78999887654 34999999999996321    0011110                        


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcC-CeEEEeecC-CCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHR-IEYIEACAS-NVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~-~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                        .........+.+..++..++ ++|++|||+ ++            .||+++|..|++.++
T Consensus       156 --~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~------------~gv~~lf~~l~~~~l  203 (205)
T 1gwn_A          156 --NHRQTPVSYDQGANMAKQIGAATYIECSALQSE------------NSVRDIFHVATLACV  203 (205)
T ss_dssp             --TTTCCCCCHHHHHHHHHHHTCSEEEECCTTTCH------------HHHHHHHHHHHHHHH
T ss_pred             --ccccCCCCHHHHHHHHHHcCCCEEEEeeeccCC------------cCHHHHHHHHHHHHh
Confidence              00000011233788888887 689999999 68            899999999998765

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=99.96  E-value=2.3e-28  Score=214.23  Aligned_cols=166  Identities=15%  Similarity=0.132  Sum_probs=129.3

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCC--CCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchh-hhccccccccC
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNF--EDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEE-FSIRSLPISDQ  121 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~--~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~-~~~~~~~~~~~  121 (289)
                      .....+||+|+|++|||||||+++|.+...  ...+ ++++.+++...+..++..+.+.+|||+|++. +..+...|++.
T Consensus        33 ~~~~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~-~~~g~d~~~~~i~~~~~~~~l~~~Dt~g~~~~~~~l~~~~~~~  111 (211)
T 2g3y_A           33 SGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDC-EVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQV  111 (211)
T ss_dssp             --CCEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC----CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHHHCCCCC
T ss_pred             cCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCcC-CccceeeEEEEEEECCeeeEEEEeecCCCcchhhhHHHHHHhh
Confidence            445569999999999999999999996543  3333 3455555555666677788899999999887 55666788899


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcc
Q 040295          122 LTALVMVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISET  198 (289)
Q Consensus       122 ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~  198 (289)
                      ++++|+|||++++.+|+.+..|+..+...   ...|+|+||||+|+...        +.+                    
T Consensus       112 a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~--------r~v--------------------  163 (211)
T 2g3y_A          112 GDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRC--------REV--------------------  163 (211)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGG--------CCS--------------------
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcC--------ceE--------------------
Confidence            99999999999999999999999887653   34599999999999531        212                    


Q ss_pred             cCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          199 EGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                            ..        ..+..++..++++|+||||++|            .||+++|++|++.+...
T Consensus       164 ------~~--------~e~~~~a~~~~~~~~e~SAk~g------------~~v~elf~~l~~~i~~~  204 (211)
T 2g3y_A          164 ------SV--------SEGRACAVVFDCKFIETSAAVQ------------HNVKELFEGIVRQVRLR  204 (211)
T ss_dssp             ------CH--------HHHHHHHHHHTCEEEECBTTTT------------BSHHHHHHHHHHHHHHH
T ss_pred             ------eH--------HHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHHHHh
Confidence                  11        1266788888999999999999            99999999999987543

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.96  E-value=2.7e-28  Score=208.54  Aligned_cols=180  Identities=13%  Similarity=0.135  Sum_probs=131.9

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCc
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQL  122 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~a  122 (289)
                      .......+||+|+|++|||||||+++|.++.+...+.+|.+..+ ...+..++..+.+.+|||+|++.|..++..+++++
T Consensus        14 ~~~~~~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   92 (201)
T 2q3h_A           14 GGAEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNF-SAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNT   92 (201)
T ss_dssp             ------CEEEEEECSTTSSHHHHHHHHHC--------CCSSEEE-EEEEEETTEEEEEEEEECCCSTTCSSSGGGGGTTC
T ss_pred             CCCCCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCHHHHHHhHhhcCCC
Confidence            34556779999999999999999999999998877888887655 34455566778899999999999999999999999


Q ss_pred             cEEEEEEeCCCHhhHHHHH-HHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          123 TALVMVFNLNDLSTLDALK-HWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       123 d~vIlV~Dv~~~~S~~~l~-~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      |++|+|||++++.+|+.+. .|+..+.... ..|+++||||+|+.....    ....+.                     
T Consensus        93 ~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~----~~~~~~---------------------  147 (201)
T 2q3h_A           93 DIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPKAPIILVGTQSDLREDVK----VLIELD---------------------  147 (201)
T ss_dssp             SEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSSCEEEEEECGGGGGCHH----HHHHHH---------------------
T ss_pred             cEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEECHhhhhchh----hhhhhc---------------------
Confidence            9999999999999999997 7999887654 348999999999964210    001110                     


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                           .........+.+..++..+++ +|++|||+++            .|++++|++|++.++..
T Consensus       148 -----~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g------------~gi~~l~~~l~~~~~~~  196 (201)
T 2q3h_A          148 -----KCKEKPVPEEAAKLLAEEIKAASYIECSALTQ------------KNLKEVFDAAIVAGIQY  196 (201)
T ss_dssp             -----TTTCCCCCHHHHHHHHHHHTCSEEEECCTTTC------------TTHHHHHHHHHHHHHHH
T ss_pred             -----ccccccCCHHHHHHHHHhcCCcEEEEEecCCC------------CCHHHHHHHHHHHHhcc
Confidence                 000000112347888888887 8999999999            99999999999887644

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=99.96  E-value=2.2e-28  Score=205.10  Aligned_cols=175  Identities=14%  Similarity=0.189  Sum_probs=138.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||+++|.++.+...+.+|.+..+ ...+...+..+.+.+|||||++.|..++..+++.+|++|+|
T Consensus         5 ~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v   83 (186)
T 1mh1_A            5 AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLIC   83 (186)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             EEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCccccee-EEEEEECCEEEEEEEEECCCCHhHHHHHHHhccCCcEEEEE
Confidence            48999999999999999999999998877777777655 33445566778899999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHH-HHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          129 FNLNDLSTLDALK-HWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       129 ~Dv~~~~S~~~l~-~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      ||++++.+|+.+. .|+..+.... ..|+++|+||+|+.+...    ....+..   .                    . 
T Consensus        84 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----~~~~~~~---~--------------------~-  135 (186)
T 1mh1_A           84 FSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKD----TIEKLKE---K--------------------K-  135 (186)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHTCHH----HHHHHHH---T--------------------T-
T ss_pred             EECCChhhHHHHHHHHHHHHHHhCCCCCEEEEeEcccccccch----hhhhhcc---c--------------------c-
Confidence            9999999999998 7998887653 348999999999964311    0011100   0                    0 


Q ss_pred             CCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          207 EEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                        ......+.+..++..+++ +|++|||++|            .|++++|++|.+.++...
T Consensus       136 --~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g------------~gi~~l~~~l~~~~~~~~  182 (186)
T 1mh1_A          136 --LTPITYPQGLAMAKEIGAVKYLECSALTQ------------RGLKTVFDEAIRAVLCPP  182 (186)
T ss_dssp             --CCCCCHHHHHHHHHHTTCSEEEECCTTTC------------TTHHHHHHHHHHHHSCCC
T ss_pred             --cccCCHHHHHHHHHhcCCcEEEEecCCCc------------cCHHHHHHHHHHHHhccc
Confidence              000112337788988997 9999999999            999999999999887654

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=99.96  E-value=9.7e-29  Score=214.06  Aligned_cols=172  Identities=20%  Similarity=0.284  Sum_probs=141.4

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcc----------eEEEEEEEcCCchhhh
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYY----------TADVSLWMAHLHEEFS  112 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~----------~~~l~I~Dt~G~e~~~  112 (289)
                      .......+||+|+|++|||||||+++|++..+...+.+|.+.++....+...+.          .+.+.+|||+|++.|.
T Consensus        19 ~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~   98 (217)
T 2f7s_A           19 SGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFR   98 (217)
T ss_dssp             --CCSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHH
T ss_pred             CCCcceeEEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhHH
Confidence            344566799999999999999999999999987777777777765555544443          6789999999999999


Q ss_pred             ccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCc
Q 040295          113 IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPD  189 (289)
Q Consensus       113 ~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~  189 (289)
                      .++..+++.+|++|+|||++++.+|+.+..|+..+....   ..|+++|+||+|+....        .+           
T Consensus        99 ~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~--------~v-----------  159 (217)
T 2f7s_A           99 SLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQR--------EV-----------  159 (217)
T ss_dssp             HHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGC--------CS-----------
T ss_pred             hHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCcccccc--------cc-----------
Confidence            999899999999999999999999999999999887653   34999999999995321        11           


Q ss_pred             ccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCccc
Q 040295          190 FCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVL  268 (289)
Q Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~  268 (289)
                                     .        ...+..++..++++|++|||+++            .|++++|++|.+.+...+..
T Consensus       160 ---------------~--------~~~~~~~~~~~~~~~~~~Sa~~g------------~gi~~l~~~l~~~i~~~~~~  203 (217)
T 2f7s_A          160 ---------------N--------ERQARELADKYGIPYFETSAATG------------QNVEKAVETLLDLIMKRMEQ  203 (217)
T ss_dssp             ---------------C--------HHHHHHHHHHTTCCEEEEBTTTT------------BTHHHHHHHHHHHHHHHHHH
T ss_pred             ---------------C--------HHHHHHHHHHCCCcEEEEECCCC------------CCHHHHHHHHHHHHHHHhhc
Confidence                           1        12377888899999999999999            99999999999988765543

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=99.96  E-value=8.3e-29  Score=206.70  Aligned_cols=167  Identities=16%  Similarity=0.277  Sum_probs=124.7

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecC-cceEEEEEEEcCCchhhhccccccccCccE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTK-YYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~-~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      ....+||+|+|++|||||||+++|.+..+...+.++.+.++....+... +..+.+.+|||||++.|...+..+++.+|+
T Consensus         5 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   84 (182)
T 1ky3_A            5 KKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADC   84 (182)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCE
T ss_pred             cCceEEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhhHHHhhcCCE
Confidence            3456899999999999999999999999887888888777666666555 556889999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhc------CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcc
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQ------KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISET  198 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~------~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~  198 (289)
                      +|+|||++++.+|+.+..|+..+...      ...|+++|+||+|+...       .+.+                    
T Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~-------~~~v--------------------  137 (182)
T 1ky3_A           85 CVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEES-------KKIV--------------------  137 (182)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGG-------GCCS--------------------
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCccccc-------cccC--------------------
Confidence            99999999999999999999888654      33489999999999531       1111                    


Q ss_pred             cCCCCCCCCCCcHHHHHHHHHHHH-HcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          199 EGSSLLGDEEPSWEIRRSCLEWCT-EHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                            .        ...+.+++. ..++++++|||++|            .|++++|++|++.++..
T Consensus       138 ------~--------~~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~~~~  179 (182)
T 1ky3_A          138 ------S--------EKSAQELAKSLGDIPLFLTSAKNA------------INVDTAFEEIARSALQQ  179 (182)
T ss_dssp             ------C--------HHHHHHHHHHTTSCCEEEEBTTTT------------BSHHHHHHHHHHHHHHH
T ss_pred             ------C--------HHHHHHHHHhcCCCeEEEEecCCC------------CCHHHHHHHHHHHHHHh
Confidence                  0        122667777 45678999999999            99999999999887643

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.96  E-value=5.9e-28  Score=205.25  Aligned_cols=170  Identities=15%  Similarity=0.124  Sum_probs=129.8

Q ss_pred             cccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcccccccc
Q 040295           42 DRASLEKRPGILIIGSSNVGKRTILSRLLSVNFED-ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISD  120 (289)
Q Consensus        42 ~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~  120 (289)
                      .........||+|+|++|||||||+++|++..+.. .+.+|.+..+...  .  ...+.+.+|||+|++.|..++..+++
T Consensus        10 ~~~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~~~~~~~--~--~~~~~~~i~Dt~G~~~~~~~~~~~~~   85 (199)
T 4bas_A           10 HMGQSKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVGYNVETF--E--KGRVAFTVFDMGGAKKFRGLWETYYD   85 (199)
T ss_dssp             ------CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSSEEEEEE--E--ETTEEEEEEEECCSGGGGGGGGGGCT
T ss_pred             cccCCCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccccccceeEEEE--E--eCCEEEEEEECCCCHhHHHHHHHHHh
Confidence            44556677899999999999999999999999887 7788888655433  2  34578999999999999999999999


Q ss_pred             CccEEEEEEeCCCHhhHHHHHHHHHHhhhc----------CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcc
Q 040295          121 QLTALVMVFNLNDLSTLDALKHWVPSIDLQ----------KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDF  190 (289)
Q Consensus       121 ~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~----------~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~  190 (289)
                      .+|++|+|||++++.+|+.+..|+..+...          ...|+++|+||+|+...... .+..+.+            
T Consensus        86 ~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~-~~~~~~~------------  152 (199)
T 4bas_A           86 NIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKTA-AELVEIL------------  152 (199)
T ss_dssp             TCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCCH-HHHHHHH------------
T ss_pred             cCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCCH-HHHHHHh------------
Confidence            999999999999999999999999887554          14489999999999653210 0111111            


Q ss_pred             cCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          191 CQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       191 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                               ....++...+++|++|||+++            .||+++|++|++.+...
T Consensus       153 -------------------------~~~~~~~~~~~~~~~~Sa~~g------------~gv~~l~~~l~~~~~~~  190 (199)
T 4bas_A          153 -------------------------DLTTLMGDHPFVIFASNGLKG------------TGVHEGFSWLQETASRQ  190 (199)
T ss_dssp             -------------------------THHHHHTTSCEEEEECBTTTT------------BTHHHHHHHHHHHHHHH
T ss_pred             -------------------------cchhhccCCeeEEEEeeCCCc------------cCHHHHHHHHHHHHHHH
Confidence                                     022333567889999999999            99999999999987655

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=99.96  E-value=3.3e-28  Score=207.90  Aligned_cols=167  Identities=14%  Similarity=0.195  Sum_probs=139.2

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      .....+||+|+|++|||||||+++|.++.+...+.+|.+..+. ..+..++..+.+.+|||||++.|..++..+++.+|+
T Consensus        10 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~   88 (206)
T 2bov_A           10 NSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEG   88 (206)
T ss_dssp             -CCCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEEE-EEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSE
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEE-EEEEECCEEEEEEEEcCCChhhhHHHHHHHHhhCCE
Confidence            3445689999999999999999999999988778888876653 344455667889999999999999988899999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      +|+|||++++.+|+.+..|+..+....   ..|+++|+||+|+....        .+                       
T Consensus        89 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~--------~~-----------------------  137 (206)
T 2bov_A           89 FLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKR--------QV-----------------------  137 (206)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGC--------CS-----------------------
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCccccc--------cc-----------------------
Confidence            999999999999999999999987654   34999999999995321        11                       


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                         .        ...+..++..++++|+++||++|            .|++++|.+|++.+....
T Consensus       138 ---~--------~~~~~~~~~~~~~~~~~~Sa~~g------------~gi~~l~~~l~~~i~~~~  179 (206)
T 2bov_A          138 ---S--------VEEAKNRAEQWNVNYVETSAKTR------------ANVDKVFFDLMREIRARK  179 (206)
T ss_dssp             ---C--------HHHHHHHHHHHTCEEEEECTTTC------------TTHHHHHHHHHHHHHHHH
T ss_pred             ---c--------HHHHHHHHHHhCCeEEEEeCCCC------------CCHHHHHHHHHHHHHHcc
Confidence               1        12267888888999999999999            999999999999887653

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=99.96  E-value=4.1e-28  Score=199.10  Aligned_cols=160  Identities=18%  Similarity=0.239  Sum_probs=133.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +.+||+|+|++|||||||+++|.++.+...+.++.+..+ ...+...+..+.+.+|||||++.+..++..+++.++++++
T Consensus         2 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~   80 (167)
T 1kao_A            2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFY-RKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIL   80 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCcceeE-EEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEE
Confidence            348999999999999999999999998877777776544 3445556667889999999999999888889999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |||++++.+|+.+..|+..+....   ..|+++|+||+|+.....        +                          
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~--------~--------------------------  126 (167)
T 1kao_A           81 VYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESERE--------V--------------------------  126 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCC--------S--------------------------
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCccccccc--------C--------------------------
Confidence            999999999999999998886542   348999999999953211        1                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                      .        ...+..++..++++++++||+++            .|++++|++|.+.+
T Consensus       127 ~--------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~  164 (167)
T 1kao_A          127 S--------SSEGRALAEEWGCPFMETSAKSK------------TMVDELFAEIVRQM  164 (167)
T ss_dssp             C--------HHHHHHHHHHHTSCEEEECTTCH------------HHHHHHHHHHHHHH
T ss_pred             C--------HHHHHHHHHHhCCCEEEecCCCC------------cCHHHHHHHHHHHH
Confidence            0        12267788888999999999999            99999999998865

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=99.96  E-value=1.3e-27  Score=204.64  Aligned_cols=166  Identities=19%  Similarity=0.341  Sum_probs=140.3

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ....+||+|+|++|||||||+++|++..+...+.++.+.++....+...+..+.+.+|||||++.|..++..+++.+|++
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   84 (207)
T 1vg8_A            5 KKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCC   84 (207)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhHHHHHhCCcEE
Confidence            34568999999999999999999999998888888888888777777777788999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcC------CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCccc
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQK------FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETE  199 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~------~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~  199 (289)
                      |+|||++++.+|+.+..|+..+....      ..|+++|+||+|+.... ..                            
T Consensus        85 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-~~----------------------------  135 (207)
T 1vg8_A           85 VLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQ-VA----------------------------  135 (207)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCC-SC----------------------------
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCcccc-cC----------------------------
Confidence            99999999999999999998876542      34899999999996211 00                            


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHHH-HcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          200 GSSLLGDEEPSWEIRRSCLEWCT-EHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                                    ...+..++. ..+++|+++||++|            .|++++|++|.+.++...
T Consensus       136 --------------~~~~~~~~~~~~~~~~~~~Sa~~g------------~gi~~l~~~l~~~~~~~~  177 (207)
T 1vg8_A          136 --------------TKRAQAWCYSKNNIPYFETSAKEA------------INVEQAFQTIARNALKQE  177 (207)
T ss_dssp             --------------HHHHHHHHHHTTSCCEEECBTTTT------------BSHHHHHHHHHHHHHHHH
T ss_pred             --------------HHHHHHHHHhcCCceEEEEeCCCC------------CCHHHHHHHHHHHHHHhc
Confidence                          112566776 56789999999999            999999999999887654

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.96  E-value=7.9e-28  Score=206.88  Aligned_cols=166  Identities=22%  Similarity=0.329  Sum_probs=139.8

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ....+||+|+|++|||||||+++|++..+...+.++.+.++....+...+..+.+.+|||||++.|..++..+++.+|++
T Consensus        17 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~i   96 (213)
T 3cph_A           17 YDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGI   96 (213)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCCCHHHHTTCSEE
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEE
Confidence            45568999999999999999999999998877888888777666666677778999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      |+|||++++.+|+.+..|+..+....  ..|+++|+||+|+... ...                                
T Consensus        97 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~-~~~--------------------------------  143 (213)
T 3cph_A           97 ILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETR-VVT--------------------------------  143 (213)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTCSSC-CSC--------------------------------
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccc-ccC--------------------------------
Confidence            99999999999999999999887654  3499999999999321 110                                


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                                ...+..++..++++|++|||+++            .|++++|.+|.+.+....
T Consensus       144 ----------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~~~~~  184 (213)
T 3cph_A          144 ----------ADQGEALAKELGIPFIESSAKND------------DNVNEIFFTLAKLIQEKI  184 (213)
T ss_dssp             ----------HHHHHHHHHHHTCCEEECBTTTT------------BSSHHHHHHHHHHHHHHH
T ss_pred             ----------HHHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHHHHHH
Confidence                      11267788888999999999999            999999999998876543

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=99.96  E-value=4.1e-28  Score=199.29  Aligned_cols=160  Identities=14%  Similarity=0.217  Sum_probs=131.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||+++|.++.+...+.+|.+..+. ..+...+..+.+.+|||||++.+..++..+++.+|++|+|
T Consensus         4 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v   82 (168)
T 1u8z_A            4 LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCV   82 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEEE-EEEEECCEEEEEEEEECCCcchhHHHHHHHhhcCCEEEEE
Confidence            489999999999999999999999987777777776653 3344556678899999999999999888999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      ||++++.+|+.+..|+..+....   ..|+++|+||+|+....        .+                          .
T Consensus        83 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~--------~~--------------------------~  128 (168)
T 1u8z_A           83 FSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKR--------QV--------------------------S  128 (168)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGC--------CS--------------------------C
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccccccC--------cc--------------------------C
Confidence            99999999999999999886653   44999999999995321        11                          1


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                              .+.+..++..++++++++||+++            .|++++|++|.+.+.
T Consensus       129 --------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~i~  166 (168)
T 1u8z_A          129 --------VEEAKNRADQWNVNYVETSAKTR------------ANVDKVFFDLMREIR  166 (168)
T ss_dssp             --------HHHHHHHHHHHTCEEEECCTTTC------------TTHHHHHHHHHHHHH
T ss_pred             --------HHHHHHHHHHcCCeEEEeCCCCC------------CCHHHHHHHHHHHHH
Confidence                    12267888888999999999999            999999999998764

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.96  E-value=1.3e-28  Score=210.43  Aligned_cols=166  Identities=14%  Similarity=0.273  Sum_probs=103.6

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcC--CCCCCCCCCcceEEeeEEeecCcc--eEEEEEEEcCCchhhhccccccccCc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSV--NFEDASDSSSELLVNGWTINTKYY--TADVSLWMAHLHEEFSIRSLPISDQL  122 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~--~~~~~~~~t~~~~~~~~~i~~~~~--~~~l~I~Dt~G~e~~~~~~~~~~~~a  122 (289)
                      ...+||+|+|++|||||||+++|.+.  .+...+.+|.+.++....+...+.  .+.+.+|||||++.|..++..+++.+
T Consensus        18 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   97 (208)
T 2yc2_C           18 TLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGV   97 (208)
T ss_dssp             EEEEEEEEC----------------------------------CEEEECTTSSEEEEEEEEETTTTHHHHHHHSTTCCCC
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHHHHHHHhhC
Confidence            45689999999999999999999998  777777888887776666666665  78999999999999999999999999


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHhhhcC-----CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCc
Q 040295          123 TALVMVFNLNDLSTLDALKHWVPSIDLQK-----FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISE  197 (289)
Q Consensus       123 d~vIlV~Dv~~~~S~~~l~~~~~~i~~~~-----~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~  197 (289)
                      |++|+|||++++.+|+.+..|+..+....     ..|+++|+||+|+...       .+.+                   
T Consensus        98 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~-------~~~v-------------------  151 (208)
T 2yc2_C           98 YYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQ-------RHQV-------------------  151 (208)
T ss_dssp             CEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC--------------CC-------------------
T ss_pred             cEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccchh-------hccC-------------------
Confidence            99999999999999999999999997764     3499999999999530       1111                   


Q ss_pred             ccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCC-CcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          198 TEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASN-VDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       198 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~-~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                             +        ...+..++..++++|++|||++ +            .|++++|++|++.+...
T Consensus       152 -------~--------~~~~~~~~~~~~~~~~~~Sa~~~~------------~gi~~l~~~i~~~~~~~  193 (208)
T 2yc2_C          152 -------R--------LDMAQDWATTNTLDFFDVSANPPG------------KDADAPFLSIATTFYRN  193 (208)
T ss_dssp             -------C--------HHHHHHHHHHTTCEEEECCC-------------------CHHHHHHHHHHHHH
T ss_pred             -------C--------HHHHHHHHHHcCCEEEEeccCCCC------------cCHHHHHHHHHHHHHHH
Confidence                   1        1227788999999999999999 9            99999999999877644

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=99.96  E-value=1.6e-28  Score=205.71  Aligned_cols=173  Identities=14%  Similarity=0.185  Sum_probs=123.0

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||+|+|++|||||||+++|.++.+...+.+|.+..+. ..+..++..+.+.+|||||++.|..++..+++++|++|
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   84 (182)
T 3bwd_D            6 SRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFS-ANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFI   84 (182)
T ss_dssp             -CCCEEEEECSTTSSHHHHHHHHHHSCCC----------CB-CCCC-------CEEECCCC-CTTTTTGGGGGTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeEE-EEEEECCEEEEEEEEECCCChhhhhhHHhhccCCCEEE
Confidence            45699999999999999999999999887777777765442 22334555678899999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHH-HHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          127 MVFNLNDLSTLDALK-HWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~-~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      +|||++++.+|+.+. .|+..+.... ..|+++|+||+|+...        +.+..                        
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--------~~~~~------------------------  132 (182)
T 3bwd_D           85 LAFSLISKASYENVSKKWIPELKHYAPGVPIVLVGTKLDLRDD--------KQFFI------------------------  132 (182)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECHHHHTC--------HHHHH------------------------
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEechhhhcC--------ccccc------------------------
Confidence            999999999999998 7999887753 3489999999999542        11100                        


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                      ............+.+++..+++ +|++|||++|            .|++++|++|++.++.
T Consensus       133 ~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~i~~  181 (182)
T 3bwd_D          133 DHPGAVPITTVQGEELKKLIGAPAYIECSSKSQ------------ENVKGVFDAAIRVVLQ  181 (182)
T ss_dssp             HC--CCCCCHHHHHHHHHHHTCSEEEECCTTTC------------TTHHHHHHHHHHHHSC
T ss_pred             ccccCCCCCHHHHHHHHHHcCCCEEEEEECCCC------------CCHHHHHHHHHHHHhc
Confidence            0000000112337788888897 8999999999            9999999999987764

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=99.95  E-value=8.2e-28  Score=203.91  Aligned_cols=167  Identities=20%  Similarity=0.334  Sum_probs=135.7

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhh-ccccccccCccE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFS-IRSLPISDQLTA  124 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~-~~~~~~~~~ad~  124 (289)
                      ..+.+||+|+|++|||||||+++|+++.+...+.++.+.++....+..++..+.+.+|||||++.|. .++..+++.+|+
T Consensus        17 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~d~   96 (189)
T 1z06_A           17 RSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHA   96 (189)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCchhhhhhhhHHHhcCCCE
Confidence            3456899999999999999999999999888888888887776667667777899999999999998 788889999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      +|+|||++++.+|+.+..|+..+....   ..|+++|+||+|+...        +++                       
T Consensus        97 iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~--------~~v-----------------------  145 (189)
T 1z06_A           97 VVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSA--------IQV-----------------------  145 (189)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGG--------CCS-----------------------
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccc--------cee-----------------------
Confidence            999999999999999999999887653   3489999999999532        111                       


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                         .        ...+..++..++++|+++||+++         .+..||+++|.+|++.+.
T Consensus       146 ---~--------~~~~~~~~~~~~~~~~~~Sa~~~---------~~~~~i~~l~~~l~~~i~  187 (189)
T 1z06_A          146 ---P--------TDLAQKFADTHSMPLFETSAKNP---------NDNDHVEAIFMTLAHKLK  187 (189)
T ss_dssp             ---C--------HHHHHHHHHHTTCCEEECCSSSG---------GGGSCHHHHHHHHC----
T ss_pred             ---C--------HHHHHHHHHHcCCEEEEEeCCcC---------CcccCHHHHHHHHHHHHh
Confidence               1        12267888889999999999986         123689999999987664

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.95  E-value=1.1e-27  Score=206.69  Aligned_cols=182  Identities=15%  Similarity=0.216  Sum_probs=135.8

Q ss_pred             ccccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcccccccc
Q 040295           41 TDRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISD  120 (289)
Q Consensus        41 ~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~  120 (289)
                      +..++....+||+|+|++|||||||+++|.++.+...+.+|.+..+.. .+..++..+.+.+|||||++.|..++..+++
T Consensus        17 ~~~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~-~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~   95 (207)
T 2fv8_A           17 NLYFQSMIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQEDYDRLRPLSYP   95 (207)
T ss_dssp             --CGGGSEEEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEEE-EEEETTEEEEEEEEECTTCTTCTTTGGGGCT
T ss_pred             ccccccccCcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEEE-EEEECCEEEEEEEEECCCcHHHHHHHHhhcC
Confidence            344455667899999999999999999999999887777777766543 2455666788999999999999999999999


Q ss_pred             CccEEEEEEeCCCHhhHHHH-HHHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcc
Q 040295          121 QLTALVMVFNLNDLSTLDAL-KHWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISET  198 (289)
Q Consensus       121 ~ad~vIlV~Dv~~~~S~~~l-~~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~  198 (289)
                      .+|++|+|||++++.+|+.+ ..|+..+.... ..|+++|+||+|+.....    ....+...                 
T Consensus        96 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----~~~~~~~~-----------------  154 (207)
T 2fv8_A           96 DTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVPIILVANKKDLRSDEH----VRTELARM-----------------  154 (207)
T ss_dssp             TCCEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGGGCHH----HHHHHHHT-----------------
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhhhcccc----chhhhhhc-----------------
Confidence            99999999999999999999 68988887653 348999999999964311    11111000                 


Q ss_pred             cCCCCCCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          199 EGSSLLGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                            ..   .......+..++...++ +|++|||++|            .|++++|++|.+.++..
T Consensus       155 ------~~---~~v~~~~~~~~~~~~~~~~~~~~SA~~g------------~gi~el~~~l~~~i~~~  201 (207)
T 2fv8_A          155 ------KQ---EPVRTDDGRAMAVRIQAYDYLECSAKTK------------EGVREVFETATRAALQK  201 (207)
T ss_dssp             ------TC---CCCCHHHHHHHHHHTTCSEEEECCTTTC------------TTHHHHHHHHHHHHHSC
T ss_pred             ------cc---CCCCHHHHHHHHHhcCCCEEEEeeCCCC------------CCHHHHHHHHHHHHHHH
Confidence                  00   00112237788988888 8999999999            99999999999988754

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=99.95  E-value=1.3e-28  Score=214.35  Aligned_cols=170  Identities=16%  Similarity=0.218  Sum_probs=145.2

Q ss_pred             cccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCcc
Q 040295           44 ASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLT  123 (289)
Q Consensus        44 ~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad  123 (289)
                      ......+||+|+|++|||||||+++|+.+.+...+.++.+.++....+...+..+.+.+|||+|++.|..++..+++.+|
T Consensus        10 ~~~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~   89 (221)
T 3gj0_A           10 GEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQ   89 (221)
T ss_dssp             TCCCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHHHHTTCC
T ss_pred             CCcccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHHHHhcCC
Confidence            34556799999999999999999998888877778888888887777777777889999999999999999999999999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          124 ALVMVFNLNDLSTLDALKHWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       124 ~vIlV~Dv~~~~S~~~l~~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      ++|+|||++++.+|+.+..|+..+.... ..|+++||||+|+.....                                 
T Consensus        90 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~---------------------------------  136 (221)
T 3gj0_A           90 CAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRKV---------------------------------  136 (221)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSTTCCEEEEEECTTSSSCSS---------------------------------
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECCccccccc---------------------------------
Confidence            9999999999999999999999997764 348999999999964211                                 


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcccc
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLK  269 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~  269 (289)
                         ..        .+..++...+++|++|||+++            .|++++|.+|.+.+.......
T Consensus       137 ---~~--------~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~l~~~~~~~  180 (221)
T 3gj0_A          137 ---KA--------KSIVFHRKKNLQYYDISAKSN------------YNFEKPFLWLARKLIGDPNLE  180 (221)
T ss_dssp             ---CG--------GGCCHHHHHTCEEEECBGGGT------------BTTTHHHHHHHHHHHTCTTCC
T ss_pred             ---cH--------HHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHHHhCcccc
Confidence               00        145677888999999999999            999999999999987765443

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=99.95  E-value=2.1e-27  Score=204.08  Aligned_cols=176  Identities=17%  Similarity=0.248  Sum_probs=138.5

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      +....+||+|+|++|||||||+++|.++.+...+.+|.+..+.. .+..++..+.+.+|||||++.|..++..+++.+|+
T Consensus        21 m~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~-~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~   99 (201)
T 2gco_A           21 MAAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIA-DIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDV   99 (201)
T ss_dssp             -CCEEEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCEE-EEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSE
T ss_pred             CcccceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEEE-EEEECCEEEEEEEEECCCchhHHHHHHHhcCCCCE
Confidence            44566899999999999999999999999887777887766542 34456667899999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHH-HHHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          125 LVMVFNLNDLSTLDAL-KHWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l-~~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      +|+|||++++.+|+.+ ..|+..+.... ..|+++|+||+|+....    ...+.+..   .                  
T Consensus       100 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~----~~~~~~~~---~------------------  154 (201)
T 2gco_A          100 ILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRQDE----HTRRELAK---M------------------  154 (201)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGTTCH----HHHHHHHT---T------------------
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEecHHhhcCc----cchhhhcc---c------------------
Confidence            9999999999999999 68988887653 34899999999997531    11111100   0                  


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                        .   ........+..++...++ +|++|||++|            .|++++|.+|++.++
T Consensus       155 --~---~~~v~~~~~~~~~~~~~~~~~~~~SA~~g------------~gi~~l~~~i~~~~l  199 (201)
T 2gco_A          155 --K---QEPVRSEEGRDMANRISAFGYLECSAKTK------------EGVREVFEMATRAGL  199 (201)
T ss_dssp             --T---CCCCCHHHHHHHHHHTTCSEEEECCTTTC------------TTHHHHHHHHHHHHH
T ss_pred             --c---cCcCCHHHHHHHHHhCCCcEEEEeeCCCC------------CCHHHHHHHHHHHHh
Confidence              0   000112337888998898 8999999999            999999999998764

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=99.95  E-value=9.4e-28  Score=201.13  Aligned_cols=165  Identities=14%  Similarity=0.199  Sum_probs=136.6

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ..+.+||+|+|++|||||||+++|.+..+...+.+|.+..+. ..+...+..+.+.+|||||++.+..++..+++.+|++
T Consensus        15 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   93 (187)
T 2a9k_A           15 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGF   93 (187)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEEE-EEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEEE-EEEEECCEEEEEEEEECCCCcccHHHHHHHhccCCEE
Confidence            345689999999999999999999999988777788776653 3344456678899999999999999888999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      |+|||++++.+|+.+..|+..+....   ..|+++|+||+|+....        .+                        
T Consensus        94 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~--------~~------------------------  141 (187)
T 2a9k_A           94 LCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKR--------QV------------------------  141 (187)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGGC--------CS------------------------
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccC--------cc------------------------
Confidence            99999999999999999999886653   34899999999995321        11                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                        .        .+.+..++..++++|+++||+++            .|++++|++|.+.+...
T Consensus       142 --~--------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~i~~~  182 (187)
T 2a9k_A          142 --S--------VEEAKNRAEQWNVNYVETSAKTR------------ANVDKVFFDLMREIRAR  182 (187)
T ss_dssp             --C--------HHHHHHHHHHTTCEEEECCTTTC------------TTHHHHHHHHHHHHHHH
T ss_pred             --C--------HHHHHHHHHHcCCeEEEeCCCCC------------CCHHHHHHHHHHHHHHh
Confidence              1        12267888889999999999999            99999999999887543

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=99.95  E-value=9e-28  Score=208.74  Aligned_cols=177  Identities=13%  Similarity=0.213  Sum_probs=119.0

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ....+||+|+|++|||||||+++|.++.+...+.+|.+..+ ...+..++..+.+.+|||||++.|..++..+++.+|++
T Consensus        31 ~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~  109 (214)
T 2j1l_A           31 GVRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVL  109 (214)
T ss_dssp             -CCEEEEEEEECTTSSHHHHHHHHHC-------CCCCCEEE-EEEEEETTEEEEEEEEEC---------------CEEEE
T ss_pred             CcceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCchhhhHHHHHHhccCCEE
Confidence            34568999999999999999999999988777777776555 33445566678899999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHH-HHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          126 VMVFNLNDLSTLDALK-HWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~-~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      |+|||++++.+|+.+. .|+..+.... ..|+++||||+|+.....    ....+..                  .+   
T Consensus       110 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----~~~~~~~------------------~~---  164 (214)
T 2j1l_A          110 LLCFDVTSPNSFDNIFNRWYPEVNHFCKKVPIIVVGCKTDLRKDKS----LVNKLRR------------------NG---  164 (214)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHCSSCCEEEEEECGGGGSCHH----HHHHHHH------------------TT---
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhhccch----hhhhhcc------------------cc---
Confidence            9999999999999997 7999887654 348999999999965311    0010000                  00   


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                           .......++..++...++ +|++|||++|            .|++++|++|++.++..
T Consensus       165 -----~~~v~~~~~~~~~~~~~~~~~~~~SA~~g------------~gi~el~~~l~~~~~~~  210 (214)
T 2j1l_A          165 -----LEPVTYHRGQEMARSVGAVAYLECSARLH------------DNVHAVFQEAAEVALSS  210 (214)
T ss_dssp             -----CCCCCHHHHHHHHHHTTCSEEEECBTTTT------------BSHHHHHHHHHHHHHHC
T ss_pred             -----cCcccHHHHHHHHHhcCCCEEEEecCCCC------------CCHHHHHHHHHHHHHHh
Confidence                 000112237888999998 8999999999            99999999999988754

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.95  E-value=1.7e-29  Score=216.62  Aligned_cols=169  Identities=21%  Similarity=0.323  Sum_probs=135.4

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCc
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQL  122 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~a  122 (289)
                      .......+||+|+|++|||||||+++|+++.+...+.++.+.++....+..++..+.+.+|||||++.+..++..+++.+
T Consensus        27 ~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~  106 (199)
T 3l0i_B           27 NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGA  106 (199)
T ss_dssp             -CCCSEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC--CCC
T ss_pred             CcccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhhcC
Confidence            33445679999999999999999999999988777777777777666666677778999999999999999999999999


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          123 TALVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       123 d~vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      |++|+|||++++.+|+.+..|+..+....  ..|+++|+||+|+.+.        +.+                      
T Consensus       107 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~--------~~v----------------------  156 (199)
T 3l0i_B          107 HGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK--------KVV----------------------  156 (199)
T ss_dssp             SEEEECC-CCCSHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC----------CCC----------------------
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhccCCCCEEEEEECccCCcc--------ccC----------------------
Confidence            99999999999999999999999997764  3499999999999542        222                      


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                          ..++        +..++..++++|+++||+++            .||+++|++|.+.+...
T Consensus       157 ----~~~~--------~~~~~~~~~~~~~~vSA~~g------------~gv~~l~~~l~~~l~~~  197 (199)
T 3l0i_B          157 ----DYTT--------AKEFADSLGIPFLETSAKNA------------TNVEQSFMTMAAEIKKR  197 (199)
T ss_dssp             ----CSCC---------CHHHHTTTCCBCCCCC---------------HHHHHHHHHHTTTTTTT
T ss_pred             ----CHHH--------HHHHHHHcCCeEEEEECCCC------------CCHHHHHHHHHHHHHHh
Confidence                2333        67889999999999999999            99999999999877654

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=99.95  E-value=1e-27  Score=201.60  Aligned_cols=163  Identities=20%  Similarity=0.247  Sum_probs=133.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+|+|++|||||||+++|.++.+...+.+|.+..+. ..+..++..+.+.+|||||++.+..++..+++.+|++++|
T Consensus         4 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v   82 (189)
T 4dsu_A            4 EYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   82 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTCCEEEE-EEEEETTEEEEEEEEECCCC---CTTHHHHHHHCSEEEEE
T ss_pred             EEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCchheEE-EEEEECCcEEEEEEEECCCcHHHHHHHHHHHhcCCEEEEE
Confidence            489999999999999999999999987777777765443 3444566778899999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      ||++++.+|+.+..|+..+....   ..|+++|+||+|+.....                                    
T Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~------------------------------------  126 (189)
T 4dsu_A           83 FAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSRTV------------------------------------  126 (189)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSSCSS------------------------------------
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCccccc------------------------------------
Confidence            99999999999999999886642   349999999999963210                                    


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMV  267 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~  267 (289)
                             ..+.+..++..++++|+++||++|            .|++++|.+|.+.+.....
T Consensus       127 -------~~~~~~~~~~~~~~~~~~~Sa~~g------------~gi~~l~~~l~~~~~~~~~  169 (189)
T 4dsu_A          127 -------DTKQAQDLARSYGIPFIETSAKTR------------QGVDDAFYTLVREIRKHKE  169 (189)
T ss_dssp             -------CHHHHHHHHHHHTCCEEECCTTTC------------TTHHHHHHHHHHHHHHHHH
T ss_pred             -------CHHHHHHHHHHcCCeEEEEeCCCC------------CCHHHHHHHHHHHHHHhhh
Confidence                   012267888889999999999999            9999999999998865543

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.95  E-value=7e-28  Score=205.74  Aligned_cols=164  Identities=18%  Similarity=0.219  Sum_probs=134.6

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ....+||+|+|++|||||||+++|.++.+...+.+|.+..+. ..+..++..+.+.+|||+|++. ..++..+++.+|++
T Consensus        25 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~i  102 (196)
T 2atv_A           25 KSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYR-HQATIDDEVVSMEILDTAGQED-TIQREGHMRWGEGF  102 (196)
T ss_dssp             --CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCCCCC-CHHHHHHHHHCSEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCCceEE-EEEEECCEEEEEEEEECCCCCc-ccchhhhhccCCEE
Confidence            345689999999999999999999999988788888886653 3344566678899999999988 66677889999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      |+|||++++.+|+.+..|+..+...   ...|+++|+||+|+...        +.+                        
T Consensus       103 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~--------~~v------------------------  150 (196)
T 2atv_A          103 VLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHS--------RQV------------------------  150 (196)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGG--------CCS------------------------
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccccc--------ccc------------------------
Confidence            9999999999999999999888664   24489999999999532        111                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCch-hHHHHHHHHHHhcccC
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQ-GVERLYGALSAHMWPG  265 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~-~i~~l~~~L~~~~~~~  265 (289)
                        .        .+.+..++..++++|++|||+++            . |++++|.+|++.+...
T Consensus       151 --~--------~~~~~~~~~~~~~~~~~~Sa~~g------------~~gi~~l~~~l~~~i~~~  192 (196)
T 2atv_A          151 --S--------TEEGEKLATELACAFYECSACTG------------EGNITEIFYELCREVRRR  192 (196)
T ss_dssp             --C--------HHHHHHHHHHHTSEEEECCTTTC------------TTCHHHHHHHHHHHHHHH
T ss_pred             --C--------HHHHHHHHHHhCCeEEEECCCcC------------CcCHHHHHHHHHHHHHhh
Confidence              1        12267888888999999999999            9 9999999999887643

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=99.95  E-value=1.3e-28  Score=208.14  Aligned_cols=164  Identities=15%  Similarity=0.091  Sum_probs=131.3

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCC-----------CCCcceEEeeEEe-ecCcceEEEEEEEcCCchhhhc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDAS-----------DSSSELLVNGWTI-NTKYYTADVSLWMAHLHEEFSI  113 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~-----------~~t~~~~~~~~~i-~~~~~~~~l~I~Dt~G~e~~~~  113 (289)
                      ....+||+|+|++|||||||++.+. +.+...+           .+|.+.++....+ ..++..+.+.+|||||++.|..
T Consensus        11 ~~~~~ki~vvG~~~~GKssL~~~l~-~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~   89 (198)
T 3t1o_A           11 REINFKIVYYGPGLSGKTTNLKWIY-SKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFYNA   89 (198)
T ss_dssp             TEEEEEEEEECSTTSSHHHHHHHHH-HTSCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCSCSH
T ss_pred             cccccEEEEECCCCCCHHHHHHHHH-hhccccccccccccccccccceeeeecccccccccCCceEEEEEeCCChHHHHH
Confidence            3456899999999999999996554 4544442           3455555554444 4566778999999999999999


Q ss_pred             cccccccCccEEEEEEeCC------CHhhHHHHHHHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCC
Q 040295          114 RSLPISDQLTALVMVFNLN------DLSTLDALKHWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSA  186 (289)
Q Consensus       114 ~~~~~~~~ad~vIlV~Dv~------~~~S~~~l~~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~  186 (289)
                      ++..+++.+|++|+|||++      +.++|+.+..|+..++... ..|+++||||+|+....                  
T Consensus        90 ~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~piilv~NK~Dl~~~~------------------  151 (198)
T 3t1o_A           90 SRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLDDVPIVIQVNKRDLPDAL------------------  151 (198)
T ss_dssp             HHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTCCTTSSCEEEEEECTTSTTCC------------------
T ss_pred             HHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhccccCCCCEEEEEEchhccccc------------------
Confidence            9999999999999999999      6788889999999885443 33999999999995421                  


Q ss_pred             CCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          187 DPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       187 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                        +        .+.+.+++..+++ +|++|||++|            .|++++|++|++.+...
T Consensus       152 ------------------~--------~~~~~~~~~~~~~~~~~~~Sa~~~------------~gv~~l~~~l~~~i~~~  193 (198)
T 3t1o_A          152 ------------------P--------VEMVRAVVDPEGKFPVLEAVATEG------------KGVFETLKEVSRLVLAR  193 (198)
T ss_dssp             ------------------C--------HHHHHHHHCTTCCSCEEECBGGGT------------BTHHHHHHHHHHHHHHH
T ss_pred             ------------------C--------HHHHHHHHHhcCCceEEEEecCCC------------cCHHHHHHHHHHHHHHH
Confidence                              1        1126788888999 9999999999            99999999999988765


Q ss_pred             c
Q 040295          266 M  266 (289)
Q Consensus       266 ~  266 (289)
                      .
T Consensus       194 ~  194 (198)
T 3t1o_A          194 V  194 (198)
T ss_dssp             H
T ss_pred             h
Confidence            4

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.95  E-value=1.8e-27  Score=196.57  Aligned_cols=161  Identities=16%  Similarity=0.199  Sum_probs=133.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||+++|.++.+...+.++.+..+.. .+...+..+.+.+|||||++.+..+...+++.+|++|+|
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~-~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v   81 (172)
T 2erx_A            3 DYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQ-VISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILV   81 (172)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEEE-EEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccEEE-EEEECCEEEEEEEEECCCchhhHHHHHHhcccCCEEEEE
Confidence            4899999999999999999999998877777777766532 334455667899999999999998888899999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcC----CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQK----FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~----~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      ||++++.+++.+..|+..+....    ..|+++|+||+|+.+...        +                          
T Consensus        82 ~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~--------v--------------------------  127 (172)
T 2erx_A           82 YSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSRE--------V--------------------------  127 (172)
T ss_dssp             EETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCC--------S--------------------------
T ss_pred             EECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccccccc--------c--------------------------
Confidence            99999999999999988876542    348999999999953211        1                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                      .        ...+..++..++++|+++||+++            .|++++|++|.+.+..
T Consensus       128 ~--------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~~~  167 (172)
T 2erx_A          128 Q--------SSEAEALARTWKCAFMETSAKLN------------HNVKELFQELLNLEKR  167 (172)
T ss_dssp             C--------HHHHHHHHHHHTCEEEECBTTTT------------BSHHHHHHHHHHTCCS
T ss_pred             C--------HHHHHHHHHHhCCeEEEecCCCC------------cCHHHHHHHHHHHHhh
Confidence            0        11256788888999999999999            9999999999986644

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=99.95  E-value=2.4e-27  Score=204.58  Aligned_cols=174  Identities=14%  Similarity=0.205  Sum_probs=135.4

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      .+.+||+|+|++|||||||+++|.++.+...+.++.+..+ ...+..++..+.+.+|||||++.|..+...+++.+|++|
T Consensus        28 ~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i  106 (204)
T 4gzl_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFL  106 (204)
T ss_dssp             --CEEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSEEEE-EEEEECC-CEEEEEEEEECCSGGGTTTGGGGCTTCSEEE
T ss_pred             CCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeeccee-EEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEE
Confidence            4569999999999999999999999998877777776544 445566777888999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHH-HHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          127 MVFNLNDLSTLDALK-HWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~-~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      +|||++++.+|+.+. .|+..+..... .|+++||||+|+.....    .......   .                    
T Consensus       107 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----~~~~~~~---~--------------------  159 (204)
T 4gzl_A          107 ICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKD----TIEKLKE---K--------------------  159 (204)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHCSSCCEEEEEECHHHHTCHH----HHHHHHH---T--------------------
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEechhhccchh----hhhhhhc---c--------------------
Confidence            999999999999997 89998877643 38999999999964321    0111100   0                    


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                      .   ........+..++...++ +|++|||++|            .||+++|++|.+.++
T Consensus       160 ~---~~~v~~~~~~~~~~~~~~~~~~~~SA~~g------------~gi~~l~~~l~~~~l  204 (204)
T 4gzl_A          160 K---LTPITYPQGLAMAKEIGAVKYLECSALTQ------------RGLKTVFDEAIRAVL  204 (204)
T ss_dssp             T---CCCCCHHHHHHHHHHTTCSEEEECCTTTC------------TTHHHHHHHHHHTTC
T ss_pred             c---cccccHHHHHHHHHhcCCcEEEEeeCCCC------------CCHHHHHHHHHHHhC
Confidence            0   000112347889999987 5999999999            999999999998653

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=99.95  E-value=1.3e-27  Score=207.15  Aligned_cols=168  Identities=17%  Similarity=0.214  Sum_probs=138.6

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecC-cceEEEEEEEcCCchhhhccccccccCccE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTK-YYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~-~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      ....+||+|+|++|||||||+++|+++.+...+.++.+..+....+... +..+.+.+|||+|++.+..+...+++.+|+
T Consensus         8 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (218)
T 4djt_A            8 RELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGASG   87 (218)
T ss_dssp             --CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHHHHTTCSE
T ss_pred             ccCccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHHHhhcCCE
Confidence            3456899999999999999999999998887778888877766655443 444889999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      +|+|||++++.+|+.+..|+..+....  ..|+++|+||+|+...        +.+                        
T Consensus        88 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--------~~~------------------------  135 (218)
T 4djt_A           88 AILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNR--------QKI------------------------  135 (218)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC------------C------------------------
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccc--------ccc------------------------
Confidence            999999999999999999999887653  2489999999999542        111                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcc
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMV  267 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~  267 (289)
                        .        ...+..++...+++|++|||++|            .|++++|.+|.+.+.....
T Consensus       136 --~--------~~~~~~~~~~~~~~~~~~Sa~~g------------~gv~~l~~~l~~~~~~~~~  178 (218)
T 4djt_A          136 --S--------KKLVMEVLKGKNYEYFEISAKTA------------HNFGLPFLHLARIFTGRPD  178 (218)
T ss_dssp             --C--------HHHHHHHTTTCCCEEEEEBTTTT------------BTTTHHHHHHHHHHHCCTT
T ss_pred             --C--------HHHHHHHHHHcCCcEEEEecCCC------------CCHHHHHHHHHHHHhcccc
Confidence              1        12267788888999999999999            9999999999998866543

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.95  E-value=2.9e-27  Score=201.01  Aligned_cols=163  Identities=17%  Similarity=0.188  Sum_probs=134.9

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||+|+|++|||||||+++|.++.+...+.++.+..+. ..+..++..+.+.+|||||++.|..++..+++.+|++|
T Consensus         6 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   84 (199)
T 2gf0_A            6 SNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYR-QVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFI   84 (199)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEEE-EEEEETTEEEEEEEEECCGGGSCHHHHHHHHHHCSEEE
T ss_pred             CCeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCcccccee-EEEEECCEEEEEEEEeCCChHHhHHHHHHhhccCCEEE
Confidence            34589999999999999999999999988777788776554 33445566788999999999999988888999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcC----CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQK----FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~----~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      +|||++++.+|+.+..|+..+....    ..|+++|+||+|+....         +                        
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~~~---------~------------------------  131 (199)
T 2gf0_A           85 LVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQRE---------V------------------------  131 (199)
T ss_dssp             EEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSSCS---------S------------------------
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCccc---------c------------------------
Confidence            9999999999999998887775542    34899999999996311         0                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                        .        ...+..++..++++|+++||++|            .|++++|++|++.+...
T Consensus       132 --~--------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~~~~  172 (199)
T 2gf0_A          132 --D--------TREAQAVAQEWKCAFMETSAKMN------------YNVKELFQELLTLETRR  172 (199)
T ss_dssp             --C--------HHHHHHHHHHHTCEEEECBTTTT------------BSHHHHHHHHHHHCSSS
T ss_pred             --C--------HHHHHHHHHHhCCeEEEEecCCC------------CCHHHHHHHHHHHHhhh
Confidence              0        11266788888999999999999            99999999999977554

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=99.95  E-value=5.9e-27  Score=193.86  Aligned_cols=162  Identities=17%  Similarity=0.156  Sum_probs=126.8

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      .+.+||+|+|++|||||||+++|.++.+. .+.+|.+.......+  .  ...+.+|||||++.+..++..+++.+|++|
T Consensus         5 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~~~~~~~--~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   79 (171)
T 1upt_A            5 TREMRILILGLDGAGKTTILYRLQVGEVV-TTIPTIGFNVETVTY--K--NLKFQVWDLGGLTSIRPYWRCYYSNTDAVI   79 (171)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHSSCC-CCCCCSSEEEEEEEE--T--TEEEEEEEECCCGGGGGGGGGGCTTCSEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-CcCCcCccceEEEEE--C--CEEEEEEECCCChhhhHHHHHHhccCCEEE
Confidence            34589999999999999999999998875 456677755544333  2  467999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      +|||++++.+|+.+..|+..+...   ...|+++|+||+|+.....     .+++                         
T Consensus        80 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~-----~~~~-------------------------  129 (171)
T 1upt_A           80 YVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMT-----SSEM-------------------------  129 (171)
T ss_dssp             EEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC-----HHHH-------------------------
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCCC-----HHHH-------------------------
Confidence            999999999999999998887554   4559999999999965321     1111                         


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                               .......++...++++++|||+++            .|++++|++|.+.+..
T Consensus       130 ---------~~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~i~~  169 (171)
T 1upt_A          130 ---------ANSLGLPALKDRKWQIFKTSATKG------------TGLDEAMEWLVETLKS  169 (171)
T ss_dssp             ---------HHHHTGGGCTTSCEEEEECCTTTC------------TTHHHHHHHHHHHHHT
T ss_pred             ---------HHHhCchhccCCceEEEECcCCCC------------cCHHHHHHHHHHHHhh
Confidence                     000011223345678999999999            9999999999987643

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=99.95  E-value=6.8e-27  Score=191.28  Aligned_cols=159  Identities=22%  Similarity=0.280  Sum_probs=133.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||+++|.++.+...+.++.+..+ ...+...+..+.+.+|||||++.+..++..+++.+|++++|
T Consensus         3 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v   81 (166)
T 2ce2_X            3 EYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   81 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCcCccccCCccceEE-EEEEEECCEEEEEEEEECCCchhhhHHHHHhhccCCEEEEE
Confidence            47999999999999999999999988777777776554 33444556678899999999999988888899999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      ||++++.+++.+..|+..+....   ..|+++|+||+|+.+.. .                                   
T Consensus        82 ~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~~~-~-----------------------------------  125 (166)
T 2ce2_X           82 FAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAART-V-----------------------------------  125 (166)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSCCC-S-----------------------------------
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhhhcc-c-----------------------------------
Confidence            99999999999999999886653   35899999999996411 0                                   


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                             ..+.+.+++..++++++++||+++            .|++++|++|.+.+.
T Consensus       126 -------~~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~~  164 (166)
T 2ce2_X          126 -------ESRQAQDLARSYGIPYIETSAKTR------------QGVEDAFYTLVREIR  164 (166)
T ss_dssp             -------CHHHHHHHHHHHTCCEEEECTTTC------------TTHHHHHHHHHHHHH
T ss_pred             -------CHHHHHHHHHHcCCeEEEecCCCC------------CCHHHHHHHHHHHHH
Confidence                   012267888889999999999999            999999999998764

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=99.95  E-value=7.6e-27  Score=200.04  Aligned_cols=161  Identities=15%  Similarity=0.161  Sum_probs=123.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCC--CCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchh-hhccccccccCccEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVN--FEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEE-FSIRSLPISDQLTAL  125 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~--~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~-~~~~~~~~~~~ad~v  125 (289)
                      .+||+|+|++|||||||+++|.+..  +...+. +.+.+++...+..++..+.+.+|||+|++. +..+...|++.++++
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~~~~   84 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXE-VLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDAY   84 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHSCCC----G-GGCTTEEEEEEEETTEEEEEEEECCCCC----CTTGGGHHHHCSEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCcCCcCcccc-ccceeEEEEEEEECCeEEEEEEEEeccCcchhhhHHHhhcccCCEE
Confidence            4899999999999999999999643  333333 344555555666677788899999999876 555677788999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      |+|||++++.+|+.+..|+..+...   ...|+++||||+|+...        +.+                        
T Consensus        85 i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~--------r~v------------------------  132 (192)
T 2cjw_A           85 LIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRX--------REV------------------------  132 (192)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGGG--------CCS------------------------
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhcc--------ccc------------------------
Confidence            9999999999999999998877654   23489999999999531        111                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                        .        ...+..++..++++|+||||++|            .||+++|++|++.+..
T Consensus       133 --~--------~~~~~~~a~~~~~~~~e~SA~~g------------~~v~~lf~~l~~~~~~  172 (192)
T 2cjw_A          133 --S--------VSEGRAXAVVFDXKFIETSAAVQ------------HNVKELFEGIVRQVRL  172 (192)
T ss_dssp             --C--------HHHHHHHHHHTTCEEEECBTTTT------------BSHHHHHHHHHHHHHH
T ss_pred             --c--------HHHHHHHHHHhCCceEEeccccC------------CCHHHHHHHHHHHHHh
Confidence              1        11256778888999999999999            9999999999988753

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=99.95  E-value=3.9e-27  Score=193.93  Aligned_cols=159  Identities=18%  Similarity=0.196  Sum_probs=121.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||+++|.++.+.. +.+|.+....  .+...  .+.+.+|||||++.+..++..+++++|++|+||
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~~-~~~t~~~~~~--~~~~~--~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   75 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGFNVE--TVEYK--NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSC-CCCCSSCCEE--EEECS--SCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcCc-ccCcCceeEE--EEEEC--CEEEEEEEcCCChhhHHHHHHHhccCCEEEEEE
Confidence            589999999999999999999988764 4567664333  33333  467999999999999998888999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      |++++++|+.+..|+..+...   ...|+++||||+|+.....     .+.+.                           
T Consensus        76 d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~-----~~~~~---------------------------  123 (164)
T 1r8s_A           76 DSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMN-----AAEIT---------------------------  123 (164)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC-----HHHHH---------------------------
T ss_pred             ECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCCCC-----HHHHH---------------------------
Confidence            999999999999999887553   3459999999999964311     11110                           


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                             ......++...++++++|||+++            .|++++|++|.+.+..
T Consensus       124 -------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~i~~  162 (164)
T 1r8s_A          124 -------DKLGLHSLRHRNWYIQATCATSG------------DGLYEGLDWLSNQLRN  162 (164)
T ss_dssp             -------HHTTGGGCSSCCEEEEECBTTTT------------BTHHHHHHHHHHHC--
T ss_pred             -------HHhCcccccCccEEEEEcccCCC------------cCHHHHHHHHHHHHhh
Confidence                   00011222234568999999999            9999999999987754

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=99.95  E-value=1.5e-26  Score=195.75  Aligned_cols=163  Identities=21%  Similarity=0.235  Sum_probs=125.7

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||+++|++|||||||+++|.++.+...+.++.+..+. ..+...+..+.+.+|||+|++.|..+...+++.++++|
T Consensus        19 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   97 (190)
T 3con_A           19 MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFL   97 (190)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCC-----------CTTCSEEE
T ss_pred             cceeEEEEECcCCCCHHHHHHHHHcCCCccccCCccceEEE-EEEEECCEEEEEEEEECCChHHHHHHHHHhhCcCCEEE
Confidence            34589999999999999999999999887777777765553 34445566788999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      +|||++++.+|+.+..|+..+....   ..|+++|+||+|+.... .                                 
T Consensus        98 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~~-~---------------------------------  143 (190)
T 3con_A           98 CVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPTRT-V---------------------------------  143 (190)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSCCC-S---------------------------------
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCccc-C---------------------------------
Confidence            9999999999999999998886653   34899999999996411 0                                 


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                               ..+.+.+++..+++++++|||+++            .|++++|++|.+.+...
T Consensus       144 ---------~~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~~~~  184 (190)
T 3con_A          144 ---------DTKQAHELAKSYGIPFIETSAKTR------------QGVEDAFYTLVREIRQY  184 (190)
T ss_dssp             ---------CHHHHHHHHHHHTCCEEECCTTTC------------TTHHHHHHHHHHHHHHH
T ss_pred             ---------CHHHHHHHHHHcCCeEEEEeCCCC------------CCHHHHHHHHHHHHHHH
Confidence                     012267888889999999999999            99999999999887643

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=99.95  E-value=1.4e-26  Score=195.31  Aligned_cols=163  Identities=16%  Similarity=0.158  Sum_probs=127.2

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      .+.+||+++|++|||||||+++|.++. ...+.+|.+.......+  +  .+.+.+|||||++.+...+..+++.+|++|
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~t~~~~~~~~~~--~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   90 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED-VDTISPTLGFNIKTLEH--R--GFKLNIWDVGGQKSLRSYWRNYFESTDGLI   90 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC-CSSCCCCSSEEEEEEEE--T--TEEEEEEEECCSHHHHTTGGGGCTTCSEEE
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC-CCcccccCccceEEEEE--C--CEEEEEEECCCCHhHHHHHHHHhcCCCEEE
Confidence            456899999999999999999999888 56677788765544433  3  467999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      +|||++++.+|+.+..|+..+...   ...|+++|+||+|+...... .+..+..                         
T Consensus        91 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~-~~~~~~~-------------------------  144 (186)
T 1ksh_A           91 WVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSC-NAIQEAL-------------------------  144 (186)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCH-HHHHHHT-------------------------
T ss_pred             EEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCCCCH-HHHHHHh-------------------------
Confidence            999999999999999999887554   44599999999999653210 0000000                         


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                   ....+...++++++|||+++            .|++++|++|.+.+..+
T Consensus       145 -------------~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~i~~~  181 (186)
T 1ksh_A          145 -------------ELDSIRSHHWRIQGCSAVTG------------EDLLPGIDWLLDDISSR  181 (186)
T ss_dssp             -------------TGGGCCSSCEEEEECCTTTC------------TTHHHHHHHHHHHHHTC
T ss_pred             -------------ChhhccCCceEEEEeeCCCC------------CCHHHHHHHHHHHHHhc
Confidence                         00111234678999999999            99999999999877544

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=99.95  E-value=7.9e-27  Score=200.66  Aligned_cols=114  Identities=18%  Similarity=0.118  Sum_probs=88.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +.+||+++|++|||||||+++|.++.+. .+.+|.+.......  .++  +.+.+|||||++.++.++..+++.+|++|+
T Consensus        24 ~~~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~t~~~~~~~~~--~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~   98 (198)
T 1f6b_A           24 KTGKLVFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPTSEELT--IAG--MTFTTFDLGGHIQARRVWKNYLPAINGIVF   98 (198)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSCEEEE--ETT--EEEEEEEECC----CCGGGGGGGGCSEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCCCC-ccCCCCCceeEEEE--ECC--EEEEEEECCCcHhhHHHHHHHHhcCCEEEE
Confidence            3479999999999999999999988874 45667665543333  333  689999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLP  166 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~  166 (289)
                      |||++++++|+.+..|+..+...   ...|+++||||+|+..
T Consensus        99 v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  140 (198)
T 1f6b_A           99 LVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE  140 (198)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT
T ss_pred             EEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCccc
Confidence            99999999999999999888654   3459999999999964

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=99.94  E-value=1.1e-26  Score=197.20  Aligned_cols=164  Identities=16%  Similarity=0.166  Sum_probs=128.4

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      .+.+||+|+|++|||||||+++|.++.+...+.+|.+..+....    ...+.+.+|||||++.|..++..+++.+|++|
T Consensus        20 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii   95 (188)
T 1zd9_A           20 KEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRKIT----KGNVTIKLWDIGGQPRFRSMWERYCRGVSAIV   95 (188)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEE----ETTEEEEEEEECCSHHHHTTHHHHHTTCSEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHcCCCCCccCCCCceeEEEEE----eCCEEEEEEECCCCHhHHHHHHHHHccCCEEE
Confidence            34589999999999999999999999988778888887765432    23568999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      +|||++++.+|+.+..|+..+...   ...|+++|+||+|+.....     .+++.                        
T Consensus        96 ~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~-----~~~~~------------------------  146 (188)
T 1zd9_A           96 YMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALD-----EKELI------------------------  146 (188)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCC-----HHHHH------------------------
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccCCC-----HHHHH------------------------
Confidence            999999999999999999887553   4458999999999964311     11110                        


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                ......++...++++++|||++|            .|++++|++|.+.+...
T Consensus       147 ----------~~~~~~~~~~~~~~~~~~SA~~g------------~gv~~l~~~l~~~~~~~  186 (188)
T 1zd9_A          147 ----------EKMNLSAIQDREICCYSISCKEK------------DNIDITLQWLIQHSKSR  186 (188)
T ss_dssp             ----------HHTTGGGCCSSCEEEEECCTTTC------------TTHHHHHHHHHHTCC--
T ss_pred             ----------HHhChhhhccCCeeEEEEECCCC------------CCHHHHHHHHHHHHHhh
Confidence                      00001112234568999999999            99999999999877543

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=99.94  E-value=5.4e-27  Score=198.53  Aligned_cols=162  Identities=17%  Similarity=0.199  Sum_probs=123.0

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||+++|++|||||||+++|.+..+ ..+.+|.+.......+  +  .+.+.+|||+|++.|+..+..+++.+|++|
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~~~-~~~~~t~g~~~~~~~~--~--~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i   88 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASEDI-SHITPTQGFNIKSVQS--Q--GFKLNVWDIGGQRKIRPYWRSYFENTDILI   88 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCC-EEEEEETTEEEEEEEE--T--TEEEEEEECSSCGGGHHHHHHHHTTCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCC-CcccCcCCeEEEEEEE--C--CEEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            4568999999999999999999998865 3456677754433333  3  467999999999999988889999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      +|||++++.+|+.+..|+..+...   ...|+++||||+|+...... .+..+.+                         
T Consensus        89 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~-~~~~~~~-------------------------  142 (181)
T 1fzq_A           89 YVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPA-SEIAEGL-------------------------  142 (181)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCCH-HHHHHHT-------------------------
T ss_pred             EEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccCCCH-HHHHHHh-------------------------
Confidence            999999999999999998877443   34599999999999643211 0000100                         


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                   ....+...+++|++|||++|            .|++++|++|++.+..
T Consensus       143 -------------~~~~~~~~~~~~~~~Sa~~g------------~gi~~l~~~l~~~~~~  178 (181)
T 1fzq_A          143 -------------NLHTIRDRVWQIQSCSALTG------------EGVQDGMNWVCKNVNA  178 (181)
T ss_dssp             -------------TGGGCCSSCEEEEECCTTTC------------TTHHHHHHHHHHTC--
T ss_pred             -------------CchhccCCceEEEEccCCCC------------CCHHHHHHHHHHHHHh
Confidence                         00111234578999999999            9999999999987754

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=99.94  E-value=3.9e-27  Score=199.64  Aligned_cols=166  Identities=17%  Similarity=0.273  Sum_probs=123.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcC--CCCCCCCCCcceEEeeEEeec---CcceEEEEEEEcCCchhhhccccccccCcc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSV--NFEDASDSSSELLVNGWTINT---KYYTADVSLWMAHLHEEFSIRSLPISDQLT  123 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~--~~~~~~~~t~~~~~~~~~i~~---~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad  123 (289)
                      .+||+|+|++|||||||+++|.+.  .+...+.+|.+.++..+.+..   .+..+.+.+|||+|++.|..+...++++++
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~   81 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRA   81 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHTCC-----------CSEEEEEEEC---------CEEEEEEECSHHHHHTTSHHHHHHSE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCCHHHHHhhHHHccCCc
Confidence            479999999999999999999985  455567788888876665542   234678999999999999999989999999


Q ss_pred             EEEEEEeCCCH-hhHHHHHHHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          124 ALVMVFNLNDL-STLDALKHWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       124 ~vIlV~Dv~~~-~S~~~l~~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      ++++|||++++ .+|+.+..|+..+.... ..|+++||||+|+..        .+.+.                      
T Consensus        82 ~~i~v~d~~~~~~s~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~--------~~~~~----------------------  131 (184)
T 2zej_A           82 LYLAVYDLSKGQAEVDAMKPWLFNIKARASSSPVILVGTHLDVSD--------EKQRK----------------------  131 (184)
T ss_dssp             EEEEEEEGGGCHHHHHTHHHHHHHHHHHCTTCEEEEEEECGGGCC--------HHHHH----------------------
T ss_pred             EEEEEEeCCcchhHHHHHHHHHHHHHhhCCCCcEEEEEECCCccc--------chhhH----------------------
Confidence            99999999987 68999999999987654 459999999999953        22220                      


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcCCe----EEEeecCCCcccccccCCCCch-hHHHHHHHHHHhcccC
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHRIE----YIEACASNVDFDKCLSIDGDSQ-GVERLYGALSAHMWPG  265 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~----~ie~Sa~~~~~~~~~~~~~~~~-~i~~l~~~L~~~~~~~  265 (289)
                               ......+..++..++++    |+++||+++            . +++++++.|.+.+...
T Consensus       132 ---------~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~------------~~~~~~l~~~i~~~~~~~  179 (184)
T 2zej_A          132 ---------ACMSKITKELLNKRGFPAIRDYHFVNATEE------------SDALAKLRKTIINESLNF  179 (184)
T ss_dssp             ---------HHHHHHHHHTTTCTTSCEEEEEEECCTTSC------------CHHHHHHHHHHHHHHHCC
T ss_pred             ---------HHHHHHHHHHHHhcCCcchhheEEEecccC------------chhHHHHHHHHHHHHhcc
Confidence                     00112256777777886    999999999            7 9999999998876553

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.94  E-value=8.2e-27  Score=197.40  Aligned_cols=158  Identities=15%  Similarity=0.142  Sum_probs=121.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +.+||+|+|++|||||||+++|.++.+. .+.+|.+.......+  +  .+.+.+|||||++++..++..+++.+|++|+
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~~~~~~~--~--~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~   89 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQFSMNEVV-HTSPTIGSNVEEIVI--N--NTRFLMWDIGGQESLRSSWNTYYTNTEFVIV   89 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTTSCE-EEECCSCSSCEEEEE--T--TEEEEEEECCC----CGGGHHHHTTCCEEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCC-cCcCCCccceEEEEE--C--CEEEEEEECCCCHhHHHHHHHHhcCCCEEEE
Confidence            3589999999999999999999998876 566677654433333  3  3789999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |||++++++|+.+..|+..+...   ...|+++|+||+|+.....     .+++                          
T Consensus        90 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~-----~~~i--------------------------  138 (187)
T 1zj6_A           90 VVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMT-----VAEI--------------------------  138 (187)
T ss_dssp             EEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCC-----HHHH--------------------------
T ss_pred             EEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcCCCC-----HHHH--------------------------
Confidence            99999999999999999988664   4559999999999964211     1111                          


Q ss_pred             CCCCCcHHHHHHHHHH----HHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          205 GDEEPSWEIRRSCLEW----CTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~----~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                  ...+    +...++++++|||++|            .|++++|++|++.+...
T Consensus       139 ------------~~~~~~~~~~~~~~~~~~~Sa~~g------------~gi~~l~~~l~~~~~~~  179 (187)
T 1zj6_A          139 ------------SQFLKLTSIKDHQWHIQACCALTG------------EGLCQGLEWMMSRLKIR  179 (187)
T ss_dssp             ------------HHHHTGGGCCSSCEEEEECBTTTT------------BTHHHHHHHHHHHHCC-
T ss_pred             ------------HHHhChhhhcCCCcEEEEccCCCC------------cCHHHHHHHHHHHHHHH
Confidence                        1111    1234678999999999            99999999999977554

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=99.94  E-value=8.2e-27  Score=196.67  Aligned_cols=162  Identities=15%  Similarity=0.138  Sum_probs=123.0

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCc
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQL  122 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~a  122 (289)
                      .....+.+||+|+|++|||||||+++|.++.+ ..+.+|.+..+....+  +  .+.+.+|||+|++.+..++..+++.+
T Consensus        15 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~t~~~~~~~~~~--~--~~~~~i~Dt~G~~~~~~~~~~~~~~~   89 (181)
T 2h17_A           15 VPRGSQEHKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNVEEIVI--N--NTRFLMWDIGGQESLRSSWNTYYTNT   89 (181)
T ss_dssp             ------CEEEEEEEETTSSHHHHHHHHHTTSC-EEEECCSSSSCEEEEE--T--TEEEEEEEESSSGGGTCGGGGGGTTC
T ss_pred             cCCCCceeEEEEECCCCCCHHHHHHHHhcCCC-CccCCcCceeeEEEEE--C--CEEEEEEECCCCHhHHHHHHHHhccC
Confidence            33455679999999999999999999999988 4566677655443333  3  36899999999999999999999999


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCccc
Q 040295          123 TALVMVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETE  199 (289)
Q Consensus       123 d~vIlV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~  199 (289)
                      |++|+|||++++.+|+.+..|+..+...   ...|+++|+||+|+.....     .+++                     
T Consensus        90 d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~-----~~~i---------------------  143 (181)
T 2h17_A           90 EFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMT-----VAEI---------------------  143 (181)
T ss_dssp             CEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC-----HHHH---------------------
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCcccCCC-----HHHH---------------------
Confidence            9999999999999999999999887654   4559999999999964211     1111                     


Q ss_pred             CCCCCCCCCCcHHHHHH-HHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          200 GSSLLGDEEPSWEIRRS-CLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       200 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                    .+. ....+...++++++|||+++            .|++++|++|++.
T Consensus       144 --------------~~~~~~~~~~~~~~~~~~~Sa~~g------------~gi~~l~~~l~~~  180 (181)
T 2h17_A          144 --------------SQFLKLTSIKDHQWHIQACCALTG------------EGLCQGLEWMMSR  180 (181)
T ss_dssp             --------------HHHTTGGGCCSSCEEEEECBTTTT------------BTHHHHHHHHHTC
T ss_pred             --------------HHHhCcccccCCceEEEEccCCCC------------cCHHHHHHHHHhh
Confidence                          000 01112234678999999999            9999999999865

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=99.94  E-value=4.7e-26  Score=194.36  Aligned_cols=165  Identities=16%  Similarity=0.109  Sum_probs=122.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +.+||+++|++|||||||+++|.++.+. .+.+|.+.......+  ++  +.+.+|||||++.++.++..+++.+|++|+
T Consensus        22 ~~~ki~~vG~~~vGKSsli~~l~~~~~~-~~~~t~~~~~~~~~~--~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~   96 (190)
T 1m2o_B           22 KHGKLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPTSEELAI--GN--IKFTTFDLGGHIQARRLWKDYFPEVNGIVF   96 (190)
T ss_dssp             --CEEEEEESTTSSHHHHHHHHHHSCCC-CCCCCCSCEEEEEEE--TT--EEEEEEECCCSGGGTTSGGGGCTTCCEEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCC-ccccCCCCCeEEEEE--CC--EEEEEEECCCCHHHHHHHHHHHhcCCEEEE
Confidence            3479999999999999999999998874 466777765443333  33  689999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |||++++.+|+.+..|+..+...   ...|+++||||+|+....  ..+..++..              +...       
T Consensus        97 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~~~~~~--------------~~~~-------  153 (190)
T 1m2o_B           97 LVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAV--SEAELRSAL--------------GLLN-------  153 (190)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCC--CHHHHHHHT--------------TCSS-------
T ss_pred             EEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcCCC--CHHHHHHHh--------------CCcc-------
Confidence            99999999999999999888543   445999999999996521  111111110              0000       


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                      ....        .. ++...+++|++|||++|            .|++++|++|++.
T Consensus       154 ~~~~--------~~-~~~~~~~~~~~~Sa~~g------------~gi~~l~~~l~~~  189 (190)
T 1m2o_B          154 TTGS--------QR-IEGQRPVEVFMCSVVMR------------NGYLEAFQWLSQY  189 (190)
T ss_dssp             CCC------------CCSSCCEEEEECBTTTT------------BSHHHHHHHHHTT
T ss_pred             cccc--------cc-ccccceEEEEEeECCcC------------CCHHHHHHHHHhh
Confidence            0000        00 12234678999999999            9999999999865

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=99.94  E-value=2.9e-26  Score=194.50  Aligned_cols=159  Identities=14%  Similarity=0.121  Sum_probs=124.8

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCC-CCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCcc
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVN-FEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLT  123 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~-~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad  123 (289)
                      ...+.+||+|+|++|||||||+++|.+.. +...+.+|.+.......  .+  .+.+.+|||+|++.+..++..+++.+|
T Consensus        17 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~~~~~~~~--~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~d   92 (190)
T 2h57_A           17 RGSKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIGFSIEKFK--SS--SLSFTVFDMSGQGRYRNLWEHYYKEGQ   92 (190)
T ss_dssp             ----CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSSEEEEEEE--CS--SCEEEEEEECCSTTTGGGGGGGGGGCS
T ss_pred             CCCCccEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCccceeEEEEE--EC--CEEEEEEECCCCHHHHHHHHHHHhcCC
Confidence            34556899999999999999999999987 56667778875544333  33  267999999999999999999999999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHhhhc-----CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcc
Q 040295          124 ALVMVFNLNDLSTLDALKHWVPSIDLQ-----KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISET  198 (289)
Q Consensus       124 ~vIlV~Dv~~~~S~~~l~~~~~~i~~~-----~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~  198 (289)
                      ++|+|||++++.+|+.+..|+..+...     ...|+++|+||+|+.....     ..+                     
T Consensus        93 ~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~-----~~~---------------------  146 (190)
T 2h57_A           93 AIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDAVT-----SVK---------------------  146 (190)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTTCCC-----HHH---------------------
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcccCCC-----HHH---------------------
Confidence            999999999999999999999888655     3458999999999964211     011                     


Q ss_pred             cCCCCCCCCCCcHHHHHHHHHHHH-----HcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          199 EGSSLLGDEEPSWEIRRSCLEWCT-----EHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                        +.+++.     ..++++++|||+++            .|++++|++|.+.+.
T Consensus       147 ------------------~~~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~i~  186 (190)
T 2h57_A          147 ------------------VSQLLCLENIKDKPWHICASDAIKG------------EGLQEGVDWLQDQIQ  186 (190)
T ss_dssp             ------------------HHHHHTGGGCCSSCEEEEECBTTTT------------BTHHHHHHHHHHHC-
T ss_pred             ------------------HHHHhChhhccCCceEEEEccCCCC------------cCHHHHHHHHHHHHH
Confidence                              222221     23678999999999            999999999998663

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=99.94  E-value=2.3e-26  Score=196.65  Aligned_cols=163  Identities=18%  Similarity=0.182  Sum_probs=119.8

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ..+.+||+|+|++|||||||+++|.++.+. .+.+|.+....  .+..  ..+.+.+|||||++.|..++..+++.+|++
T Consensus        26 ~~~~~ki~v~G~~~vGKSsLi~~l~~~~~~-~~~~t~~~~~~--~~~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~i  100 (192)
T 2b6h_A           26 GKKQMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEY--KNICFTVWDVGGQDKIRPLWRHYFQNTQGL  100 (192)
T ss_dssp             TTSCEEEEEEESTTSSHHHHHHHHCSSCCE-EEEEETTEEEE--EEEE--TTEEEEEEECC-----CTTHHHHHHTCCEE
T ss_pred             cCCccEEEEECCCCCCHHHHHHHHHhCCcc-ccCCcCceeEE--EEEE--CCEEEEEEECCCCHhHHHHHHHHhccCCEE
Confidence            345699999999999999999999988875 34556664333  2332  247899999999999999888899999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      |+|||++++++|+.+..|+..+...   ...|+++|+||+|+.....     .+++.                       
T Consensus       101 ilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~-----~~~i~-----------------------  152 (192)
T 2b6h_A          101 IFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNAMP-----VSELT-----------------------  152 (192)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC-----HHHHH-----------------------
T ss_pred             EEEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCCCC-----HHHHH-----------------------
Confidence            9999999999999999999887553   3459999999999964311     11110                       


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                 ......++...++++++|||++|            .|++++|++|++.+..
T Consensus       153 -----------~~~~~~~~~~~~~~~~~~SA~~g------------~gi~~l~~~l~~~i~~  191 (192)
T 2b6h_A          153 -----------DKLGLQHLRSRTWYVQATCATQG------------TGLYDGLDWLSHELSK  191 (192)
T ss_dssp             -----------HHTTGGGCSSCCEEEEECBTTTT------------BTHHHHHHHHHHHTTT
T ss_pred             -----------HHhCcccccCCceEEEECcCCCc------------CCHHHHHHHHHHHHhc
Confidence                       00011222234568999999999            9999999999987643

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=99.94  E-value=1.3e-25  Score=192.62  Aligned_cols=165  Identities=18%  Similarity=0.310  Sum_probs=137.7

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      +..+||+|+|++|||||||+++|.+..+...+.+|.+..+....+..++..+.+.+|||+|++.++.+...+++.+++++
T Consensus         3 ~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i   82 (199)
T 2f9l_A            3 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGAL   82 (199)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHHhcCCEEE
Confidence            44589999999999999999999999988788888887777677777788889999999999999988888899999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      +|||+++..+|+.+..|+..+....  ..|+++|+||+|+...        +.+                          
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~--------~~~--------------------------  128 (199)
T 2f9l_A           83 LVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL--------RAV--------------------------  128 (199)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG--------CCS--------------------------
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccc--------cCc--------------------------
Confidence            9999999999999999998876542  3489999999999431        111                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                      .        ...+..++...++.+++|||+++            .|++++|+.|.+.+...
T Consensus       129 ~--------~~~a~~l~~~~~~~~~d~Sal~~------------~~i~~l~~~l~~~~~~~  169 (199)
T 2f9l_A          129 P--------TDEARAFAEKNNLSFIETSALDS------------TNVEEAFKNILTEIYRI  169 (199)
T ss_dssp             C--------HHHHHHHHHHTTCEEEECCTTTC------------TTHHHHHHHHHHHHHHH
T ss_pred             C--------HHHHHHHHHHcCCeEEEEeCCCC------------CCHHHHHHHHHHHHHHH
Confidence            0        11277888899999999999999            99999999999888654

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.94  E-value=2.7e-26  Score=194.28  Aligned_cols=162  Identities=15%  Similarity=0.157  Sum_probs=125.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +.+||+|+|++|||||||+++|..+.+. .+.+|.+........  .  .+.+.+|||||++.+..++..+++.+|++|+
T Consensus        21 ~~~~i~v~G~~~~GKssli~~l~~~~~~-~~~~t~~~~~~~~~~--~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~   95 (189)
T 2x77_A           21 RKIRVLMLGLDNAGKTSILYRLHLGDVV-TTVPTVGVNLETLQY--K--NISFEVWDLGGQTGVRPYWRCYFSDTDAVIY   95 (189)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCCSCCE-EECSSTTCCEEEEEE--T--TEEEEEEEECCSSSSCCCCSSSSTTCCEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCC-CcCCCCceEEEEEEE--C--CEEEEEEECCCCHhHHHHHHHHhhcCCEEEE
Confidence            4589999999999999999999988875 355677654443333  2  4689999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |||++++++|+.+..|+..+...   ...|+++|+||+|+.....     .+++.                         
T Consensus        96 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~-----~~~~~-------------------------  145 (189)
T 2x77_A           96 VVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDAAS-----EAEIA-------------------------  145 (189)
T ss_dssp             EEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTCCC-----HHHHH-------------------------
T ss_pred             EEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCCCC-----HHHHH-------------------------
Confidence            99999999999999998887554   3459999999999964321     11110                         


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                               ......++...++++++|||+++            .|++++|++|.+.+...
T Consensus       146 ---------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~i~~~  185 (189)
T 2x77_A          146 ---------EQLGVSSIMNRTWTIVKSSSKTG------------DGLVEGMDWLVERLREQ  185 (189)
T ss_dssp             ---------HHTTGGGCCSSCEEEEECCTTTC------------TTHHHHHHHHHHHHHHT
T ss_pred             ---------HHhChhhccCCceEEEEccCCCc------------cCHHHHHHHHHHHHHhc
Confidence                     00011223344678999999999            99999999999877543

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=99.93  E-value=9.7e-26  Score=192.89  Aligned_cols=170  Identities=15%  Similarity=0.121  Sum_probs=120.7

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEE--eeEEeec-CcceEEEEEEEcCCchhhhccc---c
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLV--NGWTINT-KYYTADVSLWMAHLHEEFSIRS---L  116 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~--~~~~i~~-~~~~~~l~I~Dt~G~e~~~~~~---~  116 (289)
                      .....+.+||+|+|++|||||||++++.+. +...  ++.+..+  ....... .+..+.+.+|||+|++.|....   .
T Consensus        14 ~~~~~~~~ki~~vG~~~vGKTsLi~~l~~~-~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~   90 (196)
T 3llu_A           14 LYFQGSKPRILLMGLRRSGKSSIQKVVFHK-MSPN--ETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTFDYE   90 (196)
T ss_dssp             ------CCEEEEEESTTSSHHHHHHHHHSC-CCGG--GGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCTTCCHH
T ss_pred             CcccCcceEEEEECCCCCCHHHHHHHHHhc-CCCc--ceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhhhhhcc
Confidence            344556799999999999999999988764 3332  2333322  2222221 2456789999999999998776   7


Q ss_pred             ccccCccEEEEEEeCCCH--hhHHHHHHHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCC
Q 040295          117 PISDQLTALVMVFNLNDL--STLDALKHWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQS  193 (289)
Q Consensus       117 ~~~~~ad~vIlV~Dv~~~--~S~~~l~~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~  193 (289)
                      .+++++|++|+|||++++  ++++.+..|+..+.... ..|+++||||+|+.+.... .+..+.+               
T Consensus        91 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~~~~piilv~nK~Dl~~~~~~-~~~~~~v---------------  154 (196)
T 3llu_A           91 MIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMNFEVFIHKVDGLSDDHK-IETQRDI---------------  154 (196)
T ss_dssp             HHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCHHHH-HHHHHHH---------------
T ss_pred             cccccCCEEEEEEECCCchHHHHHHHHHHHHHHHhcCCCCcEEEEEeccccCchhhh-hHHHhHH---------------
Confidence            899999999999999997  78888888888875433 4499999999999642100 0112223               


Q ss_pred             CCCcccCCCCCCCCCCcHHHHHHHHHHHH----HcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          194 GISETEGSSLLGDEEPSWEIRRSCLEWCT----EHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                         ..+.+..++.    ..+++|++|||++             .||+++|..|++.++
T Consensus       155 -------------------~~~~~~~~~~~~~~~~~~~~~e~Sa~~-------------~~v~~~f~~l~~~li  196 (196)
T 3llu_A          155 -------------------HQRANDDLADAGLEKLHLSFYLTSIYD-------------HSIFEAFSKVVQKLI  196 (196)
T ss_dssp             -------------------HHHHHHHHHHTTCTTSCEEEEEECTTS-------------THHHHHHHHHHHHTC
T ss_pred             -------------------HHHHHHHHHHhhhhcCCcceEEEEech-------------hhHHHHHHHHHHHhC
Confidence                               1223667777    6788999999997             699999999998764

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.93  E-value=5.6e-26  Score=190.55  Aligned_cols=160  Identities=17%  Similarity=0.140  Sum_probs=120.5

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      .+.+||+|+|++|||||||+++|.++.+ ..+.+|.+.......+  +  ...+.+|||||++.+...+..+++.+|++|
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~~~-~~~~~t~~~~~~~~~~--~--~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii   90 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIGEV-VTTKPTIGFNVETLSY--K--NLKLNVWDLGGQTSIRPYWRCYYADTAAVI   90 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEE-EEECSSTTCCEEEEEE--T--TEEEEEEEEC----CCTTGGGTTTTEEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCc-CccCCcCccceEEEEE--C--CEEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            4568999999999999999999998887 4566777755443333  2  368999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      +|||++++.+|+.+..|+..+...   ...|+++|+||+|+.....     .+++.                        
T Consensus        91 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~-----~~~i~------------------------  141 (183)
T 1moz_A           91 FVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGALS-----ASEVS------------------------  141 (183)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCCC-----HHHHH------------------------
T ss_pred             EEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCCCCC-----HHHHH------------------------
Confidence            999999999999999999888654   3449999999999964311     11110                        


Q ss_pred             CCCCCCcHHHHHH-HHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          204 LGDEEPSWEIRRS-CLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       204 ~~~~~~~~~~~~~-~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                 +. ....+...++++++|||+++            .|++++|++|.+.+.
T Consensus       142 -----------~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~~  179 (183)
T 1moz_A          142 -----------KELNLVELKDRSWSIVASSAIKG------------EGITEGLDWLIDVIK  179 (183)
T ss_dssp             -----------HHTTTTTCCSSCEEEEEEBGGGT------------BTHHHHHHHHHHHHH
T ss_pred             -----------HHhCcccccCCceEEEEccCCCC------------cCHHHHHHHHHHHHH
Confidence                       00 00011223568999999999            999999999998764

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=99.93  E-value=3.7e-25  Score=202.69  Aligned_cols=176  Identities=14%  Similarity=0.193  Sum_probs=139.1

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ....+||+++|++|||||||+++|.++.+...+.+|.+..+ ...+..++..+.+.+|||||++.|..+...+++.+|++
T Consensus       152 ~~~~~~i~i~G~~~~GKssli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~  230 (332)
T 2wkq_A          152 AKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVF  230 (332)
T ss_dssp             HTTCEEEEEEESTTSSHHHHHHHHHHSCCCCSCCCCSEEEE-EEEEEETTEEEEEEEEEECCCGGGTTTGGGGCTTCSEE
T ss_pred             ccceeEEEEECCCCCChHHHHHHHHhCCCCcccCCccccee-EEEEEECCEEEEEEEEeCCCchhhhHHHHHhccCCCEE
Confidence            34568999999999999999999999998877878877655 34455566778899999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHH-HHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          126 VMVFNLNDLSTLDALK-HWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~-~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      |+|||++++.+|+.+. .|+..+.... ..|+++||||+|+.+...    ....+..                  .    
T Consensus       231 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~----~~~~~~~------------------~----  284 (332)
T 2wkq_A          231 LICFSLVSPASFHHVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKD----TIEKLKE------------------K----  284 (332)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHCTTSCEEEEEECHHHHTCHH----HHHHHHH------------------T----
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHHhhCCCCcEEEEEEchhcccccc----hhhhccc------------------c----
Confidence            9999999999999997 7988887654 448999999999954310    0111100                  0    


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                       .   ........+..++...++ +|++|||++|            .|++++|..|++.++.
T Consensus       285 -~---~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~l~~~~~~  330 (332)
T 2wkq_A          285 -K---LTPITYPQGLAMAKEIGAVKYLECSALTQ------------RGLKTVFDEAIRAVLC  330 (332)
T ss_dssp             -T---CCCCCHHHHHHHHHHTTCSEEEECCTTTC------------TTHHHHHHHHHHHHHC
T ss_pred             -c---cccccHHHHHHHHHHcCCcEEEEecCCCC------------cCHHHHHHHHHHHHhc
Confidence             0   000112347889999997 8999999999            9999999999987754

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=99.88  E-value=7.7e-28  Score=206.72  Aligned_cols=169  Identities=14%  Similarity=0.239  Sum_probs=133.7

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||+|+|++|||||||+++|.++.+...+.+|.+..+ ...+..++..+.+.+|||||++.|..++..+++.+|++|
T Consensus        28 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii  106 (204)
T 3th5_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFL  106 (204)
Confidence            4568999999999999999999999888777777766544 334445566778899999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHH-HHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHH----HHhhhcccCCCCCcccCCCCCcccC
Q 040295          127 MVFNLNDLSTLDALK-HWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYR----RRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~-~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~----r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      +|||++++.+|+.+. .|+..+.... ..|+++|+||+|+.+.........    +.+                      
T Consensus       107 lv~D~~~~~s~~~~~~~~~~~l~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v----------------------  164 (204)
T 3th5_A          107 ICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPI----------------------  164 (204)
Confidence            999999999999997 8988887653 348999999999964321000000    011                      


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                          ..+        .+..++...++ +|++|||++|            .|++++|++|++.+
T Consensus       165 ----~~~--------~~~~~~~~~~~~~~~~vSA~~g------------~gi~~l~~~l~~~i  203 (204)
T 3th5_A          165 ----TYP--------QGLAMAKEIGAVKYLECSALTQ------------RGLKTVFDEAIRAV  203 (204)
Confidence                222        27788888888 8999999999            99999999998765

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=99.93  E-value=7.9e-25  Score=187.09  Aligned_cols=164  Identities=18%  Similarity=0.301  Sum_probs=139.5

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccE
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~  124 (289)
                      .....+||+|+|++|||||||+++|.+..+...+.+|.+.++....+..++..+.+.+||++|++++..+...+++.+++
T Consensus        25 ~~~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~  104 (191)
T 1oix_A           25 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVG  104 (191)
T ss_dssp             CCSEEEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHHTTCCE
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHhhcCCE
Confidence            34456899999999999999999999999888888999988877777778888889999999999999888888999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      +++|||+++..+|+.+..|+..+....  ..|+++|+||+|+....        .+                        
T Consensus       105 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~--------~~------------------------  152 (191)
T 1oix_A          105 ALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLR--------AV------------------------  152 (191)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC--------CS------------------------
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccccc--------cc------------------------
Confidence            999999999999999999998776542  34899999999994311        11                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                        .        ...+..++...++.+++|||+++            .|++++|+.|.+.+
T Consensus       153 --~--------~~~a~~l~~~~~~~~ld~Sald~------------~~v~~l~~~l~~~i  190 (191)
T 1oix_A          153 --P--------TDEARAFAEKNGLSFIETSALDS------------TNVEAAFQTILTEI  190 (191)
T ss_dssp             --C--------HHHHHHHHHHTTCEEEECCTTTC------------TTHHHHHHHHHHHH
T ss_pred             --C--------HHHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHh
Confidence              0        12278889999999999999999            99999999998765

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=99.92  E-value=1.8e-25  Score=200.55  Aligned_cols=164  Identities=13%  Similarity=0.169  Sum_probs=124.1

Q ss_pred             ccccCCCceEEEEcCC---------CCCHHHHHHHHhc---CCCCCCCCCCc-ceEEeeEEee--------------cCc
Q 040295           43 RASLEKRPGILIIGSS---------NVGKRTILSRLLS---VNFEDASDSSS-ELLVNGWTIN--------------TKY   95 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~---------gvGKSSLi~rl~~---~~~~~~~~~t~-~~~~~~~~i~--------------~~~   95 (289)
                      .......+||+|+|++         |||||||+++|++   ..+...+.+|. +.++....+.              .++
T Consensus        13 ~~~~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~~~   92 (255)
T 3c5h_A           13 NLYFQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDC   92 (255)
T ss_dssp             TSSCCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC------
T ss_pred             CCCCCceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeecccccccccccccccCC
Confidence            3445667999999999         9999999999999   55655555554 4443222221              245


Q ss_pred             ceEEEEEEE-----------------------cCCchhhhcccccccc---------------------CccEEEEEEeC
Q 040295           96 YTADVSLWM-----------------------AHLHEEFSIRSLPISD---------------------QLTALVMVFNL  131 (289)
Q Consensus        96 ~~~~l~I~D-----------------------t~G~e~~~~~~~~~~~---------------------~ad~vIlV~Dv  131 (289)
                      ..+.+.|||                       ++|+++|..++..+++                     ++|++|+|||+
T Consensus        93 ~~~~l~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV~D~  172 (255)
T 3c5h_A           93 VECKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGIDV  172 (255)
T ss_dssp             ---CEEEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEEEEC
T ss_pred             cEEEEEEEEccccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEEEEC
Confidence            567899999                       8889999888888887                     79999999999


Q ss_pred             CCH--hhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          132 NDL--STLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       132 ~~~--~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      +++  .+|+.+..|+..+...   ...|+++||||+|+..        .+.+                            
T Consensus       173 t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~--------~~~v----------------------------  216 (255)
T 3c5h_A          173 SRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGV--------ERYI----------------------------  216 (255)
T ss_dssp             BC----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBC--------HHHH----------------------------
T ss_pred             CCCchhhHHHHHHHHHHHHHHhccCCCCEEEEEEcccccc--------cHHH----------------------------
Confidence            998  9999999999988654   4458999999999943        2222                            


Q ss_pred             CCCcHHHHHHHHHHHHH-cCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          207 EEPSWEIRRSCLEWCTE-HRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~-~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                              ..+..++.. .+++|++|||+++            .||+++|.+|++.+
T Consensus       217 --------~~~~~~~~~~~~~~~~e~SAk~g------------~gv~elf~~l~~~l  253 (255)
T 3c5h_A          217 --------RDAHTFALSKKNLQVVETSARSN------------VNVDLAFSTLVQLI  253 (255)
T ss_dssp             --------HHHHHHHHTSSSCCEEECBTTTT------------BSHHHHHHHHHHHH
T ss_pred             --------HHHHHHHHhcCCCeEEEEECCCC------------CCHHHHHHHHHHHh
Confidence                    126777776 4789999999999            99999999998765

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.92  E-value=3e-25  Score=206.59  Aligned_cols=164  Identities=14%  Similarity=0.134  Sum_probs=121.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCC---CCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc---cccccccCccE
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFED---ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI---RSLPISDQLTA  124 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~---~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~---~~~~~~~~ad~  124 (289)
                      ||+++|++|||||||++++.++-+..   .+.+|.+..+...  .   ..++++|||||||++|+.   ....|++++++
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~v--~---~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~   75 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEHF--S---TLIDLAVMELPGQLNYFEPSYDSERLFKSVGA   75 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEEE--C---SSSCEEEEECCSCSSSCCCSHHHHHHHTTCSE
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEEE--c---cEEEEEEEECCCchhccchhhhhhhhccCCCE
Confidence            79999999999999999987664432   2567888776542  1   347899999999999964   35789999999


Q ss_pred             EEEEEeCCCH--hhHHHHHHHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          125 LVMVFNLNDL--STLDALKHWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       125 vIlV~Dv~~~--~S~~~l~~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      +|+|||++++  ++++.+..|+..+....+ .|+++||||+|+...... .+..|++                       
T Consensus        76 ~IlV~Ditd~~~~~~~~l~~~l~~~~~~~~~ipillvgNK~DL~~~~~R-~~~~R~V-----------------------  131 (331)
T 3r7w_B           76 LVYVIDSQDEYINAITNLAMIIEYAYKVNPSINIEVLIHKVDGLSEDFK-VDAQRDI-----------------------  131 (331)
T ss_dssp             EEEECCCSSCTTHHHHHHHHHHHHHHHHCTTCEEEEECCCCCSSCSHHH-HHHHHHH-----------------------
T ss_pred             EEEEEECCchHHHHHHHHHHHHHHHhhcCCCCcEEEEEECcccCchhhh-hhHHHHh-----------------------
Confidence            9999999998  444445555665554433 399999999999753100 0012334                       


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHH----cCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcc
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTE----HRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMV  267 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~----~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~  267 (289)
                                 ..+.+++++..    +++.|+||||++             .+|.++|..+++.++++..
T Consensus       132 -----------~~~~~~~la~~~~~~~~i~f~eTSAkd-------------~nV~eAFs~iv~~li~~~~  177 (331)
T 3r7w_B          132 -----------MQRTGEELLELGLDGVQVSFYLTSIFD-------------HSIYEAFSRIVQKLIPELS  177 (331)
T ss_dssp             -----------HHHHHHTTSSSSCSCCCEEEECCCSSS-------------SHHHHHHHHHHTTSSTTHH
T ss_pred             -----------hHHHHHHHHhhcccccCceEEEeccCC-------------CcHHHHHHHHHHHHHhhHH
Confidence                       22336777775    688999999986             5899999999999988754

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=99.92  E-value=2.2e-24  Score=179.53  Aligned_cols=153  Identities=16%  Similarity=0.043  Sum_probs=111.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc------ccccccc--
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI------RSLPISD--  120 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~------~~~~~~~--  120 (289)
                      .+||+++|++|||||||+++|.+..+.....++.+.......+..++  ..+.+|||||++.|..      +...|++  
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~   80 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIINE   80 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEETT--EEEEEEECCCCSCSSSSSHHHHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEECC--cEEEEEECCCcccCCCcchhHHHHHHHHhcC
Confidence            47999999999999999999998876544334333333333333332  5799999999988752      3345554  


Q ss_pred             CccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          121 QLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       121 ~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      +++++++|||+++.+.   ...|+..+... ..|+++|+||+|+.        ..+.+                      
T Consensus        81 ~~~~~i~v~D~~~~~~---~~~~~~~~~~~-~~p~ilv~nK~Dl~--------~~~~~----------------------  126 (165)
T 2wji_A           81 KPDLVVNIVDATALER---NLYLTLQLMEM-GANLLLALNKMDLA--------KSLGI----------------------  126 (165)
T ss_dssp             CCSEEEEEEETTCHHH---HHHHHHHHHHT-TCCEEEEEECHHHH--------HHTTC----------------------
T ss_pred             CCCEEEEEecCCchhH---hHHHHHHHHhc-CCCEEEEEEchHhc--------cccCh----------------------
Confidence            8999999999998544   44577776653 45899999999983        22222                      


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                          . .+        +..++..++++|+++||++|            .|++++|++|.+.+
T Consensus       127 ----~-~~--------~~~~~~~~~~~~~~~SA~~~------------~~v~~l~~~l~~~~  163 (165)
T 2wji_A          127 ----E-ID--------VDKLEKILGVKVVPLSAAKK------------MGIEELKKAISIAV  163 (165)
T ss_dssp             ----C-CC--------HHHHHHHHTSCEEECBGGGT------------BSHHHHHHHHHHHT
T ss_pred             ----h-hH--------HHHHHHHhCCCEEEEEcCCC------------CCHHHHHHHHHHHh
Confidence                1 12        67888888999999999999            99999999998765

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.91  E-value=1.7e-24  Score=180.39  Aligned_cols=161  Identities=15%  Similarity=0.189  Sum_probs=114.4

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||+|+|++|||||||+++|.+..+...+.++.+..+....+..++  ..+.+|||||++.|..++..+++.+|++|
T Consensus         6 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   83 (178)
T 2lkc_A            6 ERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVND--KKITFLDTPGHEAFTTMRARGAQVTDIVI   83 (178)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETT--EEEEESCCCSSSSSSCSCCSSCCCCCEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCC--ceEEEEECCCCHHHHHHHHHHHhhCCEEE
Confidence            4568999999999999999999999988766555554444333343343  35789999999999999999999999999


Q ss_pred             EEEeCCC---HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          127 MVFNLND---LSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       127 lV~Dv~~---~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      +|||+++   ..+++.+.    .+.. ...|+++|+||+|+.....  .+....+                         
T Consensus        84 ~v~d~~~~~~~~~~~~l~----~~~~-~~~p~ilv~nK~Dl~~~~~--~~~~~~~-------------------------  131 (178)
T 2lkc_A           84 LVVAADDGVMPQTVEAIN----HAKA-ANVPIIVAINKMDKPEANP--DRVMQEL-------------------------  131 (178)
T ss_dssp             EEEETTCCCCHHHHHHHH----HHGG-GSCCEEEEEETTTSSCSCH--HHHHHHH-------------------------
T ss_pred             EEEECCCCCcHHHHHHHH----HHHh-CCCCEEEEEECccCCcCCH--HHHHHHH-------------------------
Confidence            9999998   55554443    2222 2348999999999964210  0000111                         


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcC--CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHR--IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~--~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                 +....++..++  ++|++|||+++            .|++++|++|++.+..
T Consensus       132 -----------~~~~~~~~~~~~~~~~~~~Sa~~~------------~gv~~l~~~l~~~~~~  171 (178)
T 2lkc_A          132 -----------MEYNLVPEEWGGDTIFCKLSAKTK------------EGLDHLLEMILLVSEM  171 (178)
T ss_dssp             -----------TTTTCCBTTTTSSEEEEECCSSSS------------HHHHHHHHHHHHHHHH
T ss_pred             -----------HhcCcChhHcCCcccEEEEecCCC------------CCHHHHHHHHHHhhhh
Confidence                       00111122233  68999999999            9999999999986643

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.91  E-value=7.8e-24  Score=195.12  Aligned_cols=167  Identities=14%  Similarity=0.188  Sum_probs=129.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCC---CCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhh-----hccccccc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFE---DASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF-----SIRSLPIS  119 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~---~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~-----~~~~~~~~  119 (289)
                      ..+||+++|++|||||||+++|+++...   ..+.+|.+..+....+..   .+.+.+|||||++.|     ..++..++
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~~~~~~~---~~~l~i~Dt~G~~~~~~~~~~~~~~~~~   78 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSHLRFLG---NMTLNLWDCGGQDVFMENYFTKQKDHIF   78 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEEEEEETT---TEEEEEEEECCSHHHHHHHHTTTHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEEEEEEeCC---ceEEEEEECCCcHHHhhhhhhhHHHHHh
Confidence            3589999999999999999999987322   246678887776555422   478999999999998     67788889


Q ss_pred             cCccEEEEEEeCCCHhhHHHHHHHHHHhhh---cC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCC
Q 040295          120 DQLTALVMVFNLNDLSTLDALKHWVPSIDL---QK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGI  195 (289)
Q Consensus       120 ~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~---~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~  195 (289)
                      +++|++|+|||++++.+|+.+..|...+..   .. ..|+++||||+|+..      +..+..                 
T Consensus        79 ~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~------~~~r~~-----------------  135 (307)
T 3r7w_A           79 QMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQ------LDKREE-----------------  135 (307)
T ss_dssp             TTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSC------HHHHHH-----------------
T ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccc------hhhhhH-----------------
Confidence            999999999999999999999877655533   22 349999999999964      122321                 


Q ss_pred             CcccCCCCCCCCCCcHHHHHHHHHHHHHcC---CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          196 SETEGSSLLGDEEPSWEIRRSCLEWCTEHR---IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                                   ........+..++..+|   ++|++|||++.             ++.++|..+++.+++..
T Consensus       136 -------------~~~v~~~~~~~~~~~~g~~~~~~~~tSa~~~-------------~i~e~~~~iv~~li~~~  183 (307)
T 3r7w_A          136 -------------LFQIMMKNLSETSSEFGFPNLIGFPTSIWDE-------------SLYKAWSQIVCSLIPNM  183 (307)
T ss_dssp             -------------HHHHHHHHHHHHHHTTTCCSCEEEECCTTSS-------------HHHHHHHHHHHTTCSCH
T ss_pred             -------------HHHHHHHHHHHHHHHcCCCCeEEEEeeecCC-------------hHHHHHHHHHHHHcCCH
Confidence                         00122344889999997   68999999984             89999999998887764

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=99.91  E-value=1.5e-23  Score=181.00  Aligned_cols=195  Identities=17%  Similarity=0.174  Sum_probs=116.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc-cccccccCccEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI-RSLPISDQLTALV  126 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~-~~~~~~~~ad~vI  126 (289)
                      ..+||+|+|++|||||||+++|+++.+...+.++. ..+....+... ..+.+.+|||||++.|.. ++..|++.+|++|
T Consensus         6 ~~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~~~~-~~~~~~~~~~~-~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~i   83 (214)
T 2fh5_B            6 SQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQTSIT-DSSAIYKVNNN-RGNSLTLIDLPGHESLRFQLLDRFKSSARAVV   83 (214)
T ss_dssp             --CEEEEECSTTSSHHHHHHHHHHSCCCCBCCCCS-CEEEEEECSST-TCCEEEEEECCCCHHHHHHHHHHHGGGEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccccCCcc-eeeEEEEecCC-CccEEEEEECCCChhHHHHHHHHHHhhCCEEE
Confidence            45899999999999999999999999877665443 44444333221 247899999999999987 7788899999999


Q ss_pred             EEEeCCCHh-hHHHHHHH-HHHhhh----cCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          127 MVFNLNDLS-TLDALKHW-VPSIDL----QKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       127 lV~Dv~~~~-S~~~l~~~-~~~i~~----~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      +|||+++.. ++..+..| ...+..    ....|+++||||+|+....... .....+...-..  -|.+-...++..+|
T Consensus        84 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~-~~~~~l~~~l~~--~~~~~~~~~s~~~~  160 (214)
T 2fh5_B           84 FVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAK-LIQQQLEKELNT--LRVTRSAAPSTLDS  160 (214)
T ss_dssp             EEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHH-HHHHHHHHHHHH--HHHHCC--------
T ss_pred             EEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcccHH-HHHHHHHHHHHH--HhccchhccccccC
Confidence            999999854 56666544 444433    1234999999999997654321 111111000000  00000001111111


Q ss_pred             CCCC---CCCCCcHHHHHHHHHHHHHc---CCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          201 SSLL---GDEEPSWEIRRSCLEWCTEH---RIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       201 ~~~~---~~~~~~~~~~~~~~~~~~~~---~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                      ....   ..++        +..|+..+   +++|+||||++|      .......||+++|++|.+.
T Consensus       161 ~~~~~~~~~~~--------~~~~~~~~~~~~~~~~e~SAk~g------~~~~~~~gv~~lf~~l~~~  213 (214)
T 2fh5_B          161 SSTAPAQLGKK--------GKEFEFSQLPLKVEFLECSAKGG------RGDTGSADIQDLEKWLAKI  213 (214)
T ss_dssp             ----CCCSSCT--------TSCCCGGGSSSCEEEEECBCC-------------CCBCHHHHHHHHHH
T ss_pred             CccccccccCC--------CCCcccccCCCcEEEEEeeccCC------CccccccChHHHHHHHHHh
Confidence            1110   1111        33444433   778999999997      2223337999999999875

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.90  E-value=3.4e-24  Score=199.51  Aligned_cols=162  Identities=17%  Similarity=0.173  Sum_probs=118.7

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||+|+|++|||||||+++|.++.+...+ +|.+..+....  .  ..+.+.||||||++.|..+...+++.+|++|
T Consensus       163 ~~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~~-pT~~~~~~~~~--~--~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~vi  237 (329)
T 3o47_A          163 KKEMRILMVGLDAAGKTTILYKLKLGEIVTTI-PTIGFNVETVE--Y--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLI  237 (329)
T ss_dssp             CCSEEEEEEESTTSSHHHHHHHTCSSCCEEEE-EETTEEEEEEE--E--TTEEEEEEECC-----CCSHHHHHTTEEEEE
T ss_pred             cCcceEEEECCCCccHHHHHHHHhCCCCCCcc-cccceEEEEEe--c--CcEEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            34579999999999999999999998875433 56665554332  2  3468999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      +|||++++.+|+.+..|+..+...   ...|+|+||||+|+.....     .+++.                        
T Consensus       238 lV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~~-----~~~i~------------------------  288 (329)
T 3o47_A          238 FVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMN-----AAEIT------------------------  288 (329)
T ss_dssp             EEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC-----HHHHH------------------------
T ss_pred             EEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCcccC-----HHHHH------------------------
Confidence            999999999999999888776443   2459999999999964321     11110                        


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                .......+...+++|++|||++|            .||+++|+.|++.+..
T Consensus       289 ----------~~~~~~~~~~~~~~~~~vSAk~g------------~gi~el~~~l~~~l~~  327 (329)
T 3o47_A          289 ----------DKLGLHSLRHRNWYIQATCATSG------------DGLYEGLDWLSNQLRN  327 (329)
T ss_dssp             ----------HHHTCTTCCSSCEEEEECBTTTT------------BTHHHHHHHHHHHHTC
T ss_pred             ----------HHhchhhhhcCCCEEEEEECCCC------------cCHHHHHHHHHHHHHh
Confidence                      00001112224567999999999            9999999999987754

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=99.90  E-value=4.7e-23  Score=180.58  Aligned_cols=165  Identities=12%  Similarity=0.070  Sum_probs=115.0

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCc------hh----hhcccc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLH------EE----FSIRSL  116 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~------e~----~~~~~~  116 (289)
                      ...+||+|+|++|||||||+++|++..+.....+..........+...  ...+.+|||||+      +.    +..+ .
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~l~DtpG~~~~~~~~~~~~~~~~~-~  103 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHK--LNKYQIIDTPGLLDRAFENRNTIEMTTI-T  103 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEET--TEEEEEEECTTTTTSCGGGCCHHHHHHH-H
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeecC--CCeEEEEECCCCcCcccchhhhHHHHHH-H
Confidence            456899999999999999999999988742211111111111111112  367999999999      43    3222 2


Q ss_pred             ccccCccEEEEEEeCCCHhhHH--HHHHHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCC
Q 040295          117 PISDQLTALVMVFNLNDLSTLD--ALKHWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQS  193 (289)
Q Consensus       117 ~~~~~ad~vIlV~Dv~~~~S~~--~l~~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~  193 (289)
                      .++..+|++|+|||++++.+|+  ....|+..+.... ..|+++|+||+|+.......                      
T Consensus       104 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~~~~piilv~nK~Dl~~~~~~~----------------------  161 (228)
T 2qu8_A          104 ALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSVFSNKSIVIGFNKIDKCNMDSLS----------------------  161 (228)
T ss_dssp             HHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC-CCCEEEEEECGGGCC--CCC----------------------
T ss_pred             HhhccccEEEEEEecccccCcchHHHHHHHHHHHHhhcCCcEEEEEeCcccCCchhhH----------------------
Confidence            4567889999999999998875  3346777776652 45899999999996532211                      


Q ss_pred             CCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC--CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          194 GISETEGSSLLGDEEPSWEIRRSCLEWCTEHR--IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                       .+....+..++...+  ++|++|||++|            .||+++|++|++.+...
T Consensus       162 -----------------~~~~~~~~~~~~~~~~~~~~~~~SA~~g------------~gi~~l~~~l~~~i~~~  206 (228)
T 2qu8_A          162 -----------------IDNKLLIKQILDNVKNPIKFSSFSTLTG------------VGVEQAKITACELLKND  206 (228)
T ss_dssp             -----------------HHHHHHHHHHHHHCCSCEEEEECCTTTC------------TTHHHHHHHHHHHHHHH
T ss_pred             -----------------HHHHHHHHHHHHhcCCCceEEEEecccC------------CCHHHHHHHHHHHHHHH
Confidence                             111223677888887  89999999999            99999999999887544

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=99.90  E-value=1.1e-23  Score=177.16  Aligned_cols=154  Identities=15%  Similarity=0.134  Sum_probs=118.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCC-----------chhhhcccccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHL-----------HEEFSIRSLPI  118 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G-----------~e~~~~~~~~~  118 (289)
                      +||+|+|++|||||||+++|.+..+...+.++.........+  .    .+.+|||||           ++.+......+
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~t~~~~~~~~--~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~   75 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKIIEIEW--K----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHF   75 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSCEEEEE--T----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCccCCCCCccceeEEEec--C----CEEEEECCCccccccCCHHHHHHHHHHHHHH
Confidence            699999999999999999999998876665554433322222  2    489999999           78888888888


Q ss_pred             ccC-ccEEEEEEeCCCHhhHHHH-HHHHHH--------h-h--hcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCC
Q 040295          119 SDQ-LTALVMVFNLNDLSTLDAL-KHWVPS--------I-D--LQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESS  185 (289)
Q Consensus       119 ~~~-ad~vIlV~Dv~~~~S~~~l-~~~~~~--------i-~--~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~  185 (289)
                      ++. ++++++||++.+..+|+.+ ..|...        + .  .....|+++|+||+|+....       ..        
T Consensus        76 ~~~~~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-------~~--------  140 (190)
T 2cxx_A           76 IEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV-------QE--------  140 (190)
T ss_dssp             HHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH-------HH--------
T ss_pred             HHhhhccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcH-------HH--------
Confidence            887 8989999999999999887 567642        1 1  12345899999999996421       11        


Q ss_pred             CCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCe-------EEEeecCCCcccccccCCCCchhHHHHHHHH
Q 040295          186 ADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIE-------YIEACASNVDFDKCLSIDGDSQGVERLYGAL  258 (289)
Q Consensus       186 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L  258 (289)
                                                    .+.+++..++++       +++|||++|            .|++++|++|
T Consensus       141 ------------------------------~~~~~~~~~~~~~~~~~~~~~~~Sa~~~------------~~v~~l~~~l  178 (190)
T 2cxx_A          141 ------------------------------VINFLAEKFEVPLSEIDKVFIPISAKFG------------DNIERLKNRI  178 (190)
T ss_dssp             ------------------------------HHHHHHHHHTCCGGGHHHHEEECCTTTC------------TTHHHHHHHH
T ss_pred             ------------------------------HHHHHHHHhhhhhhccCCcEEEEecCCC------------CCHHHHHHHH
Confidence                                          266778877764       799999999            9999999999


Q ss_pred             HHhcccCc
Q 040295          259 SAHMWPGM  266 (289)
Q Consensus       259 ~~~~~~~~  266 (289)
                      ++.+....
T Consensus       179 ~~~~~~~~  186 (190)
T 2cxx_A          179 FEVIRERQ  186 (190)
T ss_dssp             HHHHHHC-
T ss_pred             HHhcchhh
Confidence            99876543

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.89  E-value=2.9e-23  Score=174.95  Aligned_cols=157  Identities=17%  Similarity=0.059  Sum_probs=118.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhh------cccccccc-
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFS------IRSLPISD-  120 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~------~~~~~~~~-  120 (289)
                      +.+||+++|++|||||||+++|.+..+.....++.+.......+...  ...+.+|||||++.|.      .+...+++ 
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~   83 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYN--GEKFKVVDLPGVYSLTANSIDEIIARDYIIN   83 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEET--TEEEEEEECCCCSCCSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeC--CcEEEEEECCCcCccccccHHHHHHHHHHhc
Confidence            45899999999999999999999877544444544444444444444  3679999999998875      23445554 


Q ss_pred             -CccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCccc
Q 040295          121 -QLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETE  199 (289)
Q Consensus       121 -~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~  199 (289)
                       .++++++|+|.++   ++....|+..+... ..|+++|+||+|+.        ..+.+                     
T Consensus        84 ~~~~~~i~v~d~~~---~~~~~~~~~~~~~~-~~piilv~nK~Dl~--------~~~~~---------------------  130 (188)
T 2wjg_A           84 EKPDLVVNIVDATA---LERNLYLTLQLMEM-GANLLLALNKMDLA--------KSLGI---------------------  130 (188)
T ss_dssp             HCCSEEEEEEEGGG---HHHHHHHHHHHHTT-TCCEEEEEECHHHH--------HHTTC---------------------
T ss_pred             cCCCEEEEEecchh---HHHHHHHHHHHHhc-CCCEEEEEEhhhcc--------ccccc---------------------
Confidence             5999999999875   56667788877663 44889999999983        22222                     


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          200 GSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                           . .+        +..++...+++++++||+++            .|++++|++|++.+...
T Consensus       131 -----~-~~--------~~~~~~~~~~~~~~~Sa~~~------------~~v~~l~~~i~~~~~~~  170 (188)
T 2wjg_A          131 -----E-ID--------VDKLEKILGVKVVPLSAAKK------------MGIEELKKAISIAVKDK  170 (188)
T ss_dssp             -----C-CC--------HHHHHHHHTSCEEECBGGGT------------BSHHHHHHHHHHHHTTC
T ss_pred             -----h-HH--------HHHHHHHhCCCeEEEEecCC------------CCHHHHHHHHHHHHHhc
Confidence                 1 12        67888888999999999999            99999999999877554

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=99.89  E-value=3.3e-23  Score=175.54  Aligned_cols=158  Identities=15%  Similarity=0.132  Sum_probs=106.3

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCC----------chhhhccc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHL----------HEEFSIRS  115 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G----------~e~~~~~~  115 (289)
                      ....+||+|+|++|||||||+++|++..+...+.++.+..........++   .+.+|||||          ++.|..+.
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~   96 (195)
T 1svi_A           20 EGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRMI   96 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEECC---cEEEEECCCCCccccCHHHHHHHHHHH
Confidence            34579999999999999999999999886655555554433222222222   489999999          78888777


Q ss_pred             cccccCc---cEEEEEEeCCCHhhHHHHH--HHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcc
Q 040295          116 LPISDQL---TALVMVFNLNDLSTLDALK--HWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDF  190 (289)
Q Consensus       116 ~~~~~~a---d~vIlV~Dv~~~~S~~~l~--~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~  190 (289)
                      ..+++.+   |++++|||++++.++....  .|+..    ...|+++|+||+|+.....        +            
T Consensus        97 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~----~~~p~i~v~nK~Dl~~~~~--------~------------  152 (195)
T 1svi_A           97 ETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKY----YGIPVIVIATKADKIPKGK--------W------------  152 (195)
T ss_dssp             HHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH----TTCCEEEEEECGGGSCGGG--------H------------
T ss_pred             HHHHhhhhcCCEEEEEEECCCCCCHHHHHHHHHHHH----cCCCEEEEEECcccCChHH--------H------------
Confidence            7777766   9999999999888887653  34332    3448999999999964211        1            


Q ss_pred             cCCCCCcccCCCCCCCCCCcHHHHHHHHH-HHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          191 CQSGISETEGSSLLGDEEPSWEIRRSCLE-WCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       191 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                          ....+.+.+ +....+++++++||+++            .|++++|++|.+.+
T Consensus       153 --------------------~~~~~~~~~~~~~~~~~~~~~~Sa~~~------------~gv~~l~~~l~~~l  193 (195)
T 1svi_A          153 --------------------DKHAKVVRQTLNIDPEDELILFSSETK------------KGKDEAWGAIKKMI  193 (195)
T ss_dssp             --------------------HHHHHHHHHHHTCCTTSEEEECCTTTC------------TTHHHHHHHHHHHH
T ss_pred             --------------------HHHHHHHHHHHcccCCCceEEEEccCC------------CCHHHHHHHHHHHh
Confidence                                001111222 33345678999999999            99999999998765

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.89  E-value=2.4e-23  Score=170.44  Aligned_cols=150  Identities=15%  Similarity=0.071  Sum_probs=101.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCcceEEeeEEeecCcceEEEEEEEcCCchhh-------hccccccccC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFED-ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF-------SIRSLPISDQ  121 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~-------~~~~~~~~~~  121 (289)
                      +||+++|++|||||||+++|.+..+.. ...++.........+...+  ..+.+|||||++.+       ......+++.
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~   79 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDR--GRFLLVDTGGLWSGDKWEKKIQEKVDRALED   79 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEETT--EEEEEEECGGGCSSSSCCHHHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCC--ceEEEEECCCCCCccchHHHHHHHHHHHHHh
Confidence            589999999999999999999887532 1222222222333333333  36899999999873       3344567889


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          122 LTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       122 ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      +|++|+|||++++.+...  .|+.........|+++|+||+|+...        +..                       
T Consensus        80 ~~~~i~v~d~~~~~~~~~--~~~~~~~~~~~~p~ilv~nK~Dl~~~--------~~~-----------------------  126 (161)
T 2dyk_A           80 AEVVLFAVDGRAELTQAD--YEVAEYLRRKGKPVILVATKVDDPKH--------ELY-----------------------  126 (161)
T ss_dssp             CSEEEEEEESSSCCCHHH--HHHHHHHHHHTCCEEEEEECCCSGGG--------GGG-----------------------
T ss_pred             CCEEEEEEECCCcccHhH--HHHHHHHHhcCCCEEEEEECcccccc--------hHh-----------------------
Confidence            999999999998644432  22222222234489999999999531        111                       


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                     +.+++ ..++ ++++|||+++            .|++++|++|++.+
T Consensus       127 ---------------~~~~~-~~~~~~~~~~Sa~~~------------~gv~~l~~~l~~~l  160 (161)
T 2dyk_A          127 ---------------LGPLY-GLGFGDPIPTSSEHA------------RGLEELLEAIWERL  160 (161)
T ss_dssp             ---------------CGGGG-GGSSCSCEECBTTTT------------BSHHHHHHHHHHHC
T ss_pred             ---------------HHHHH-hCCCCCeEEEecccC------------CChHHHHHHHHHhC
Confidence                           23444 5677 7999999999            99999999998764

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=99.88  E-value=9.7e-24  Score=177.42  Aligned_cols=151  Identities=17%  Similarity=0.112  Sum_probs=106.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcc--------cccc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFED-ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIR--------SLPI  118 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~--------~~~~  118 (289)
                      +++||+|+|++|||||||+++|.+..+.. ...++....+....+..++  ..+.+|||||++.+...        ...+
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~   80 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDG--MPLHIIDTAGLREASDEVERIGIERAWQE   80 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETT--EEEEEEECCCCSCCSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECC--eEEEEEECCCcccchhHHHHHHHHHHHHH
Confidence            35799999999999999999999876431 1122222233333344343  35899999998653211        1135


Q ss_pred             ccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCC
Q 040295          119 SDQLTALVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGIS  196 (289)
Q Consensus       119 ~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~  196 (289)
                      ++.+|++|+|||++++.+++. ..|+..+....  ..|+++|+||+|+....                            
T Consensus        81 ~~~ad~~i~v~D~~~~~s~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~----------------------------  131 (172)
T 2gj8_A           81 IEQADRVLFMVDGTTTDAVDP-AEIWPEFIARLPAKLPITVVRNKADITGET----------------------------  131 (172)
T ss_dssp             HHTCSEEEEEEETTTCCCCSH-HHHCHHHHHHSCTTCCEEEEEECHHHHCCC----------------------------
T ss_pred             HHhCCEEEEEEECCCCCCHHH-HHHHHHHHHhcccCCCEEEEEECccCCcch----------------------------
Confidence            789999999999999988874 46777776543  34899999999994210                            


Q ss_pred             cccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          197 ETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       197 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                           ..++...++++++|||+++            .|++++|++|.+.+
T Consensus       132 ---------------------~~~~~~~~~~~~~~SA~~g------------~gv~~l~~~l~~~~  164 (172)
T 2gj8_A          132 ---------------------LGMSEVNGHALIRLSARTG------------EGVDVLRNHLKQSM  164 (172)
T ss_dssp             ---------------------CEEEEETTEEEEECCTTTC------------TTHHHHHHHHHHHC
T ss_pred             ---------------------hhhhhccCCceEEEeCCCC------------CCHHHHHHHHHHHh
Confidence                                 0111224678999999999            99999999998865

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.88  E-value=4e-22  Score=168.04  Aligned_cols=159  Identities=11%  Similarity=0.036  Sum_probs=112.7

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCC----------chhhhcc
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHL----------HEEFSIR  114 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G----------~e~~~~~  114 (289)
                      .....+||+|+|++|||||||+++|++..+. .+.++.+...........   ..+.+|||||          ++.+..+
T Consensus        19 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~t~~~~~~~~~---~~~~i~Dt~G~~~~~~~~~~~~~~~~~   94 (195)
T 3pqc_A           19 PPPLKGEVAFVGRSNVGKSSLLNALFNRKIA-FVSKTPGKTRSINFYLVN---SKYYFVDLPGYGYAKVSKKERMLWKRL   94 (195)
T ss_dssp             CCCTTCEEEEEEBTTSSHHHHHHHHHTSCCS-CCCSSCCCCCCEEEEEET---TTEEEEECCCBSSSCCCHHHHHHHHHH
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHcCccc-cccCCCCCccCeEEEEEC---CcEEEEECCCCccccCChhhHHHHHHH
Confidence            3456689999999999999999999998843 333444433221111112   2478999999          7778777


Q ss_pred             ccccccCc---cEEEEEEeCCCHh--hHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCc
Q 040295          115 SLPISDQL---TALVMVFNLNDLS--TLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPD  189 (289)
Q Consensus       115 ~~~~~~~a---d~vIlV~Dv~~~~--S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~  189 (289)
                      ...+++.+   +++++|+|.++..  .+..+..|+...    ..|+++|+||+|+.+..      .+             
T Consensus        95 ~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~----~~p~i~v~nK~Dl~~~~------~~-------------  151 (195)
T 3pqc_A           95 VEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKSL----NIPFTIVLTKMDKVKMS------ER-------------  151 (195)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHT----TCCEEEEEECGGGSCGG------GH-------------
T ss_pred             HHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHHc----CCCEEEEEEChhcCChH------HH-------------
Confidence            77776655   9999999998753  334445565544    34899999999996421      11             


Q ss_pred             ccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          190 FCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                           ....+.+..++...+ +++++|||+++            .||+++|++|.+.+.
T Consensus       152 ---------------------~~~~~~~~~~~~~~~~~~~~~~Sa~~~------------~gv~~l~~~l~~~l~  193 (195)
T 3pqc_A          152 ---------------------AKKLEEHRKVFSKYGEYTIIPTSSVTG------------EGISELLDLISTLLK  193 (195)
T ss_dssp             ---------------------HHHHHHHHHHHHSSCCSCEEECCTTTC------------TTHHHHHHHHHHHHC
T ss_pred             ---------------------HHHHHHHHHHHhhcCCCceEEEecCCC------------CCHHHHHHHHHHHhh
Confidence                                 122233666776644 78999999999            999999999998764

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.87  E-value=7.6e-23  Score=201.69  Aligned_cols=164  Identities=14%  Similarity=0.178  Sum_probs=118.9

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEE--------eecCcceEEEEEEEcCCchhhhcccc
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWT--------INTKYYTADVSLWMAHLHEEFSIRSL  116 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~--------i~~~~~~~~l~I~Dt~G~e~~~~~~~  116 (289)
                      .....+||+++|.+|||||||+++|.+..+...+.+|.+..+....        +...+..+.+.+|||||++.|..+..
T Consensus        37 ~~~~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~  116 (535)
T 3dpu_A           37 VHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQ  116 (535)
T ss_dssp             BCCCEEEEEEESSSCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCH
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHH
Confidence            4556799999999999999999999999988888888887776442        22334467899999999999999998


Q ss_pred             ccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCC
Q 040295          117 PISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGI  195 (289)
Q Consensus       117 ~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~  195 (289)
                      .+++.++++|+|||+++.   +.+..|+..+..... .|+|+||||+|+.......                        
T Consensus       117 ~~l~~~d~ii~V~D~s~~---~~~~~~~~~l~~~~~~~pvilV~NK~Dl~~~~~v~------------------------  169 (535)
T 3dpu_A          117 FFMTRSSVYMLLLDSRTD---SNKHYWLRHIEKYGGKSPVIVVMNKIDENPSYNIE------------------------  169 (535)
T ss_dssp             HHHHSSEEEEEEECGGGG---GGHHHHHHHHHHHSSSCCEEEEECCTTTCTTCCCC------------------------
T ss_pred             HHccCCcEEEEEEeCCCc---hhHHHHHHHHHHhCCCCCEEEEEECCCcccccccC------------------------
Confidence            899999999999998765   556778888877654 4899999999996432111                        


Q ss_pred             CcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          196 SETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                        .+.+..++...+++++++||++|            .||+++|++|.+.+...
T Consensus       170 ------------------~~~~~~~~~~~~~~~~~vSA~~g------------~gi~eL~~~l~~~~~~~  209 (535)
T 3dpu_A          170 ------------------QKKINERFPAIENRFHRISCKNG------------DGVESIAKSLKSAVLHP  209 (535)
T ss_dssp             ------------------HHHHHHHCGGGTTCEEECCC-----------------CTTHHHHHHHHHTCT
T ss_pred             ------------------HHHHHHHHHhcCCceEEEecCcc------------cCHHHHHHHHHHHHhcc
Confidence                              12256777778899999999999            99999999999987654

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=99.86  E-value=3.8e-21  Score=177.30  Aligned_cols=166  Identities=14%  Similarity=0.075  Sum_probs=120.2

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhh----------ccc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFS----------IRS  115 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~----------~~~  115 (289)
                      ..+.-.|+|+|.+|||||||+|+|++.++................+........+.+|||||+..+.          ...
T Consensus         7 ~~~~g~v~ivG~~nvGKSTLin~l~g~~~~i~s~~~~tT~~~~~~~~~~~~~~~i~lvDTPG~~~~~~~~~l~~~~~~~~   86 (308)
T 3iev_A            7 HMKVGYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIPNEAQIIFLDTPGIYEPKKSDVLGHSMVEIA   86 (308)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTTEEEEEEECCCCCCCCTTCHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHHhCCCccccCCCCCceeeEEEEEEecCCCCeEEEEECcCCCccccchhHHHHHHHHH
Confidence            3344579999999999999999999998753221111111111111111114679999999985443          445


Q ss_pred             cccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCC
Q 040295          116 LPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGI  195 (289)
Q Consensus       116 ~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~  195 (289)
                      ..+++.+|++|+|+|++++.+++....|+..+...+ .|+++|+||+|+....    +..                    
T Consensus        87 ~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~~~-~pvilV~NK~Dl~~~~----~~~--------------------  141 (308)
T 3iev_A           87 KQSLEEADVILFMIDATEGWRPRDEEIYQNFIKPLN-KPVIVVINKIDKIGPA----KNV--------------------  141 (308)
T ss_dssp             HHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGGGC-CCEEEEEECGGGSSSG----GGG--------------------
T ss_pred             HHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHhcC-CCEEEEEECccCCCCH----HHH--------------------
Confidence            577889999999999999999999888888888743 4899999999996211    111                    


Q ss_pred             CcccCCCCCCCCCCcHHHHHHHHHHHHHcC--CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          196 SETEGSSLLGDEEPSWEIRRSCLEWCTEHR--IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                                        ...+..+....+  .+++++||++|            .|++++|+.|.+.+....
T Consensus       142 ------------------~~~~~~l~~~~~~~~~i~~vSA~~g------------~gv~~L~~~l~~~l~~~~  184 (308)
T 3iev_A          142 ------------------LPLIDEIHKKHPELTEIVPISALKG------------ANLDELVKTILKYLPEGE  184 (308)
T ss_dssp             ------------------HHHHHHHHHHCTTCCCEEECBTTTT------------BSHHHHHHHHHHHSCBCC
T ss_pred             ------------------HHHHHHHHHhccCCCeEEEEeCCCC------------CCHHHHHHHHHHhCccCC
Confidence                              122567777775  67999999999            999999999999876553

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=99.86  E-value=1.9e-21  Score=175.21  Aligned_cols=154  Identities=12%  Similarity=0.018  Sum_probs=115.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccc------cccc--c
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRS------LPIS--D  120 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~------~~~~--~  120 (289)
                      .+||+++|++|||||||+++|++..+.....+..........+...  ...+.+|||||++.+....      ..|+  .
T Consensus         5 ~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~~--~~~~~l~DtpG~~~~~~~~~~e~v~~~~~~~~   82 (258)
T 3a1s_A            5 MVKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYK--GYTINLIDLPGTYSLGYSSIDEKIARDYLLKG   82 (258)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEET--TEEEEEEECCCCSSCCSSSHHHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEEC--CeEEEEEECCCcCccCCCCHHHHHHHHHHhhc
Confidence            4799999999999999999999987654333444444443344333  3679999999998876532      4555  5


Q ss_pred             CccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          121 QLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       121 ~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      .+|++|+|+|+++.++..   .|...+... ..|+++|+||+|+..        .+.+                      
T Consensus        83 ~~d~ii~V~D~t~~~~~~---~~~~~l~~~-~~pvilv~NK~Dl~~--------~~~i----------------------  128 (258)
T 3a1s_A           83 DADLVILVADSVNPEQSL---YLLLEILEM-EKKVILAMTAIDEAK--------KTGM----------------------  128 (258)
T ss_dssp             CCSEEEEEEETTSCHHHH---HHHHHHHTT-TCCEEEEEECHHHHH--------HTTC----------------------
T ss_pred             CCCEEEEEeCCCchhhHH---HHHHHHHhc-CCCEEEEEECcCCCC--------ccch----------------------
Confidence            899999999999876543   355555543 348999999999832        2222                      


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                          . .+        +..++..++++++++||++|            .|++++|+.|.+.+.
T Consensus       129 ----~-~~--------~~~l~~~lg~~vi~~SA~~g------------~gi~el~~~i~~~~~  166 (258)
T 3a1s_A          129 ----K-ID--------RYELQKHLGIPVVFTSSVTG------------EGLEELKEKIVEYAQ  166 (258)
T ss_dssp             ----C-BC--------HHHHHHHHCSCEEECCTTTC------------TTHHHHHHHHHHHHH
T ss_pred             ----H-HH--------HHHHHHHcCCCEEEEEeeCC------------cCHHHHHHHHHHHhh
Confidence                1 11        67888999999999999999            999999999988653

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=99.86  E-value=1.5e-21  Score=177.45  Aligned_cols=152  Identities=12%  Similarity=0.028  Sum_probs=110.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhh------cccccccc--
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFS------IRSLPISD--  120 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~------~~~~~~~~--  120 (289)
                      .+||+++|++|||||||+++|.+..+.....+..........+  .. ...+.+|||||++.|.      .+...|+.  
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~pg~tv~~~~~~~--~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~   79 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGHNQRVGNWPGVTVERKSGLV--KK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQ   79 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCCCCCCCSSSCCCCSCEEEEC--TT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCCcEEEEEEEE--ec-CCeEEEEECCCcCccCCCChHHHHHHHHHhcC
Confidence            4799999999999999999999876433322322222222223  22 4569999999999876      34455654  


Q ss_pred             CccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          121 QLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       121 ~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      .+|++|+|||+++.+++.   .|...+.. ...|+++|+||+|+..        .+.+                      
T Consensus        80 ~~d~vi~V~D~t~~e~~~---~~~~~l~~-~~~p~ilv~NK~Dl~~--------~~~~----------------------  125 (272)
T 3b1v_A           80 RADSILNVVDATNLERNL---YLTTQLIE-TGIPVTIALNMIDVLD--------GQGK----------------------  125 (272)
T ss_dssp             CCSEEEEEEEGGGHHHHH---HHHHHHHH-TCSCEEEEEECHHHHH--------HTTC----------------------
T ss_pred             CCCEEEEEecCCchHhHH---HHHHHHHh-cCCCEEEEEEChhhCC--------cCCc----------------------
Confidence            699999999999876543   45555544 3448999999999832        2222                      


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                          . .+        +..++...++++++|||++|            .|++++|++|.+.+
T Consensus       126 ----~-~~--------~~~l~~~lg~~vi~~SA~~g------------~gi~el~~~i~~~~  162 (272)
T 3b1v_A          126 ----K-IN--------VDKLSYHLGVPVVATSALKQ------------TGVDQVVKKAAHTT  162 (272)
T ss_dssp             ----C-CC--------HHHHHHHHTSCEEECBTTTT------------BSHHHHHHHHHHSC
T ss_pred             ----H-HH--------HHHHHHHcCCCEEEEEccCC------------CCHHHHHHHHHHHH
Confidence                1 12        67888889999999999999            99999999998865

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.85  E-value=2.2e-21  Score=168.03  Aligned_cols=166  Identities=12%  Similarity=0.064  Sum_probs=107.7

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceE--EeeEEeecCcceEEEEEEEcCC----------chhhh
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELL--VNGWTINTKYYTADVSLWMAHL----------HEEFS  112 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~--~~~~~i~~~~~~~~l~I~Dt~G----------~e~~~  112 (289)
                      .....+||+|+|.+|||||||+++|++..+......+.+..  .....+. ......+.+|||||          ++.|.
T Consensus        25 ~~~~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~-~~~~~~~~l~DtpG~~~~~~~~~~~~~~~  103 (223)
T 4dhe_A           25 PPTVQPEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVG-PAAEPVAHLVDLPGYGYAEVPGAAKAHWE  103 (223)
T ss_dssp             CCCCSCEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEES-CTTSCSEEEEECCCCCSSCCCSTHHHHHH
T ss_pred             CCCCCCEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEec-CCCCCcEEEEcCCCCCcccCChhhHHHHH
Confidence            34567899999999999999999999987422222222221  1122222 12235689999999          45666


Q ss_pred             ccccccccC---ccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCc
Q 040295          113 IRSLPISDQ---LTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPD  189 (289)
Q Consensus       113 ~~~~~~~~~---ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~  189 (289)
                      .+...|++.   +|++|+|+|.+++.+.. ...|+..+.. ...|+++|+||+|+....     .....           
T Consensus       104 ~~~~~~~~~~~~~d~vi~v~d~~~~~~~~-~~~~~~~l~~-~~~p~i~v~nK~Dl~~~~-----~~~~~-----------  165 (223)
T 4dhe_A          104 QLLSSYLQTRPQLCGMILMMDARRPLTEL-DRRMIEWFAP-TGKPIHSLLTKCDKLTRQ-----ESINA-----------  165 (223)
T ss_dssp             HHHHHHHHHCTTEEEEEEEEETTSCCCHH-HHHHHHHHGG-GCCCEEEEEECGGGSCHH-----HHHHH-----------
T ss_pred             HHHHHHHhcCcCcCEEEEEEeCCCCCCHH-HHHHHHHHHh-cCCCEEEEEeccccCChh-----hHHHH-----------
Confidence            666666655   78899999998754422 2345555554 334899999999996421     10001           


Q ss_pred             ccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHH-------cCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          190 FCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTE-------HRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                              .+...+.+..       .+++++++||+++            .|++++|++|.+.+
T Consensus       166 ------------------------~~~~~~~l~~~~~~~~~~~~~~~~~SA~~g------------~gv~~l~~~l~~~~  209 (223)
T 4dhe_A          166 ------------------------LRATQKSLDAYRDAGYAGKLTVQLFSALKR------------TGLDDAHALIESWL  209 (223)
T ss_dssp             ------------------------HHHHHHHHHHHHHHTCCSCEEEEEEBTTTT------------BSHHHHHHHHHHHH
T ss_pred             ------------------------HHHHHHHHHhhhhcccCCCCeEEEeecCCC------------cCHHHHHHHHHHhc
Confidence                                    1112222222       4578999999999            99999999999877


Q ss_pred             ccC
Q 040295          263 WPG  265 (289)
Q Consensus       263 ~~~  265 (289)
                      ...
T Consensus       210 ~~~  212 (223)
T 4dhe_A          210 RPA  212 (223)
T ss_dssp             C--
T ss_pred             Ccc
Confidence            544

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=99.85  E-value=3.2e-21  Score=174.95  Aligned_cols=156  Identities=15%  Similarity=0.066  Sum_probs=114.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcc----------ccc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIR----------SLP  117 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~----------~~~  117 (289)
                      +.++|+++|.+|||||||+|+|++..+.....++...+.....+...+  ..+.+|||||+..+...          ...
T Consensus         2 ~~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~e~i~~~   79 (274)
T 3i8s_A            2 KKLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTD--HQVTLVDLPGTYSLTTISSQTSLDEQIACH   79 (274)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSS--CEEEEEECCCCSCSCC----CCHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCC--CceEEEECcCCCccccccccCCHHHHHHHH
Confidence            358999999999999999999999876444444444444444444443  35889999999887632          122


Q ss_pred             cc--cCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCC
Q 040295          118 IS--DQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGI  195 (289)
Q Consensus       118 ~~--~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~  195 (289)
                      |+  +.+|++|+|+|.++.+....+..|+...    ..|+++|+||+|+..        .+.+                 
T Consensus        80 ~~~~~~~d~ii~VvD~~~~~~~~~~~~~l~~~----~~p~ivv~NK~Dl~~--------~~~~-----------------  130 (274)
T 3i8s_A           80 YILSGDADLLINVVDASNLERNLYLTLQLLEL----GIPCIVALNMLDIAE--------KQNI-----------------  130 (274)
T ss_dssp             HHHHTCCSEEEEEEEGGGHHHHHHHHHHHHHH----TCCEEEEEECHHHHH--------HTTE-----------------
T ss_pred             HHhhcCCCEEEEEecCCChHHHHHHHHHHHhc----CCCEEEEEECccchh--------hhhH-----------------
Confidence            32  6899999999999877666555554443    348999999999842        1111                 


Q ss_pred             CcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          196 SETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                ..+        ...++...+++++++||++|            .|++++|++|.+.+..
T Consensus       131 ----------~~~--------~~~l~~~lg~~~i~~SA~~g------------~gi~el~~~i~~~~~~  169 (274)
T 3i8s_A          131 ----------RIE--------IDALSARLGCPVIPLVSTRG------------RGIEALKLAIDRYKAN  169 (274)
T ss_dssp             ----------EEC--------HHHHHHHHTSCEEECCCGGG------------HHHHHHHHHHHTCCCC
T ss_pred             ----------HHH--------HHHHHHhcCCCEEEEEcCCC------------CCHHHHHHHHHHHHhc
Confidence                      011        56788888999999999999            9999999999886643

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=99.85  E-value=2.4e-21  Score=174.41  Aligned_cols=151  Identities=13%  Similarity=0.027  Sum_probs=113.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc----------cccccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI----------RSLPIS  119 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~----------~~~~~~  119 (289)
                      .||+++|.+|||||||+|+|.+..+.....++.+.+.....+...+  ..+.+|||||+..+..          +...|+
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~--~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~   79 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGE--HLIEITDLPGVYSLVANAEGISQDEQIAAQSV   79 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETT--EEEEEEECCCCSSCC------CHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECC--eEEEEEeCCCcccccccccCCCHHHHHHHHHH
Confidence            4899999999999999999999875444445555444444444443  3799999999987764          334566


Q ss_pred             --cCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCc
Q 040295          120 --DQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISE  197 (289)
Q Consensus       120 --~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~  197 (289)
                        +.+|++|+|+|+++.+++..+..|+..+    ..|+++|+||+|+..        .+.+                   
T Consensus        80 ~~~~~d~vi~VvDas~~~~~~~l~~~l~~~----~~pvilv~NK~Dl~~--------~~~~-------------------  128 (256)
T 3iby_A           80 IDLEYDCIINVIDACHLERHLYLTSQLFEL----GKPVVVALNMMDIAE--------HRGI-------------------  128 (256)
T ss_dssp             HHSCCSEEEEEEEGGGHHHHHHHHHHHTTS----CSCEEEEEECHHHHH--------HTTC-------------------
T ss_pred             hhCCCCEEEEEeeCCCchhHHHHHHHHHHc----CCCEEEEEEChhcCC--------cCCc-------------------
Confidence              8899999999999987776665554332    348999999999842        1111                   


Q ss_pred             ccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          198 TEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       198 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                              ...        ...++...+++++++||++|            .|++++|+.|.+.
T Consensus       129 --------~~~--------~~~l~~~lg~~vi~~SA~~g------------~gi~el~~~i~~~  164 (256)
T 3iby_A          129 --------SID--------TEKLESLLGCSVIPIQAHKN------------IGIPALQQSLLHC  164 (256)
T ss_dssp             --------EEC--------HHHHHHHHCSCEEECBGGGT------------BSHHHHHHHHHTC
T ss_pred             --------HHH--------HHHHHHHcCCCEEEEECCCC------------CCHHHHHHHHHhh
Confidence                    011        56678888999999999999            9999999999886

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.84  E-value=7.7e-22  Score=170.62  Aligned_cols=146  Identities=16%  Similarity=0.160  Sum_probs=105.2

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCC---CCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccC-
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDA---SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQ-  121 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~---~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~-  121 (289)
                      ....+||+|+|++|||||||+++|.+..+...   +.++.+.         ......+.+|||||++.++..+..+++. 
T Consensus         9 ~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~---------~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   79 (218)
T 1nrj_B            9 KSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAA---------DYDGSGVTLVDFPGHVKLRYKLSDYLKTR   79 (218)
T ss_dssp             -CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEET---------TGGGSSCEEEECCCCGGGTHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEE---------EeeCceEEEEECCCcHHHHHHHHHHHHhc
Confidence            34568999999999999999999999887542   2222221         1234579999999999998888888877 


Q ss_pred             ---ccEEEEEEeCC-CHhhHHHHHHHHHHhhhc------CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCccc
Q 040295          122 ---LTALVMVFNLN-DLSTLDALKHWVPSIDLQ------KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFC  191 (289)
Q Consensus       122 ---ad~vIlV~Dv~-~~~S~~~l~~~~~~i~~~------~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~  191 (289)
                         ++++|+|||++ ++.+|..+..|+..+...      ...|+++|+||+|+....... +                  
T Consensus        80 ~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~-~------------------  140 (218)
T 1nrj_B           80 AKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPS-K------------------  140 (218)
T ss_dssp             GGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHH-H------------------
T ss_pred             cccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHH-H------------------
Confidence               89999999999 899999999998877543      345899999999997543211 0                  


Q ss_pred             CCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCC
Q 040295          192 QSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNV  236 (289)
Q Consensus       192 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~  236 (289)
                                       ....+...+..++...+++|+++||+++
T Consensus       141 -----------------~~~~l~~~~~~~~~~~~~~~~~~Sa~~~  168 (218)
T 1nrj_B          141 -----------------IKDALESEIQKVIERRKKSLNEVERKIN  168 (218)
T ss_dssp             -----------------HHHHHHHHHHHHHHHHHHHHHC------
T ss_pred             -----------------HHHHHHHHHHHHHHHHhccccccccccc
Confidence                             1112334467788888888999999988

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=99.84  E-value=1.2e-20  Score=170.28  Aligned_cols=156  Identities=14%  Similarity=0.074  Sum_probs=117.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc------cccccc--
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI------RSLPIS--  119 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~------~~~~~~--  119 (289)
                      +.+||+++|++|||||||+++|.+..+.....++.+.......+...+  ..+.+|||||+..+..      +...|+  
T Consensus         2 ~~~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~   79 (271)
T 3k53_A            2 VLKTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYRE--KEFLVVDLPGIYSLTAHSIDELIARNFILD   79 (271)
T ss_dssp             CCEEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETT--EEEEEEECCCCSCCCSSCHHHHHHHHHHHT
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECC--ceEEEEeCCCccccccCCHHHHHHHHhhhc
Confidence            357999999999999999999999877544555555555444444443  3599999999988765      344554  


Q ss_pred             cCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCccc
Q 040295          120 DQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETE  199 (289)
Q Consensus       120 ~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~  199 (289)
                      ..+|++|+|+|.++.+   ....|...+......|+++|+||+|+.        ..+.+                     
T Consensus        80 ~~~d~vi~v~D~~~~~---~~~~~~~~~~~~~~~p~ilv~NK~Dl~--------~~~~~---------------------  127 (271)
T 3k53_A           80 GNADVIVDIVDSTCLM---RNLFLTLELFEMEVKNIILVLNKFDLL--------KKKGA---------------------  127 (271)
T ss_dssp             TCCSEEEEEEEGGGHH---HHHHHHHHHHHTTCCSEEEEEECHHHH--------HHHTC---------------------
T ss_pred             cCCcEEEEEecCCcch---hhHHHHHHHHhcCCCCEEEEEEChhcC--------ccccc---------------------
Confidence            6899999999998863   333455555555546899999999984        22222                     


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          200 GSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                           .. +        ...++...+++++++||++|            .|+.++|+.+...+-
T Consensus       128 -----~~-~--------~~~l~~~lg~~~~~~Sa~~g------------~gi~~l~~~i~~~~~  165 (271)
T 3k53_A          128 -----KI-D--------IKKMRKELGVPVIPTNAKKG------------EGVEELKRMIALMAE  165 (271)
T ss_dssp             -----CC-C--------HHHHHHHHSSCEEECBGGGT------------BTHHHHHHHHHHHHH
T ss_pred             -----HH-H--------HHHHHHHcCCcEEEEEeCCC------------CCHHHHHHHHHHHHh
Confidence                 11 1        67788888999999999999            999999999988653

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.82  E-value=1.4e-20  Score=181.22  Aligned_cols=162  Identities=11%  Similarity=0.040  Sum_probs=111.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCC-CCCCCCcceEEeeEEeecCcceEEEEEEEcCCc----------hhhhcccc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFE-DASDSSSELLVNGWTINTKYYTADVSLWMAHLH----------EEFSIRSL  116 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~-~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~----------e~~~~~~~  116 (289)
                      ..+||+++|++|||||||+|+|++.++. ....++.+.+.....+..++.  .+.+|||||+          |.|..+..
T Consensus       174 ~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~~~  251 (436)
T 2hjg_A          174 EVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVLRA  251 (436)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHTSTTEEEC---------CCEEEEETTE--EEEETTHHHHTCBTTBCCCCSHHHHHHH
T ss_pred             cCcEEEEEcCCCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECCe--EEEEEECCCcCcCccccchHHHHHHHHH
Confidence            4589999999999999999999998763 122222222333333333433  5899999998          55654433


Q ss_pred             -ccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchh-HHHHHhhhcccCCCCCcccCCC
Q 040295          117 -PISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHA-EYRRRLLKREESSADPDFCQSG  194 (289)
Q Consensus       117 -~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~-~~~r~~~~~~~~~~~~~~~~~~  194 (289)
                       .+++.+|++|+|||++++.+++.. .|+..+.. ...|+++|+||+|+.+...... +..+.+                
T Consensus       252 ~~~~~~ad~~llv~D~~~~~s~~~~-~~~~~~~~-~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~----------------  313 (436)
T 2hjg_A          252 LKAIDRSEVVAVVLDGEEGIIEQDK-RIAGYAHE-AGKAVVIVVNKWDAVDKDESTMKEFEENI----------------  313 (436)
T ss_dssp             HHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH-TTCEEEEEEECGGGSCCCTTHHHHHHHHH----------------
T ss_pred             HHHHHhCCEEEEEEcCCcCCcHHHH-HHHHHHHH-cCCcEEEEEECccCCCcchHHHHHHHHHH----------------
Confidence             467889999999999998888876 47776654 3458999999999975422110 111111                


Q ss_pred             CCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          195 ISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                            ...+....+++++++||++|            .|++++|+.+.+.+.
T Consensus       314 ----------------------~~~l~~~~~~~~~~~SA~tg------------~~v~~l~~~i~~~~~  348 (436)
T 2hjg_A          314 ----------------------RDHFQFLDYAPILFMSALTK------------KRIHTLMPAIIKASE  348 (436)
T ss_dssp             ----------------------HHHCGGGTTSCEEECCTTTC------------TTGGGHHHHHHHHHH
T ss_pred             ----------------------HHhcccCCCCCEEEEecccC------------CCHHHHHHHHHHHHH
Confidence                                  23334445689999999999            999999999987664

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=99.80  E-value=1.3e-19  Score=176.79  Aligned_cols=157  Identities=15%  Similarity=0.048  Sum_probs=95.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCC-CCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccc--------ccc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFE-DASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRS--------LPI  118 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~-~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~--------~~~  118 (289)
                      .++||+|+|++|||||||+|+|++.++. ....++.+.++....+..++  +.+.+|||||+..+....        ..+
T Consensus       232 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g--~~l~liDT~G~~~~~~~ve~~gi~~~~~~  309 (476)
T 3gee_A          232 EGVSTVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDK--TMFRLTDTAGLREAGEEIEHEGIRRSRMK  309 (476)
T ss_dssp             HCEEEEEECCTTSSHHHHHHHCC------------------CEEEEETT--EEEEEEC--------------------CC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC--eEEEEEECCCCCcchhHHHHHHHHHHHhh
Confidence            4589999999999999999999988642 22222222333333333343  569999999998765433        346


Q ss_pred             ccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcc
Q 040295          119 SDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISET  198 (289)
Q Consensus       119 ~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~  198 (289)
                      ++.+|++|+|||++++.+++.+..+...+......|+|+|+||+|+.+...        +                    
T Consensus       310 ~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l~~~piIvV~NK~Dl~~~~~--------~--------------------  361 (476)
T 3gee_A          310 MAEADLILYLLDLGTERLDDELTEIRELKAAHPAAKFLTVANKLDRAANAD--------A--------------------  361 (476)
T ss_dssp             CSSCSEEEEEEETTTCSSGGGHHHHHHHHHHCTTSEEEEEEECTTSCTTTH--------H--------------------
T ss_pred             cccCCEEEEEEECCCCcchhhhHHHHHHHHhcCCCCEEEEEECcCCCCccc--------h--------------------
Confidence            889999999999999988864433333333333569999999999964311        0                    


Q ss_pred             cCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          199 EGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                       ..+.+......+++++||++|            .|++++|++|.+.+.
T Consensus       362 -----------------~~~~l~~~~~~~~i~vSAktg------------~GI~eL~~~i~~~~~  397 (476)
T 3gee_A          362 -----------------LIRAIADGTGTEVIGISALNG------------DGIDTLKQHMGDLVK  397 (476)
T ss_dssp             -----------------HHHHHHHHHTSCEEECBTTTT------------BSHHHHHHHHTHHHH
T ss_pred             -----------------hHHHHHhcCCCceEEEEECCC------------CCHHHHHHHHHHHHh
Confidence                             012333332368999999999            999999999998775

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=99.80  E-value=4.8e-19  Score=163.02  Aligned_cols=154  Identities=21%  Similarity=0.177  Sum_probs=106.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCC--CCCCcceEEeeEEeecCcceEEEEEEEcCCchh--------hhccccccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDA--SDSSSELLVNGWTINTKYYTADVSLWMAHLHEE--------FSIRSLPIS  119 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~--~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~--------~~~~~~~~~  119 (289)
                      .+|+|+|.+|||||||+|+|++.++...  ...|....... .+.  .....+.+|||||+..        +......++
T Consensus         8 g~V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr~~i~~-i~~--~~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l   84 (301)
T 1wf3_A            8 GFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRG-ILT--EGRRQIVFVDTPGLHKPMDALGEFMDQEVYEAL   84 (301)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEE-EEE--ETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCceeeecCCCCceeEEEEE-EEE--eCCcEEEEecCccccchhhHHHHHHHHHHHHHH
Confidence            5799999999999999999999887532  11222211111 112  2246799999999875        445556778


Q ss_pred             cCccEEEEEEeCCCHhhHHHHHHHH-HHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCc
Q 040295          120 DQLTALVMVFNLNDLSTLDALKHWV-PSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISE  197 (289)
Q Consensus       120 ~~ad~vIlV~Dv~~~~S~~~l~~~~-~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~  197 (289)
                      +.+|++++|||++++.+..  ..|+ ..+.... ..|+++|+||+|+....     . . +                   
T Consensus        85 ~~ad~il~VvD~~~~~~~~--~~~i~~~l~~~~~~~p~ilV~NK~Dl~~~~-----~-~-~-------------------  136 (301)
T 1wf3_A           85 ADVNAVVWVVDLRHPPTPE--DELVARALKPLVGKVPILLVGNKLDAAKYP-----E-E-A-------------------  136 (301)
T ss_dssp             SSCSEEEEEEETTSCCCHH--HHHHHHHHGGGTTTSCEEEEEECGGGCSSH-----H-H-H-------------------
T ss_pred             hcCCEEEEEEECCCCCChH--HHHHHHHHHhhcCCCCEEEEEECcccCCch-----H-H-H-------------------
Confidence            9999999999999875443  3454 4555442 35899999999996420     0 0 1                   


Q ss_pred             ccCCCCCCCCCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          198 TEGSSLLGDEEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       198 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                      ...+..+   .+ .+++++||++|            .|++++++.|...+...
T Consensus       137 ----------------~~~~~~~---~~~~~~~~iSA~~g------------~gv~~l~~~l~~~l~~~  174 (301)
T 1wf3_A          137 ----------------MKAYHEL---LPEAEPRMLSALDE------------RQVAELKADLLALMPEG  174 (301)
T ss_dssp             ----------------HHHHHHT---STTSEEEECCTTCH------------HHHHHHHHHHHTTCCBC
T ss_pred             ----------------HHHHHHh---cCcCcEEEEeCCCC------------CCHHHHHHHHHHhcccC
Confidence                            1113333   33 47999999999            99999999999877544

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.80  E-value=1.1e-18  Score=163.88  Aligned_cols=158  Identities=17%  Similarity=0.194  Sum_probs=114.8

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCC-C-CCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc---------cc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDA-S-DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI---------RS  115 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~-~-~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~---------~~  115 (289)
                      ...++|+++|++|||||||+++|.+..+... + ..|......  .+...  ...+.+|||||...+..         ..
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~~~~~~~~~~t~~~~~~--~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~  240 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAKPEIASYPFTTRGINVG--QFEDG--YFRYQIIDTPGLLDRPISERNEIEKQAI  240 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSCCEEECCTTCSSCEEEE--EEEET--TEEEEEEECTTTSSSCSTTSCHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCeeeceeEE--EEEec--CceEEEEeCCCccccchhhhhHHHHHHH
Confidence            3568999999999999999999998875321 1 122222222  22222  35799999999854321         11


Q ss_pred             cccccCccEEEEEEeCCCHh--hHHHHHHHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccC
Q 040295          116 LPISDQLTALVMVFNLNDLS--TLDALKHWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQ  192 (289)
Q Consensus       116 ~~~~~~ad~vIlV~Dv~~~~--S~~~l~~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~  192 (289)
                      ..+...+|++++|+|++++.  +++....|+..+.... ..|+++|+||+|+...        +.+              
T Consensus       241 ~~~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~~~piilV~NK~Dl~~~--------~~~--------------  298 (357)
T 2e87_A          241 LALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFKDLPFLVVINKIDVADE--------ENI--------------  298 (357)
T ss_dssp             HGGGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTTTSCEEEEECCTTTCCH--------HHH--------------
T ss_pred             HHHHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcCCCCEEEEEECcccCCh--------HHH--------------
Confidence            13345699999999999887  7888889998887654 5699999999999631        111              


Q ss_pred             CCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          193 SGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                            ..+..++...+++++++||++|            +|++++|++|++.+..
T Consensus       299 ----------------------~~~~~~~~~~~~~~~~iSA~~g------------~gi~~l~~~i~~~l~~  336 (357)
T 2e87_A          299 ----------------------KRLEKFVKEKGLNPIKISALKG------------TGIDLVKEEIIKTLRP  336 (357)
T ss_dssp             ----------------------HHHHHHHHHTTCCCEECBTTTT------------BTHHHHHHHHHHHHHH
T ss_pred             ----------------------HHHHHHHHhcCCCeEEEeCCCC------------cCHHHHHHHHHHHHHH
Confidence                                  1145666678899999999999            9999999999987743

>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger, initiate translation, tRNA binding, mRNA bindin binding; HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB: 3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A* 3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*

Probab=99.79  E-value=1.5e-18  Score=165.42  Aligned_cols=164  Identities=13%  Similarity=0.154  Sum_probs=118.8

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeE------------Eee----------cCcceEEEEEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGW------------TIN----------TKYYTADVSLW  103 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~------------~i~----------~~~~~~~l~I~  103 (289)
                      ..+.++|+++|++|+|||||+++|++......    .+......            ...          .......+.+|
T Consensus         5 ~~~~~~I~vvG~~~~GKSTLi~~L~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii   80 (403)
T 3sjy_A            5 VQPEVNIGVVGHVDHGKTTLVQAITGIWTSKK----LGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRISFI   80 (403)
T ss_dssp             CCCCCEEEEECSTTSSHHHHHHHHHSCCCCSS----SEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEEEEEEE
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHhCcccccc----cCccccceeeccccccccceecccccccccccccccccceEEEE
Confidence            34568999999999999999999998654321    11100000            000          01123679999


Q ss_pred             EcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhccc
Q 040295          104 MAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREE  183 (289)
Q Consensus       104 Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~  183 (289)
                      ||||++.|......+++.+|++|+|+|+++..++.....|+..+...+.+|+++|+||+|+.+.     +...       
T Consensus        81 DtPGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~-----~~~~-------  148 (403)
T 3sjy_A           81 DAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDVVSK-----EEAL-------  148 (403)
T ss_dssp             ECCCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGSCH-----HHHH-------
T ss_pred             ECCCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcCCCCEEEEEECccccch-----HHHH-------
Confidence            9999999988888889999999999999988778888888887777777789999999999642     1111       


Q ss_pred             CCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHc---CCeEEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          184 SSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEH---RIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       184 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                                                  +..+.+.+++...   +++++++||++|            .|+++++++|.+
T Consensus       149 ----------------------------~~~~~i~~~l~~~~~~~~~ii~vSA~~g------------~gi~~L~~~l~~  188 (403)
T 3sjy_A          149 ----------------------------SQYRQIKQFTKGTWAENVPIIPVSALHK------------INIDSLIEGIEE  188 (403)
T ss_dssp             ----------------------------HHHHHHHHHHTTSTTTTCCEEECBTTTT------------BSHHHHHHHHHH
T ss_pred             ----------------------------HHHHHHHHHHHhhCCCCCEEEEEECCCC------------cChHHHHHHHHH
Confidence                                        1112233444333   467999999999            999999999998


Q ss_pred             hcccC
Q 040295          261 HMWPG  265 (289)
Q Consensus       261 ~~~~~  265 (289)
                      .+.+.
T Consensus       189 ~l~~~  193 (403)
T 3sjy_A          189 YIKTP  193 (403)
T ss_dssp             HSCCC
T ss_pred             hCCCC
Confidence            66443

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.78  E-value=6.6e-19  Score=169.65  Aligned_cols=150  Identities=15%  Similarity=0.103  Sum_probs=99.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCC-CCCCCCcceEEeeEEeecCcceEEEEEEEcCCchh---------hhccccccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFE-DASDSSSELLVNGWTINTKYYTADVSLWMAHLHEE---------FSIRSLPIS  119 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~-~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~---------~~~~~~~~~  119 (289)
                      .+|+|+|.+|||||||+|+|++.... ....+..+.++....+...+  ..+.+|||||++.         +......++
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~   79 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYG--KTFKLVDTCGVFDNPQDIISQKMKEVTLNMI   79 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETT--EEEEEEECTTTTSSGGGCCCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEECC--eEEEEEECCCccccccchHHHHHHHHHHHHH
Confidence            58999999999999999999988743 12222222233333333343  3589999999764         233445678


Q ss_pred             cCccEEEEEEeCCCHhhHH--HHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCc
Q 040295          120 DQLTALVMVFNLNDLSTLD--ALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISE  197 (289)
Q Consensus       120 ~~ad~vIlV~Dv~~~~S~~--~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~  197 (289)
                      +.+|++|+|||++++.+..  .+..|+..    ...|+++|+||+|+..        ....                   
T Consensus        80 ~~ad~il~V~D~~~~~~~~d~~i~~~l~~----~~~p~ilv~NK~D~~~--------~~~~-------------------  128 (439)
T 1mky_A           80 READLVLFVVDGKRGITKEDESLADFLRK----STVDTILVANKAENLR--------EFER-------------------  128 (439)
T ss_dssp             TTCSEEEEEEETTTCCCHHHHHHHHHHHH----HTCCEEEEEESCCSHH--------HHHH-------------------
T ss_pred             HhCCEEEEEEECCCCCCHHHHHHHHHHHH----cCCCEEEEEeCCCCcc--------ccHH-------------------
Confidence            9999999999998765543  23344432    2458999999999831        1001                   


Q ss_pred             ccCCCCCCCCCCcHHHHHHH-HHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          198 TEGSSLLGDEEPSWEIRRSC-LEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       198 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                        .+ .++. ..++ +++++||++|            .|+.++|++|.+.+.
T Consensus       129 ------------------~~~~~~~-~lg~~~~~~iSA~~g------------~gv~~L~~~i~~~l~  165 (439)
T 1mky_A          129 ------------------EVKPELY-SLGFGEPIPVSAEHN------------INLDTMLETIIKKLE  165 (439)
T ss_dssp             ------------------HTHHHHG-GGSSCSCEECBTTTT------------BSHHHHHHHHHHHHH
T ss_pred             ------------------HHHHHHH-hcCCCCEEEEeccCC------------CCHHHHHHHHHHhcc
Confidence                              02 3444 4677 7999999999            999999999998764

>1s0u_A EIF-2-gamma, translation initiation factor 2 gamma subunit; GTPase, EF-1A, tRNA; 2.40A {Methanocaldococcus jannaschii} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.78  E-value=5e-18  Score=162.05  Aligned_cols=162  Identities=17%  Similarity=0.197  Sum_probs=106.2

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCC---CCCCCCC--CcceEEeeEEeec-------------C--c----ceEEEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVN---FEDASDS--SSELLVNGWTINT-------------K--Y----YTADVSL  102 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~---~~~~~~~--t~~~~~~~~~i~~-------------~--~----~~~~l~I  102 (289)
                      .+.++|+++|+.++|||||+++|.+..   +..+..+  |....+....+..             .  +    ....+.+
T Consensus         6 ~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~i   85 (408)
T 1s0u_A            6 QAEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSF   85 (408)
T ss_dssp             CCCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEEE
T ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEEE
Confidence            345899999999999999999998543   3333333  5544444333311             0  1    1267999


Q ss_pred             EEcCCchhhhccccccccCccEEEEEEeCC----CHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHh
Q 040295          103 WMAHLHEEFSIRSLPISDQLTALVMVFNLN----DLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRL  178 (289)
Q Consensus       103 ~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~----~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~  178 (289)
                      |||||++.|.......+..+|++|+|+|++    .+++++.+..|    ...+.+|+++|+||+|+......        
T Consensus        86 iDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~----~~l~~~~iivv~NK~Dl~~~~~~--------  153 (408)
T 1s0u_A           86 VDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMAL----EILGIDKIIIVQNKIDLVDEKQA--------  153 (408)
T ss_dssp             EECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHHH----HHTTCCCEEEEEECTTSSCTTTT--------
T ss_pred             EECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHHH----HHcCCCeEEEEEEccCCCCHHHH--------
Confidence            999999999876667778899999999998    46677766543    33444589999999999643110        


Q ss_pred             hhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHH---cCCeEEEeecCCCcccccccCCCCchhHHHHH
Q 040295          179 LKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTE---HRIEYIEACASNVDFDKCLSIDGDSQGVERLY  255 (289)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~  255 (289)
                                                      .+..+++.+++..   .+++++++||++|            .|+++++
T Consensus       154 --------------------------------~~~~~~i~~~l~~~~~~~~~~i~vSA~~g------------~gi~~L~  189 (408)
T 1s0u_A          154 --------------------------------EENYEQIKEFVKGTIAENAPIIPISAHHE------------ANIDVLL  189 (408)
T ss_dssp             --------------------------------TTHHHHHHHHHTTSTTTTCCEEEC------------------CHHHHH
T ss_pred             --------------------------------HHHHHHHHHHHhhcCCCCCeEEEeeCCCC------------CCHHHHH
Confidence                                            0111224555554   3578999999999            9999999


Q ss_pred             HHHHHhccc
Q 040295          256 GALSAHMWP  264 (289)
Q Consensus       256 ~~L~~~~~~  264 (289)
                      ++|.+.+..
T Consensus       190 ~~l~~~i~~  198 (408)
T 1s0u_A          190 KAIQDFIPT  198 (408)
T ss_dssp             HHHHHHSCC
T ss_pred             HHHHHhCCC
Confidence            999986654

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.78  E-value=2.7e-19  Score=173.12  Aligned_cols=163  Identities=12%  Similarity=0.042  Sum_probs=107.9

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCC-CCCCCCcceEEeeEEeecCcceEEEEEEEcCC----------chhhhcc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFE-DASDSSSELLVNGWTINTKYYTADVSLWMAHL----------HEEFSIR  114 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~-~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G----------~e~~~~~  114 (289)
                      ....+||+++|.+|||||||+++|++.+.. ....++.+.+.....+..++  ..+.+|||||          ++.|..+
T Consensus       192 ~~~~~ki~ivG~~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~e~~~~~  269 (456)
T 4dcu_A          192 NEEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQ--QEFVIVDTAGMRKKGKVYETTEKYSVL  269 (456)
T ss_dssp             CTTCEEEEEECSTTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETT--EEEEETTGGGTTTBTTBCCCCSHHHHH
T ss_pred             ccccceeEEecCCCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECC--ceEEEEECCCCCcCcccchHHHHHHHH
Confidence            345689999999999999999999987632 12222222222223333333  3689999999          7888766


Q ss_pred             cc-ccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCC
Q 040295          115 SL-PISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQS  193 (289)
Q Consensus       115 ~~-~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~  193 (289)
                      .. .+++.+|++|+|+|+++..+. ....|...+.. ...|+++|+||+|+.......                      
T Consensus       270 ~~~~~~~~ad~~llviD~~~~~~~-~~~~~~~~~~~-~~~~~ilv~NK~Dl~~~~~~~----------------------  325 (456)
T 4dcu_A          270 RALKAIDRSEVVAVVLDGEEGIIE-QDKRIAGYAHE-AGKAVVIVVNKWDAVDKDEST----------------------  325 (456)
T ss_dssp             HHHHHHHHCSEEEEEEETTTCCCH-HHHHHHHHHHH-TTCEEEEEEECGGGSCCCSSH----------------------
T ss_pred             HHHHHHhhCCEEEEEEeCCCCcCH-HHHHHHHHHHH-cCCCEEEEEEChhcCCCchHH----------------------
Confidence            54 367899999999999875432 22345555544 345899999999997532211                      


Q ss_pred             CCCcccCCCCCCCCCCcHHHHHHHHHHHHH-cCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          194 GISETEGSSLLGDEEPSWEIRRSCLEWCTE-HRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                      ..+..+.+...... .+++++++||++|            .|++++|+.|.+.+
T Consensus       326 ----------------~~~~~~~~~~~~~~~~~~~~~~~SA~~g------------~gv~~l~~~i~~~~  367 (456)
T 4dcu_A          326 ----------------MKEFEENIRDHFQFLDYAPILFMSALTK------------KRIHTLMPAIIKAS  367 (456)
T ss_dssp             ----------------HHHHHHHHHHHCGGGTTSCEEECCTTTC------------TTGGGHHHHHHHHH
T ss_pred             ----------------HHHHHHHHHHhcccCCCCCEEEEcCCCC------------cCHHHHHHHHHHHH
Confidence                            11111122322222 2478999999999            99999999998865

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.77  E-value=1.6e-19  Score=173.56  Aligned_cols=159  Identities=13%  Similarity=0.032  Sum_probs=108.9

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCC-CCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcccc-------c
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDA-SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSL-------P  117 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~-~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~-------~  117 (289)
                      ....++|+|+|+.|+|||||+++|++..+... ..+....+.....+...+. ..+.+|||||++.|..+..       .
T Consensus        31 ~~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~-~~l~liDTpG~~d~~~l~~~~~~~~~~  109 (423)
T 3qq5_A           31 AGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPI-GPVTLVDTPGLDDVGELGRLRVEKARR  109 (423)
T ss_dssp             -CCCEEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTT-EEEEEEECSSTTCCCTTCCCCHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCC-CeEEEEECcCCCcccchhHHHHHHHHH
Confidence            34568999999999999999999999886321 1122222222222222222 2789999999998876532       3


Q ss_pred             cccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCc
Q 040295          118 ISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISE  197 (289)
Q Consensus       118 ~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~  197 (289)
                      +++.+|++|+|||++.....   ..|+..+... ..|+++|+||+|+......                           
T Consensus       110 ~l~~aD~vllVvD~~~~~~~---~~~l~~l~~~-~~piIvV~NK~Dl~~~~~~---------------------------  158 (423)
T 3qq5_A          110 VFYRADCGILVTDSAPTPYE---DDVVNLFKEM-EIPFVVVVNKIDVLGEKAE---------------------------  158 (423)
T ss_dssp             HHTSCSEEEEECSSSCCHHH---HHHHHHHHHT-TCCEEEECCCCTTTTCCCT---------------------------
T ss_pred             HHhcCCEEEEEEeCCChHHH---HHHHHHHHhc-CCCEEEEEeCcCCCCccHH---------------------------
Confidence            68889999999999544333   4566666554 3479999999999643211                           


Q ss_pred             ccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          198 TEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       198 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                       +.+.+++..++++++++||++|            .|++++|++|.+.+...
T Consensus       159 -----------------~~~~~l~~~~g~~v~~vSAktg------------~gI~eL~~~L~~~l~~~  197 (423)
T 3qq5_A          159 -----------------ELKGLYESRYEAKVLLVSALQK------------KGFDDIGKTISEILPGD  197 (423)
T ss_dssp             -----------------HHHHHSSCCTTCCCCCCSSCCT------------TSTTTHHHHHHHHSCCC
T ss_pred             -----------------HHHHHHHHHcCCCEEEEECCCC------------CCHHHHHHHHHHhhhhh
Confidence                             1256677778899999999999            99999999999988554

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.77  E-value=5e-19  Score=149.63  Aligned_cols=113  Identities=19%  Similarity=0.237  Sum_probs=86.7

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCC---CCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccC--
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDA---SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQ--  121 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~---~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~--  121 (289)
                      ...++|+|+|++|||||||+++|.+..+...   +.++.+.         ....+.+.+|||||++.+...+..+++.  
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~~~---------~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~  116 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAA---------DYDGSGVTLVDFPGHVKLRYKLSDYLKTRA  116 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSSCC---------------------CCCCTTCSEEEETTCCBSSCCHHHHHHHHG
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCcccccCCCceee---------eecCCeEEEEECCCCchHHHHHHHHHHhhc
Confidence            4568999999999999999999999886431   1222211         1134568999999999998777777765  


Q ss_pred             --ccEEEEEEeCC-CHhhHHHHHHHHHHhhhc------CCCeEEEEeeCCCCCCCC
Q 040295          122 --LTALVMVFNLN-DLSTLDALKHWVPSIDLQ------KFEILLCIGNKVDLLPGH  168 (289)
Q Consensus       122 --ad~vIlV~Dv~-~~~S~~~l~~~~~~i~~~------~~~~iivvgnK~Dl~~~~  168 (289)
                        +|++|+|||++ ++.+|..+..|+..+...      ...|+++|+||+|+....
T Consensus       117 ~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~  172 (193)
T 2ged_A          117 KFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTAR  172 (193)
T ss_dssp             GGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCC
T ss_pred             ccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCC
Confidence              89999999999 999999999988776432      345899999999997644

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=99.77  E-value=7.3e-19  Score=164.72  Aligned_cols=155  Identities=12%  Similarity=0.032  Sum_probs=114.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCC-CCCC-CCcceEEeeEEeecCcceEEEEEEEcCCchh----hhcccccccc---
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFE-DASD-SSSELLVNGWTINTKYYTADVSLWMAHLHEE----FSIRSLPISD---  120 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~-~~~~-~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~----~~~~~~~~~~---  120 (289)
                      .+|+|+|.+|||||||+++|++..+. ..+. .|.......+.+..   ...+.+|||||+..    +..+...+++   
T Consensus       159 a~V~lvG~~nvGKSTLln~L~~~~~~i~~~~ftTl~p~~g~v~~~~---~~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~  235 (342)
T 1lnz_A          159 ADVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDD---GRSFVMADLPGLIEGAHQGVGLGHQFLRHIE  235 (342)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSS---SCEEEEEEHHHHHHHTTCTTTTHHHHHHHHH
T ss_pred             CeeeeeCCCCCCHHHHHHHHHcCCCccccCCccccCceEEEEEeCC---CceEEEecCCCCcccccccchhHHHHHHHHH
Confidence            57999999999999999999987642 1222 33333333233222   14689999999643    3334444544   


Q ss_pred             CccEEEEEEeCCC---HhhHHHHHHHHHHhhhcC----CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCC
Q 040295          121 QLTALVMVFNLND---LSTLDALKHWVPSIDLQK----FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQS  193 (289)
Q Consensus       121 ~ad~vIlV~Dv~~---~~S~~~l~~~~~~i~~~~----~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~  193 (289)
                      .++++|+|+|+++   +.+++.+..|+..+....    ..|+++|+||+|+..        .+..               
T Consensus       236 ~~d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~--------~~e~---------------  292 (342)
T 1lnz_A          236 RTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPE--------AAEN---------------  292 (342)
T ss_dssp             HCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTT--------HHHH---------------
T ss_pred             hccEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCC--------CHHH---------------
Confidence            4999999999998   889999999999988754    448999999999953        1111               


Q ss_pred             CCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC--CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          194 GISETEGSSLLGDEEPSWEIRRSCLEWCTEHR--IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                             +..++...+  ++++++||+++            .|+++++.+|.+.+...
T Consensus       293 -----------------------~~~l~~~l~~~~~v~~iSA~tg------------~gi~eL~~~l~~~l~~~  331 (342)
T 1lnz_A          293 -----------------------LEAFKEKLTDDYPVFPISAVTR------------EGLRELLFEVANQLENT  331 (342)
T ss_dssp             -----------------------HHHHHHHCCSCCCBCCCSSCCS------------STTHHHHHHHHHHHTSC
T ss_pred             -----------------------HHHHHHHhhcCCCEEEEECCCC------------cCHHHHHHHHHHHHhhC
Confidence                                   456666665  68999999999            99999999999987544

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.77  E-value=3.2e-19  Score=171.71  Aligned_cols=151  Identities=17%  Similarity=0.149  Sum_probs=98.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEE--eeEEeecCcceEEEEEEEcCCch--------hhhccccccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLV--NGWTINTKYYTADVSLWMAHLHE--------EFSIRSLPIS  119 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~--~~~~i~~~~~~~~l~I~Dt~G~e--------~~~~~~~~~~  119 (289)
                      ++|+|+|.+|||||||+|+|.+..+. ....+.+.+.  ....+...  ...+.+|||||++        .+......++
T Consensus         4 ~~V~ivG~~nvGKStL~n~l~~~~~~-~v~~~~g~T~d~~~~~~~~~--~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~   80 (436)
T 2hjg_A            4 PVVAIVGRPNVGKSTIFNRIAGERIS-IVEDTPGVTRDRIYSSAEWL--NYDFNLIDTGGIDIGDEPFLAQIRQQAEIAM   80 (436)
T ss_dssp             CEEEEECSTTSSHHHHHHHHEEEECC------------CEEEECTTC--SSCCEEEC---------CHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCce-eecCCCCCccceEEEEEEEC--CceEEEEECCCCCCcchhHHHHHHHHHHHHH
Confidence            68999999999999999999987753 2233344332  22233333  3468999999985        5666667788


Q ss_pred             cCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCccc
Q 040295          120 DQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETE  199 (289)
Q Consensus       120 ~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~  199 (289)
                      +.+|++|+|+|++++.++..  .|+..+-.....|+++|+||+|+...        +..                     
T Consensus        81 ~~ad~il~vvD~~~~~~~~d--~~~~~~l~~~~~pvilv~NK~D~~~~--------~~~---------------------  129 (436)
T 2hjg_A           81 DEADVIIFMVNGREGVTAAD--EEVAKILYRTKKPVVLAVNKLDNTEM--------RAN---------------------  129 (436)
T ss_dssp             HHCSEEEEEEETTTCSCHHH--HHHHHHHTTCCSCEEEEEECCCC-------------C---------------------
T ss_pred             HhCCEEEEEEeCCCCCCHHH--HHHHHHHHHcCCCEEEEEECccCccc--------hhh---------------------
Confidence            99999999999998766654  34433333345589999999999531        000                     


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          200 GSSLLGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                       +.++. ..++ +++++||++|            .|+.++++++...+.+
T Consensus       130 -----------------~~~~~-~lg~~~~~~iSA~~g------------~gv~~L~~~i~~~l~~  165 (436)
T 2hjg_A          130 -----------------IYDFY-SLGFGEPYPISGTHG------------LGLGDLLDAVAEHFKN  165 (436)
T ss_dssp             -----------------CCSSG-GGSSCCCEECBTTTT------------BTHHHHHHHHHHTGGG
T ss_pred             -----------------HHHHH-HcCCCCeEEEeCcCC------------CChHHHHHHHHHhcCc
Confidence                             11122 2455 6899999999            9999999999987753

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=99.76  E-value=1.1e-17  Score=153.65  Aligned_cols=156  Identities=13%  Similarity=0.089  Sum_probs=107.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCC--CCCCcceEEeeEEeecCcceEEEEEEEcCCch---------hhhcccccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDA--SDSSSELLVNGWTINTKYYTADVSLWMAHLHE---------EFSIRSLPI  118 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~--~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e---------~~~~~~~~~  118 (289)
                      .+|+|+|++|||||||++++++..+...  ...+........ +...  ...+.+|||||++         .+......+
T Consensus         9 ~~VaIvG~~nvGKSTLln~L~g~~~~i~s~~~~tTr~~~~gi-~~~~--~~~i~~iDTpG~~~~~~~~l~~~~~~~~~~~   85 (301)
T 1ega_A            9 GFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGI-HTEG--AYQAIYVDTPGLHMEEKRAINRLMNKAASSS   85 (301)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEE-EEET--TEEEEEESSSSCCHHHHHHHHHHHTCCTTSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCccccCCCCCcceeeEEEE-EEEC--CeeEEEEECcCCCccchhhHHHHHHHHHHHH
Confidence            5799999999999999999999876321  111221111111 2222  3578999999987         344445677


Q ss_pred             ccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcc
Q 040295          119 SDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISET  198 (289)
Q Consensus       119 ~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~  198 (289)
                      ++.+|++++|+|.++   +.....|+...-.....|+++|+||+|+...       .                       
T Consensus        86 l~~~D~vl~Vvd~~~---~~~~~~~i~~~l~~~~~P~ilvlNK~D~~~~-------~-----------------------  132 (301)
T 1ega_A           86 IGDVELVIFVVEGTR---WTPDDEMVLNKLREGKAPVILAVNKVDNVQE-------K-----------------------  132 (301)
T ss_dssp             CCCEEEEEEEEETTC---CCHHHHHHHHHHHSSSSCEEEEEESTTTCCC-------H-----------------------
T ss_pred             HhcCCEEEEEEeCCC---CCHHHHHHHHHHHhcCCCEEEEEECcccCcc-------H-----------------------
Confidence            889999999999976   3344445543333334589999999999531       0                       


Q ss_pred             cCCCCCCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          199 EGSSLLGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                  ......+..++..+++ .++++||+++            .|++++++.|...+.+.
T Consensus       133 ------------~~~~~~l~~l~~~~~~~~~i~iSA~~g------------~~v~~l~~~i~~~l~~~  176 (301)
T 1ega_A          133 ------------ADLLPHLQFLASQMNFLDIVPISAETG------------LNVDTIAAIVRKHLPEA  176 (301)
T ss_dssp             ------------HHHHHHHHHHHTTSCCSEEEECCTTTT------------TTHHHHHHHHHTTCCBC
T ss_pred             ------------HHHHHHHHHHHHhcCcCceEEEECCCC------------CCHHHHHHHHHHhCCcC
Confidence                        1111225667776776 6999999999            99999999999876543

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=99.75  E-value=5.2e-18  Score=149.70  Aligned_cols=175  Identities=13%  Similarity=0.083  Sum_probs=104.2

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCC--CcceEEeeEEeecCcceEEEEEEEcCCc-----------hhh
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDS--SSELLVNGWTINTKYYTADVSLWMAHLH-----------EEF  111 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~--t~~~~~~~~~i~~~~~~~~l~I~Dt~G~-----------e~~  111 (289)
                      .....+||+|+|++|||||||+++|++..+.....+  +.........+...+  ..+.||||||.           +.+
T Consensus        25 ~~~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~liDTpG~~~~~~~~~~~~~~~  102 (239)
T 3lxx_A           25 PRNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKE--TELVVVDTPGIFDTEVPNAETSKEI  102 (239)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETT--EEEEEEECCSCC-----CHHHHHHH
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCC--ceEEEEECCCccCCCCCHHHHHHHH
Confidence            344568999999999999999999999887544333  222222222333332  46899999993           344


Q ss_pred             hccccccccCccEEEEEEeCCCHhh--HHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCc
Q 040295          112 SIRSLPISDQLTALVMVFNLNDLST--LDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPD  189 (289)
Q Consensus       112 ~~~~~~~~~~ad~vIlV~Dv~~~~S--~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~  189 (289)
                      ......+++++|++|+|+|+++...  ...+..+...+......|+++|+||+|+......    ...+           
T Consensus       103 ~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~l~~~~~~~~~~~~~~~iiv~nK~D~~~~~~~----~~~i-----------  167 (239)
T 3lxx_A          103 IRCILLTSPGPHALLLVVPLGRYTEEEHKATEKILKMFGERARSFMILIFTRKDDLGDTNL----HDYL-----------  167 (239)
T ss_dssp             HHHHHHTTTCCSEEEEEEETTCCSSHHHHHHHHHHHHHHHHHGGGEEEEEECGGGC------------------------
T ss_pred             HHHHHhcCCCCcEEEEEeeCCCCCHHHHHHHHHHHHHhhhhccceEEEEEeCCccCCcccH----HHHH-----------
Confidence            4444556678999999999875433  3333333333332223489999999999653211    1111           


Q ss_pred             ccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          190 FCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                           ....+.++.++...+..|+.++...++-.       ...++.++|..+.+.+..
T Consensus       168 ---------------------~~~~~~l~~l~~~~~~~~~~~~~~~~~~~-------~~~~v~~ll~~i~~~~~~  214 (239)
T 3lxx_A          168 ---------------------REAPEDIQDLMDIFGDRYCALNNKATGAE-------QEAQRAQLLGLIQRVVRE  214 (239)
T ss_dssp             ------------------------CHHHHHHHHHHSSSEEECCTTCCHHH-------HHHHHHHHHHHHHHHHHH
T ss_pred             ---------------------HhchHHHHHHHHHcCCEEEEEECCCCccc-------cHHHHHHHHHHHHHHHHH
Confidence                                 00012367788888888887766532000       116899999988776643

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=99.75  E-value=8.9e-18  Score=149.81  Aligned_cols=169  Identities=12%  Similarity=0.079  Sum_probs=102.8

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCC-CCCCCCCC-cceEEeeEEeecCcceEEEEEEEcCCchhhhccc--------
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVN-FEDASDSS-SELLVNGWTINTKYYTADVSLWMAHLHEEFSIRS--------  115 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~-~~~~~~~t-~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~--------  115 (289)
                      ....++|+|+|++|||||||+++|++.. +...+.++ .........+...  ...+.||||||+..+....        
T Consensus        19 ~~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~--~~~i~iiDTpG~~~~~~~~~~~~~~i~   96 (260)
T 2xtp_A           19 SRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWG--NREIVIIDTPDMFSWKDHCEALYKEVQ   96 (260)
T ss_dssp             --CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEET--TEEEEEEECCGGGGSSCCCHHHHHHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeC--CCEEEEEECcCCCCCCCCHHHHHHHHH
Confidence            3456899999999999999999999887 43333332 2222222222223  2469999999987653322        


Q ss_pred             ---cccccCccEEEEEEeCCCHhh-HHHHHHHHHHhhhc--CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCc
Q 040295          116 ---LPISDQLTALVMVFNLNDLST-LDALKHWVPSIDLQ--KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPD  189 (289)
Q Consensus       116 ---~~~~~~ad~vIlV~Dv~~~~S-~~~l~~~~~~i~~~--~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~  189 (289)
                         ..+++.+|++|+|||+++... ...+..|+..+...  ..+++++++||+|+... .    ....+.          
T Consensus        97 ~~~~~~~~~~d~il~V~d~~~~~~~~~~~~~~l~~~~~~~~~~~~i~vv~nK~Dl~~~-~----~~~~i~----------  161 (260)
T 2xtp_A           97 RCYLLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIFGEDAMGHTIVLFTHKEDLNGG-S----LMDYMH----------  161 (260)
T ss_dssp             HHHHHHTTCCSEEEEEEETTCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECGGGGTTC-C----HHHHHH----------
T ss_pred             HHHHhcCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCchhhccEEEEEEcccccCCc-c----HHHHHH----------
Confidence               225788999999999986222 22333444443221  23456666669999632 1    111110          


Q ss_pred             ccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCe---E--EEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          190 FCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIE---Y--IEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~--ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                     ..  ..    ..+..++...+..   +  +++||+++            .|++++|..|.+.+..
T Consensus       162 ---------------~~--~~----~~~~~~~~~~~~~~~~~~~~~~SA~~~------------~gv~~l~~~i~~~~~~  208 (260)
T 2xtp_A          162 ---------------DS--DN----KALSKLVAACGGRICAFNNRAEGSNQD------------DQVKELMDCIEDLLME  208 (260)
T ss_dssp             ---------------HC--CC----HHHHHHHHHTTTCEEECCTTCCHHHHH------------HHHHHHHHHHHHHHHH
T ss_pred             ---------------hc--ch----HHHHHHHHHhCCeEEEecCcccccccH------------HHHHHHHHHHHHHHHh
Confidence                           00  00    1134455554432   2  78999999            9999999999987654

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.75  E-value=2.1e-18  Score=155.96  Aligned_cols=161  Identities=9%  Similarity=0.070  Sum_probs=96.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCC-CCC-------CCCcceEEeeEEeecCcceEEEEEEEcCCch-------hhh
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFE-DAS-------DSSSELLVNGWTINTKYYTADVSLWMAHLHE-------EFS  112 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~-~~~-------~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e-------~~~  112 (289)
                      ..++|+|+|.+|+|||||+|++++.+.. ..+       .+|.+.......+..++..+.+.+|||||..       .+.
T Consensus         7 ~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~~~~   86 (274)
T 3t5d_A            7 FEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQ   86 (274)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTTTTH
T ss_pred             cEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchhhHH
Confidence            3589999999999999999998876643 333       5677777777777777777899999999973       222


Q ss_pred             ccc-------ccccc-------------CccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchh
Q 040295          113 IRS-------LPISD-------------QLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHA  172 (289)
Q Consensus       113 ~~~-------~~~~~-------------~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~  172 (289)
                      .+.       ..|++             .+|+++++++.+.......-..++..+..  ..|+|+|+||+|+...     
T Consensus        87 ~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~--~~pvi~V~nK~D~~~~-----  159 (274)
T 3t5d_A           87 PVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE--KVNIIPLIAKADTLTP-----  159 (274)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT--TSCEEEEESSGGGSCH-----
T ss_pred             HHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc--cCCEEEEEeccCCCCH-----
Confidence            221       22222             37789999976642222222335555554  4589999999999642     


Q ss_pred             HHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHH
Q 040295          173 EYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVE  252 (289)
Q Consensus       173 ~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~  252 (289)
                       .+  +                                ......+.+.+..++++++++||+++            +|+.
T Consensus       160 -~e--~--------------------------------~~~~~~i~~~l~~~~i~v~~~sa~~~------------~~~~  192 (274)
T 3t5d_A          160 -EE--C--------------------------------QQFKKQIMKEIQEHKIKIYEFPETDD------------EEEN  192 (274)
T ss_dssp             -HH--H--------------------------------HHHHHHHHHHHHHTTCCCCCC---------------------
T ss_pred             -HH--H--------------------------------HHHHHHHHHHHHHcCCeEEcCCCCCC------------hhHH
Confidence             11  1                                11223356667778999999999999            9999


Q ss_pred             HHHHHHHHhc
Q 040295          253 RLYGALSAHM  262 (289)
Q Consensus       253 ~l~~~L~~~~  262 (289)
                      +++++|...+
T Consensus       193 ~l~~~l~~~~  202 (274)
T 3t5d_A          193 KLVKKIKDRL  202 (274)
T ss_dssp             --CHHHHHTC
T ss_pred             HHHHHHhcCC
Confidence            9999998865

>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A* 1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*

Probab=99.75  E-value=1.4e-17  Score=158.99  Aligned_cols=162  Identities=17%  Similarity=0.149  Sum_probs=113.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCC---CCCCCCC--CcceEEeeEEeecC---------------c----ceEEEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVN---FEDASDS--SSELLVNGWTINTK---------------Y----YTADVSLW  103 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~---~~~~~~~--t~~~~~~~~~i~~~---------------~----~~~~l~I~  103 (289)
                      +.++|+++|+.++|||||+++|.+..   +..+..+  |+...+....+...               +    ....+.+|
T Consensus         9 ~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~ii   88 (410)
T 1kk1_A            9 AEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFI   88 (410)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEEEEE
Confidence            45899999999999999999998543   2223333  55544443333210               1    12679999


Q ss_pred             EcCCchhhhccccccccCccEEEEEEeCC----CHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhh
Q 040295          104 MAHLHEEFSIRSLPISDQLTALVMVFNLN----DLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLL  179 (289)
Q Consensus       104 Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~----~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~  179 (289)
                      ||||++.|.......+..+|++|+|+|++    .+++++.+..|    ...+.+|+++|+||+|+...      ....  
T Consensus        89 DtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~----~~~~~~~iivviNK~Dl~~~------~~~~--  156 (410)
T 1kk1_A           89 DAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMAL----QIIGQKNIIIAQNKIELVDK------EKAL--  156 (410)
T ss_dssp             ECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHH----HHHTCCCEEEEEECGGGSCH------HHHH--
T ss_pred             ECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHHHH----HHcCCCcEEEEEECccCCCH------HHHH--
Confidence            99999999776666677889999999998    45677666543    23345689999999999641      1100  


Q ss_pred             hcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHH---cCCeEEEeecCCCcccccccCCCCchhHHHHHH
Q 040295          180 KREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTE---HRIEYIEACASNVDFDKCLSIDGDSQGVERLYG  256 (289)
Q Consensus       180 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~  256 (289)
                                                      +..+++.+++..   .+++++++||+++            .|++++++
T Consensus       157 --------------------------------~~~~~i~~~l~~~~~~~~~~i~vSA~~g------------~gi~~L~~  192 (410)
T 1kk1_A          157 --------------------------------ENYRQIKEFIEGTVAENAPIIPISALHG------------ANIDVLVK  192 (410)
T ss_dssp             --------------------------------HHHHHHHHHHTTSTTTTCCEEECBTTTT------------BSHHHHHH
T ss_pred             --------------------------------HHHHHHHHHHHhcCcCCCeEEEeeCCCC------------CCHHHHHH
Confidence                                            111224555554   3578999999999            99999999


Q ss_pred             HHHHhcccC
Q 040295          257 ALSAHMWPG  265 (289)
Q Consensus       257 ~L~~~~~~~  265 (289)
                      +|.+.+...
T Consensus       193 ~l~~~~~~p  201 (410)
T 1kk1_A          193 AIEDFIPTP  201 (410)
T ss_dssp             HHHHHSCCC
T ss_pred             HHHHhCCCC
Confidence            999866543

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=99.74  E-value=1.1e-17  Score=155.73  Aligned_cols=131  Identities=12%  Similarity=0.175  Sum_probs=94.1

Q ss_pred             eEEEEEEEcCCchhhhccccccccCccEEEEEEeCC----------CHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCC
Q 040295           97 TADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLN----------DLSTLDALKHWVPSIDLQ---KFEILLCIGNKVD  163 (289)
Q Consensus        97 ~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~----------~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~D  163 (289)
                      .+.+++|||+||++++.++..|+++++++|||||++          +..+|+....|+..+...   ...|++|+|||+|
T Consensus       166 ~v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~~~~~~iiL~~NK~D  245 (327)
T 3ohm_A          166 SVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKD  245 (327)
T ss_dssp             TEEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGGGTTCEEEEEEECHH
T ss_pred             ceeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhhccCCceEEEEEECch
Confidence            478999999999999999999999999999999654          778888888888887654   3349999999999


Q ss_pred             CCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHH----------HHHcCCeEEEeec
Q 040295          164 LLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEW----------CTEHRIEYIEACA  233 (289)
Q Consensus       164 l~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~ie~Sa  233 (289)
                      +..         +++.+.....+=|++        .|     .+    ...+.+..+          +...++.+++|||
T Consensus       246 L~~---------~ki~~~~l~~~fp~y--------~g-----~~----~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA  299 (327)
T 3ohm_A          246 LLE---------EKIMYSHLVDYFPEY--------DG-----PQ----RDAQAAREFILKMFVDLNPDSDKIIYSHFTCA  299 (327)
T ss_dssp             HHH---------HHTTTSCGGGTCTTC--------CS-----CS----SCHHHHHHHHHHHHHSSCTTTTSCEEEEECCT
T ss_pred             hhh---------hhhccchHhhhchhc--------cC-----CC----CCHHHHHHHHHHHHHhhcccccCCcEEEEEEe
Confidence            942         222111111122222        01     00    011235555          2345677899999


Q ss_pred             CCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          234 SNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       234 ~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                      +++            .||+.+|.++.+.++..
T Consensus       300 ~d~------------~nV~~vF~~v~~~Il~~  319 (327)
T 3ohm_A          300 TDT------------ENIRFVFAAVKDTILQL  319 (327)
T ss_dssp             TCH------------HHHHHHHHHHHHHHHHT
T ss_pred             ecC------------HHHHHHHHHHHHHHHHH
Confidence            999            99999999999988754

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=99.74  E-value=1.8e-17  Score=155.08  Aligned_cols=134  Identities=13%  Similarity=0.101  Sum_probs=96.7

Q ss_pred             eEEEEEEEcCCchhhhccccccccCccEEEEEEeCC----------CHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCC
Q 040295           97 TADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLN----------DLSTLDALKHWVPSIDLQ---KFEILLCIGNKVD  163 (289)
Q Consensus        97 ~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~----------~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~D  163 (289)
                      .+.+++|||+||++|+.++..|+++++++|||||++          +..+|+....|+..+...   ...|+||+|||+|
T Consensus       160 ~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~~~~~piiLv~NK~D  239 (340)
T 4fid_A          160 DIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEFLKGAVKLIFLNKMD  239 (340)
T ss_dssp             SCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGGGTTSEEEEEEECHH
T ss_pred             eeeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhhccCCCeEEEEEECch
Confidence            467999999999999999999999999999999998          788999999898888654   3349999999999


Q ss_pred             CCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHH-Hc------------------
Q 040295          164 LLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCT-EH------------------  224 (289)
Q Consensus       164 l~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~------------------  224 (289)
                      +.        .++ +.......+-|++        .|      ...    .+.+..|+. .+                  
T Consensus       240 L~--------~ek-i~~~~l~~~fp~y--------~g------~~~----~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~  292 (340)
T 4fid_A          240 LF--------EEK-LTKVPLNTIFPEY--------TG------GDN----AVMGAQYIQQLFTGKLQTEEMNISGADGTA  292 (340)
T ss_dssp             HH--------HHH-HHHSCGGGTCTTC--------CC------TTC----HHHHHHHHHHHHHTTSEEEESCC-------
T ss_pred             hh--------hhh-cCcchHHHhhhhh--------cC------CCC----HHHHHHHHHHhcccccchhhhhcccccccc
Confidence            94        222 2221112222222        11      001    122333322 22                  


Q ss_pred             --------CCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcccccC
Q 040295          225 --------RIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSG  271 (289)
Q Consensus       225 --------~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~~  271 (289)
                              .+.+++|||++.            .||+.+|..+.+.++.  .++..
T Consensus       293 ~~~~~~~~~iy~h~TsA~dt------------~nv~~vF~~v~~~Il~--~l~~~  333 (340)
T 4fid_A          293 NIEGAVNEKVYTNPTNATDG------------SNIKRVFMLAVDVIMK--NMAAN  333 (340)
T ss_dssp             -------CEEEEEEECTTCH------------HHHHHHHHHHHHHHHH--HHHHT
T ss_pred             ccccccCcceEEEEEEeeCc------------HHHHHHHHHHHHHHHH--HHHHc
Confidence                    366889999999            9999999999999887  45543

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*

Probab=99.74  E-value=3e-18  Score=167.27  Aligned_cols=152  Identities=18%  Similarity=0.130  Sum_probs=106.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCC-CCCCCCcceEEeeEEeecCcceEEEEEEEcCCch-hhhcc--------cccc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFE-DASDSSSELLVNGWTINTKYYTADVSLWMAHLHE-EFSIR--------SLPI  118 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~-~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e-~~~~~--------~~~~  118 (289)
                      .+||+|+|.+|||||||+|+|++.++. ....+....++....+..++  ..+.+|||||+. .+...        ...+
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g--~~~~l~DTaG~~~~~~~~ve~~gi~~~~~~  320 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQE  320 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHHH
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCC--eEEEEEECCCccccchhhHHHHHHHHHHHH
Confidence            489999999999999999999988642 22122222222223333343  468999999987 55422        2356


Q ss_pred             ccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcc
Q 040295          119 SDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISET  198 (289)
Q Consensus       119 ~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~  198 (289)
                      ++.+|++|+|||++++.+++...- +..+   ...|+|+|+||+|+.....     ..                      
T Consensus       321 ~~~aD~vl~VvD~s~~~s~~~~~i-l~~l---~~~piivV~NK~DL~~~~~-----~~----------------------  369 (482)
T 1xzp_A          321 IEKADIVLFVLDASSPLDEEDRKI-LERI---KNKRYLVVINKVDVVEKIN-----EE----------------------  369 (482)
T ss_dssp             HHHCSEEEEEEETTSCCCHHHHHH-HHHH---TTSSEEEEEEECSSCCCCC-----HH----------------------
T ss_pred             hhcccEEEEEecCCCCCCHHHHHH-HHHh---cCCCEEEEEECcccccccC-----HH----------------------
Confidence            788999999999999888876543 3333   3458999999999953210     01                      


Q ss_pred             cCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          199 EGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                       .+..++. .+++++++||+++            .|++++|++|.+.+.
T Consensus       370 -----------------~~~~~~~-~~~~~i~iSAktg------------~Gi~eL~~~l~~~~~  404 (482)
T 1xzp_A          370 -----------------EIKNKLG-TDRHMVKISALKG------------EGLEKLEESIYRETQ  404 (482)
T ss_dssp             -----------------HHHHHHT-CSTTEEEEEGGGT------------CCHHHHHHHHHHHTH
T ss_pred             -----------------HHHHHhc-CCCcEEEEECCCC------------CCHHHHHHHHHHHHh
Confidence                             1233332 4478999999999            999999999998765

>1wb1_A Translation elongation factor SELB; selenocysteine, protein synthesis, selenium, ribosome; HET: GDP DXC; 3.0A {Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*

Probab=99.74  E-value=7.6e-18  Score=164.39  Aligned_cols=155  Identities=14%  Similarity=0.128  Sum_probs=108.7

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCC-------CCCCCCC--CcceEEeeEEeecCcceEEEEEEEcCCchhhhccccc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVN-------FEDASDS--SSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLP  117 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~-------~~~~~~~--t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~  117 (289)
                      .+.++|+++|+.++|||||+++|.+..       +.....+  |....+....+  .  ...+.+|||||++.|......
T Consensus        17 m~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~--~--~~~i~iiDtPGh~~~~~~~~~   92 (482)
T 1wb1_A           17 FKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKL--E--NYRITLVDAPGHADLIRAVVS   92 (482)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEE--T--TEEEEECCCSSHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEE--C--CEEEEEEECCChHHHHHHHHH
Confidence            346899999999999999999999876       2222222  22222222222  2  257999999999999887778


Q ss_pred             cccCccEEEEEEeCCC---HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCC
Q 040295          118 ISDQLTALVMVFNLND---LSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSG  194 (289)
Q Consensus       118 ~~~~ad~vIlV~Dv~~---~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~  194 (289)
                      ++..+|++|+|+|+++   +++++.+.    .+...+ .|+|+|+||+|+.+.      ...                  
T Consensus        93 ~~~~aD~~ilVvda~~g~~~qt~e~l~----~~~~~~-ip~IvviNK~Dl~~~------~~~------------------  143 (482)
T 1wb1_A           93 AADIIDLALIVVDAKEGPKTQTGEHML----ILDHFN-IPIIVVITKSDNAGT------EEI------------------  143 (482)
T ss_dssp             HTTSCCEEEEEEETTTCSCHHHHHHHH----HHHHTT-CCBCEEEECTTSSCH------HHH------------------
T ss_pred             HHhhCCEEEEEEecCCCccHHHHHHHH----HHHHcC-CCEEEEEECCCcccc------hhH------------------
Confidence            8999999999999987   66666654    223333 356889999999641      111                  


Q ss_pred             CCcccCCCCCCCCCCcHHHHHHHHHHHHHc----CCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          195 ISETEGSSLLGDEEPSWEIRRSCLEWCTEH----RIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                      ....+++.+++...    +++++++||++|            .|+++++++|...+
T Consensus       144 ----------------~~~~~~l~~~l~~~~~~~~~~ii~vSA~~g------------~gI~~L~~~L~~~i  187 (482)
T 1wb1_A          144 ----------------KRTEMIMKSILQSTHNLKNSSIIPISAKTG------------FGVDELKNLIITTL  187 (482)
T ss_dssp             ----------------HHHHHHHHHHHHHSSSGGGCCEEECCTTTC------------TTHHHHHHHHHHHH
T ss_pred             ----------------HHHHHHHHHHHhhhcccccceEEEEECcCC------------CCHHHHHHHHHHhh
Confidence                            12223356666655    568999999999            99999999999866

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=99.74  E-value=3e-17  Score=154.89  Aligned_cols=158  Identities=16%  Similarity=0.128  Sum_probs=105.0

Q ss_pred             Cce-EEEEcCCCCCHHHHHHHHhcCCCCCC--CCCCcceEEeeEEeecCcceEEEEEEEcCCc---------hhhhcccc
Q 040295           49 RPG-ILIIGSSNVGKRTILSRLLSVNFEDA--SDSSSELLVNGWTINTKYYTADVSLWMAHLH---------EEFSIRSL  116 (289)
Q Consensus        49 ~iK-I~ilG~~gvGKSSLi~rl~~~~~~~~--~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~---------e~~~~~~~  116 (289)
                      +++ |+|+|++|||||||+++|.+..+...  ...|....  ...+...+  ..+.+|||+|.         +.|.... 
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~--~~~i~~~g--~~v~l~DT~G~i~~lp~~lve~f~~tl-  252 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPK--RYAIPINN--RKIMLVDTVGFIRGIPPQIVDAFFVTL-  252 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC-----------CCSC--EEEEEETT--EEEEEEECCCBCSSCCGGGHHHHHHHH-
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCccccCCcccccCCE--EEEEEECC--EEEEEEeCCCchhcCCHHHHHHHHHHH-
Confidence            456 99999999999999999998876322  22232222  22333343  45899999996         3344433 


Q ss_pred             ccccCccEEEEEEeCCCHh--hHHHHHHHHHHhhhc--CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccC
Q 040295          117 PISDQLTALVMVFNLNDLS--TLDALKHWVPSIDLQ--KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQ  192 (289)
Q Consensus       117 ~~~~~ad~vIlV~Dv~~~~--S~~~l~~~~~~i~~~--~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~  192 (289)
                      ..+..+|++++|+|++++.  .++.+..|...+...  ...|+|+|+||+|+.+..     ..+.+              
T Consensus       253 ~~~~~aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl~~~~-----~~~~~--------------  313 (364)
T 2qtf_A          253 SEAKYSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKINGD-----LYKKL--------------  313 (364)
T ss_dssp             HGGGGSSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGGCCSC-----HHHHH--------------
T ss_pred             HHHHhCCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCCCCch-----HHHHH--------------
Confidence            3477899999999999877  666666666655544  234899999999996532     01111              


Q ss_pred             CCCCcccCCCCCCCCCCcHHHHHHHHHHHHHc---CCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          193 SGISETEGSSLLGDEEPSWEIRRSCLEWCTEH---RIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                            ..+..++...   +.+++++||+++            .|++++++.|.+.+..
T Consensus       314 ----------------------~~~~~l~~~l~~~~~~~~~~SA~~g------------~gi~~L~~~I~~~l~~  354 (364)
T 2qtf_A          314 ----------------------DLVEKLSKELYSPIFDVIPISALKR------------TNLELLRDKIYQLATQ  354 (364)
T ss_dssp             ----------------------HHHHHHHHHHCSCEEEEEECBTTTT------------BSHHHHHHHHHHHHHH
T ss_pred             ----------------------HHHHHHHHHhcCCCCcEEEEECCCC------------cCHHHHHHHHHHHhcc
Confidence                                  1144455554   346899999999            9999999999886643

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.73  E-value=1e-17  Score=161.32  Aligned_cols=161  Identities=13%  Similarity=0.045  Sum_probs=100.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccc-----------
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFED-ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRS-----------  115 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~-----------  115 (289)
                      ..+||+|+|++|||||||++++++..+.. ...++.+.+.....+..++.  .+.+|||+|+.++....           
T Consensus       179 ~~~kvaivG~~gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~g~--~~~l~Dt~G~~~~~~~~~~~~e~~~~~~  256 (439)
T 1mky_A          179 DAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGR--KYVFVDTAGLRRKSRVEPRTVEKYSNYR  256 (439)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTE--EEEESSCSCC-----------CCSCCHH
T ss_pred             cCceEEEECCCCCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEECCE--EEEEEECCCCccccccchhhHHHHHHHH
Confidence            45899999999999999999999887521 11112222222223333443  57899999985443221           


Q ss_pred             -cccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCC
Q 040295          116 -LPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSG  194 (289)
Q Consensus       116 -~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~  194 (289)
                       ..+++.+|++++|+|.++..+++.. .+...+. ....|+++|+||+|+.......   ..                  
T Consensus       257 ~~~~i~~ad~vllv~d~~~~~~~~~~-~i~~~l~-~~~~~~ilv~NK~Dl~~~~~~~---~~------------------  313 (439)
T 1mky_A          257 VVDSIEKADVVVIVLDATQGITRQDQ-RMAGLME-RRGRASVVVFNKWDLVVHREKR---YD------------------  313 (439)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHH-HTTCEEEEEEECGGGSTTGGGC---HH------------------
T ss_pred             HHHHHhhCCEEEEEEeCCCCCCHHHH-HHHHHHH-HcCCCEEEEEECccCCCchhhH---HH------------------
Confidence             1346678999999999987666543 2223333 3455899999999996431100   01                  


Q ss_pred             CCcccCCCCCCCCCCcHHHHHH-HHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          195 ISETEGSSLLGDEEPSWEIRRS-CLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                       +..+. ...+....+++++++||++|            .|++++|+.+.+.+
T Consensus       314 -----------------~~~~~~~~~~~~~~~~~~~~~SA~~g------------~gv~~l~~~i~~~~  353 (439)
T 1mky_A          314 -----------------EFTKLFREKLYFIDYSPLIFTSADKG------------WNIDRMIDAMNLAY  353 (439)
T ss_dssp             -----------------HHHHHHHHHCGGGTTSCEEECBTTTT------------BSHHHHHHHHHHHH
T ss_pred             -----------------HHHHHHHHHhccCCCCcEEEEECCCC------------CCHHHHHHHHHHHH
Confidence                             11111 23334444678999999999            99999999998755

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=99.73  E-value=1.9e-18  Score=167.85  Aligned_cols=154  Identities=15%  Similarity=0.098  Sum_probs=99.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCC-CCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccc--------ccc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFE-DASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRS--------LPI  118 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~-~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~--------~~~  118 (289)
                      .++||+|+|++|||||||+|+|++.++. ....++.+.++....+..++  ..+.+|||||+..+....        ..+
T Consensus       223 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~v~liDT~G~~~~~~~ve~~gi~~~~~~  300 (462)
T 3geh_A          223 TGLKVAIVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGG--IPVQVLDTAGIRETSDQVEKIGVERSRQA  300 (462)
T ss_dssp             HCEEEEEEECTTSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEETT--EEEEECC--------------------CC
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEECC--EEEEEEECCccccchhHHHHHHHHHHhhh
Confidence            4589999999999999999999987643 22222222222222233333  468999999986654332        246


Q ss_pred             ccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcc
Q 040295          119 SDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISET  198 (289)
Q Consensus       119 ~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~  198 (289)
                      ++.+|++|+|||++++.++.. ..|+..+..   .|+++|+||+|+.+..        .+                    
T Consensus       301 ~~~aD~vl~VvD~s~~~~~~~-~~i~~~l~~---~piivV~NK~Dl~~~~--------~~--------------------  348 (462)
T 3geh_A          301 ANTADLVLLTIDAATGWTTGD-QEIYEQVKH---RPLILVMNKIDLVEKQ--------LI--------------------  348 (462)
T ss_dssp             CCSCSEEEEEEETTTCSCHHH-HHHHHHHTT---SCEEEEEECTTSSCGG--------GS--------------------
T ss_pred             hhcCCEEEEEeccCCCCCHHH-HHHHHhccC---CcEEEEEECCCCCcch--------hh--------------------
Confidence            788999999999998777655 445555543   5899999999996421        11                    


Q ss_pred             cCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          199 EGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                            .  .        ...+.  .+.+++++||+++            .|++++++.|.+.+...
T Consensus       349 ------~--~--------~~~~~--~~~~~i~iSAktg------------~Gi~eL~~~i~~~~~~~  385 (462)
T 3geh_A          349 ------T--S--------LEYPE--NITQIVHTAAAQK------------QGIDSLETAILEIVQTG  385 (462)
T ss_dssp             ------T--T--------CCCCT--TCCCEEEEBTTTT------------BSHHHHHHHHHHHHTTS
T ss_pred             ------H--H--------HHHhc--cCCcEEEEECCCC------------CCHHHHHHHHHHHHhcc
Confidence                  0  0        11111  3568999999999            99999999999877543

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.73  E-value=5.6e-19  Score=166.45  Aligned_cols=161  Identities=12%  Similarity=0.163  Sum_probs=90.4

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCC-CCCCC--------CCCcceEEeeEEeecCcceEEEEEEEcCCc-------hh
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVN-FEDAS--------DSSSELLVNGWTINTKYYTADVSLWMAHLH-------EE  110 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~-~~~~~--------~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~-------e~  110 (289)
                      ...++|+|+|++|||||||++++++.. +...+        .+|.+..+....+...+..+.+.+|||||+       +.
T Consensus        35 ~~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~  114 (361)
T 2qag_A           35 GFEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDC  114 (361)
T ss_dssp             CCEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC-------------
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccHHH
Confidence            345899999999999999999987654 32222        145554444444445556678999999999       77


Q ss_pred             hhcccc-------ccccCccEE-----------EEEEeCCC-HhhHHHHH-HHHHHhhhcCCCeEEEEeeCCCCCCCCCc
Q 040295          111 FSIRSL-------PISDQLTAL-----------VMVFNLND-LSTLDALK-HWVPSIDLQKFEILLCIGNKVDLLPGHPV  170 (289)
Q Consensus       111 ~~~~~~-------~~~~~ad~v-----------IlV~Dv~~-~~S~~~l~-~~~~~i~~~~~~~iivvgnK~Dl~~~~~~  170 (289)
                      |..+..       .|++.++++           ++||++++ ..++..+. .|+..+.  ...|+|+|+||+|+..    
T Consensus       115 ~~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~~~~l~~~d~~~~~~l~--~~~piIlV~NK~Dl~~----  188 (361)
T 2qag_A          115 FKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAIH--NKVNIVPVIAKADTLT----  188 (361)
T ss_dssp             -CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSSSSSCCHHHHHHHHHTC--S-SCEEEEEECCSSSC----
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecCCCCcchhHHHHHHHhc--cCCCEEEEEECCCCCC----
Confidence            776665       555554433           47777765 56666665 4655553  3348999999999964    


Q ss_pred             hhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchh
Q 040295          171 HAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQG  250 (289)
Q Consensus       171 ~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~  250 (289)
                          .+.+                                ......+..++..++++|+++||+++            .+
T Consensus       189 ----~~ev--------------------------------~~~k~~i~~~~~~~~i~~~~~Sa~~~------------~~  220 (361)
T 2qag_A          189 ----LKER--------------------------------ERLKKRILDEIEEHNIKIYHLPDAES------------DE  220 (361)
T ss_dssp             ----HHHH--------------------------------HHHHHHHHHHTTCC-CCSCCCC------------------
T ss_pred             ----HHHH--------------------------------HHHHHHHHHHHHHCCCCEEeCCCcCC------------Cc
Confidence                1222                                12223477888888999999999998            55


Q ss_pred             HHHHHHHHHHhc
Q 040295          251 VERLYGALSAHM  262 (289)
Q Consensus       251 i~~l~~~L~~~~  262 (289)
                       ++.|..+.+.+
T Consensus       221 -~e~~~~l~~~i  231 (361)
T 2qag_A          221 -DEDFKEQTRLL  231 (361)
T ss_dssp             ----CHHHHHHH
T ss_pred             -chhHHHHHHHH
Confidence             55555555444

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=99.73  E-value=7.3e-18  Score=144.51  Aligned_cols=161  Identities=14%  Similarity=0.080  Sum_probs=102.0

Q ss_pred             cccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCch----------hhhc
Q 040295           44 ASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHE----------EFSI  113 (289)
Q Consensus        44 ~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e----------~~~~  113 (289)
                      +....+.+|+|+|++|||||||++++.+..+...+.++.+..+....+...+   .+.+|||||..          .|..
T Consensus        21 ~~~~~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~   97 (210)
T 1pui_A           21 LPSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVAD---GKRLVDLPGYGYAEVPEEMKRKWQR   97 (210)
T ss_dssp             SSCSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEET---TEEEEECCCCC------CCHHHHHH
T ss_pred             CCCCCCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEecC---CEEEEECcCCcccccCHHHHHHHHH
Confidence            7778889999999999999999999998875444445555433211111111   37899999974          2333


Q ss_pred             cccccc---cCccEEEEEEeCCCHhhHH--HHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCC
Q 040295          114 RSLPIS---DQLTALVMVFNLNDLSTLD--ALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADP  188 (289)
Q Consensus       114 ~~~~~~---~~ad~vIlV~Dv~~~~S~~--~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~  188 (289)
                      ....++   +.++++++|+|++++.++.  .+..|+..    ...|+++|+||+|+..+.    +..+.+          
T Consensus        98 ~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~~~~----~~~~~~~v~nK~D~~s~~----~~~~~~----------  159 (210)
T 1pui_A           98 ALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVD----SNIAVLVLLTKADKLASG----ARKAQL----------  159 (210)
T ss_dssp             HHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH----TTCCEEEEEECGGGSCHH----HHHHHH----------
T ss_pred             HHHHHHHhhhcccEEEEEEECCCCCchhHHHHHHHHHH----cCCCeEEEEecccCCCch----hHHHHH----------
Confidence            222333   5789999999999866554  23344432    234788899999987521    111111          


Q ss_pred             cccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC--CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          189 DFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR--IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                                ..+..++...+  +.++++||+++            .|++++++.|.+.+-
T Consensus       160 --------------------------~~~~~~~~~~~~~~~~~~~Sal~~------------~~~~~l~~~l~~~~~  198 (210)
T 1pui_A          160 --------------------------NMVREAVLAFNGDVQVETFSSLKK------------QGVDKLRQKLDTWFS  198 (210)
T ss_dssp             --------------------------HHHHHHHGGGCSCEEEEECBTTTT------------BSHHHHHHHHHHHHC
T ss_pred             --------------------------HHHHHHHHhcCCCCceEEEeecCC------------CCHHHHHHHHHHHHh
Confidence                                      12566666654  46889999999            999999999988653

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.73  E-value=2.6e-17  Score=164.37  Aligned_cols=160  Identities=15%  Similarity=0.145  Sum_probs=110.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCC--CC-----CCC------CCCcceEE----eeEEeec-CcceEEEEEEEcCCch
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVN--FE-----DAS------DSSSELLV----NGWTINT-KYYTADVSLWMAHLHE  109 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~--~~-----~~~------~~t~~~~~----~~~~i~~-~~~~~~l~I~Dt~G~e  109 (289)
                      ...+|+|+|+.++|||||+++|+...  +.     ..+      ..+.+.++    ....... ++..+.+.+|||||++
T Consensus         3 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~   82 (599)
T 3cb4_D            3 NIRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHV   82 (599)
T ss_dssp             TEEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCCG
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCch
Confidence            34689999999999999999998632  11     000      01112221    1222221 4456889999999999


Q ss_pred             hhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCc
Q 040295          110 EFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPD  189 (289)
Q Consensus       110 ~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~  189 (289)
                      .|......+++.+|++|+|+|+++..+++....|.....  ...|+|+|+||+|+....      ...+           
T Consensus        83 dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~--~~ipiIvViNKiDl~~a~------~~~v-----------  143 (599)
T 3cb4_D           83 DFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAME--MDLEVVPVLNKIDLPAAD------PERV-----------  143 (599)
T ss_dssp             GGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHH--TTCEEEEEEECTTSTTCC------HHHH-----------
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH--CCCCEEEeeeccCccccc------HHHH-----------
Confidence            998888888999999999999999888888888876554  234899999999995421      1111           


Q ss_pred             ccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCC---eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          190 FCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRI---EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                                 ..++....++   +++++||++|            .|+++++++|.+.+.+.
T Consensus       144 ---------------------------~~ei~~~lg~~~~~vi~vSAktg------------~GI~~Ll~~I~~~lp~p  183 (599)
T 3cb4_D          144 ---------------------------AEEIEDIVGIDATDAVRCSAKTG------------VGVQDVLERLVRDIPPP  183 (599)
T ss_dssp             ---------------------------HHHHHHHTCCCCTTCEEECTTTC------------TTHHHHHHHHHHHSCCC
T ss_pred             ---------------------------HHHHHHHhCCCcceEEEeecccC------------CCchhHHHHHhhcCCCc
Confidence                                       4556666666   4999999999            99999999999877654

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.73  E-value=5.6e-17  Score=156.47  Aligned_cols=160  Identities=13%  Similarity=0.147  Sum_probs=104.4

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCC-------------------------------CCCCCCcceEEeeEEeecCc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFE-------------------------------DASDSSSELLVNGWTINTKY   95 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~-------------------------------~~~~~t~~~~~~~~~i~~~~   95 (289)
                      ...++|+++|++++|||||+++|+.....                               .+..+.++.+.....+... 
T Consensus        15 k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~~~-   93 (439)
T 3j2k_7           15 KEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFETE-   93 (439)
T ss_pred             CceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEecC-
Confidence            34589999999999999999999654211                               0111223333333333333 


Q ss_pred             ceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhh---HH---HHHHHHHHhhhcCCCeEEEEeeCCCCCCCCC
Q 040295           96 YTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLST---LD---ALKHWVPSIDLQKFEILLCIGNKVDLLPGHP  169 (289)
Q Consensus        96 ~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S---~~---~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~  169 (289)
                       ...+.||||||++.|......+++.+|++|+|+|+++...   |+   .....+..+...+.+++|+|+||+|+.... 
T Consensus        94 -~~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~~~v~~iIvviNK~Dl~~~~-  171 (439)
T 3j2k_7           94 -KKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDPTVN-  171 (439)
T ss_pred             -CeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHHcCCCeEEEEeecCCCcccc-
Confidence             3479999999999998888888999999999999987532   21   112222233444555689999999995311 


Q ss_pred             chhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC------CeEEEeecCCCccccccc
Q 040295          170 VHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR------IEYIEACASNVDFDKCLS  243 (289)
Q Consensus       170 ~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~ie~Sa~~~~~~~~~~  243 (289)
                          ..+.                               ...++..+...++...+      ++++++||++|       
T Consensus       172 ----~~~~-------------------------------~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G-------  209 (439)
T 3j2k_7          172 ----WSNE-------------------------------RYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTG-------  209 (439)
T ss_pred             ----hHHH-------------------------------HHHHHHHHHHHHHHHhcccccCCeeEEEeeccCC-------
Confidence                0000                               11223344566666555      46999999999       


Q ss_pred             CCCCchhHHHHHH
Q 040295          244 IDGDSQGVERLYG  256 (289)
Q Consensus       244 ~~~~~~~i~~l~~  256 (289)
                           .|+.++++
T Consensus       210 -----~ni~~l~~  217 (439)
T 3j2k_7          210 -----ANLKEQSD  217 (439)
T ss_pred             -----cccccccc
Confidence                 99988544

>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus} PDB: 2ywf_A* 2ywg_A* 2ywh_A*

Probab=99.72  E-value=4.5e-17  Score=162.64  Aligned_cols=160  Identities=16%  Similarity=0.156  Sum_probs=112.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCC--CCC-----CCC----------CCcceEEeeEEeec-CcceEEEEEEEcCCch
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVN--FED-----ASD----------SSSELLVNGWTINT-KYYTADVSLWMAHLHE  109 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~--~~~-----~~~----------~t~~~~~~~~~i~~-~~~~~~l~I~Dt~G~e  109 (289)
                      ...+|+|+|+.++|||||+++|+...  +..     ...          .|+........... ++..+.+.+|||||++
T Consensus         5 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh~   84 (600)
T 2ywe_A            5 NVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGHV   84 (600)
T ss_dssp             GEEEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCCSG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCcH
Confidence            34689999999999999999998631  110     000          01111111122221 3446789999999999


Q ss_pred             hhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCc
Q 040295          110 EFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPD  189 (289)
Q Consensus       110 ~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~  189 (289)
                      .|......+++.+|++|+|+|+++..+++....|.....  ...|+|+|+||+|+....      ...+           
T Consensus        85 dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~--~~ipiIvviNKiDl~~a~------~~~v-----------  145 (600)
T 2ywe_A           85 DFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAVE--QDLVIIPVINKIDLPSAD------VDRV-----------  145 (600)
T ss_dssp             GGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHH--TTCEEEEEEECTTSTTCC------HHHH-----------
T ss_pred             hHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHH--CCCCEEEEEeccCccccC------HHHH-----------
Confidence            998878788999999999999999888888888876553  234799999999995421      1111           


Q ss_pred             ccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCC---eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          190 FCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRI---EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                                                 ..++....++   +++++||++|            .|++++|++|++.+.+.
T Consensus       146 ---------------------------~~el~~~lg~~~~~vi~vSAktg------------~GI~~Lle~I~~~lp~p  185 (600)
T 2ywe_A          146 ---------------------------KKQIEEVLGLDPEEAILASAKEG------------IGIEEILEAIVNRIPPP  185 (600)
T ss_dssp             ---------------------------HHHHHHTSCCCGGGCEECBTTTT------------BSHHHHHHHHHHHSCCC
T ss_pred             ---------------------------HHHHHHhhCCCcccEEEEEeecC------------CCchHHHHHHHHhcccc
Confidence                                       3455555665   4899999999            99999999999977654

>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET: GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP: b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*

Probab=99.72  E-value=5.7e-17  Score=161.90  Aligned_cols=114  Identities=14%  Similarity=0.168  Sum_probs=84.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCC----CCCCcceEEeeEEe------------ecCcceEEEEEEEcCCchhh
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDA----SDSSSELLVNGWTI------------NTKYYTADVSLWMAHLHEEF  111 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~----~~~t~~~~~~~~~i------------~~~~~~~~l~I~Dt~G~e~~  111 (289)
                      +.++|+|+|++++|||||+++|.+..+...    .+++.+..+..+..            ........+.+|||||++.|
T Consensus         4 r~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~F   83 (594)
T 1g7s_A            4 RSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAF   83 (594)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCC
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHHH
Confidence            347999999999999999999997654332    23445544432210            00011235999999999999


Q ss_pred             hccccccccCccEEEEEEeCCC---HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          112 SIRSLPISDQLTALVMVFNLND---LSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       112 ~~~~~~~~~~ad~vIlV~Dv~~---~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ..+...+++.+|++|+|||+++   +++++.+..+    +. ...|+++|+||+|+.+
T Consensus        84 ~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~~l----~~-~~vPiIVViNKiDl~~  136 (594)
T 1g7s_A           84 TTLRKRGGALADLAILIVDINEGFKPQTQEALNIL----RM-YRTPFVVAANKIDRIH  136 (594)
T ss_dssp             TTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHHH----HH-TTCCEEEEEECGGGST
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCccHhHHHHHHHH----HH-cCCeEEEEeccccccc
Confidence            9999888999999999999998   8888776532    22 3348999999999965

>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation factor, protein synthesis, antibiotic, GTP-binding, nucleotide-binding; HET: GNP PUL; 1.4A {Thermus thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z* 2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A* 2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...

Probab=99.71  E-value=9.8e-18  Score=159.79  Aligned_cols=162  Identities=14%  Similarity=0.086  Sum_probs=110.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcC--------CCCCC--C-------CCCcceEEeeEEeecCcceEEEEEEEcCCchh
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSV--------NFEDA--S-------DSSSELLVNGWTINTKYYTADVSLWMAHLHEE  110 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~--------~~~~~--~-------~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~  110 (289)
                      ..++|+++|++++|||||+++|++.        .+...  .       ............+..  ....+.+|||||++.
T Consensus        10 ~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~--~~~~~~iiDtpG~~~   87 (405)
T 2c78_A           10 PHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYET--AKRHYSHVDCPGHAD   87 (405)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEEC--SSCEEEEEECCCSGG
T ss_pred             CeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEecc--CCeEEEEEECCChHH
Confidence            3489999999999999999999873        22110  0       011111111222222  235789999999999


Q ss_pred             hhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcc
Q 040295          111 FSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDF  190 (289)
Q Consensus       111 ~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~  190 (289)
                      |......+++.+|++|+|+|+++.... ....|+..+...+.+.+++|+||+|+...     +.  .+            
T Consensus        88 f~~~~~~~~~~aD~~ilVvda~~g~~~-qt~~~l~~~~~~~ip~iivviNK~Dl~~~-----~~--~~------------  147 (405)
T 2c78_A           88 YIKNMITGAAQMDGAILVVSAADGPMP-QTREHILLARQVGVPYIVVFMNKVDMVDD-----PE--LL------------  147 (405)
T ss_dssp             GHHHHHHHHTTCSSEEEEEETTTCCCH-HHHHHHHHHHHTTCCCEEEEEECGGGCCC-----HH--HH------------
T ss_pred             HHHHHHHHHHHCCEEEEEEECCCCCcH-HHHHHHHHHHHcCCCEEEEEEECccccCc-----HH--HH------------
Confidence            988777889999999999999876543 33455555655555448889999999631     11  00            


Q ss_pred             cCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC-----CeEEEeecCCCcccccccCCCCchh---------------
Q 040295          191 CQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR-----IEYIEACASNVDFDKCLSIDGDSQG---------------  250 (289)
Q Consensus       191 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~ie~Sa~~~~~~~~~~~~~~~~~---------------  250 (289)
                                          +.+..++..++..++     ++++++||++|            .|               
T Consensus       148 --------------------~~~~~~~~~~l~~~~~~~~~~~~i~~SA~~g------------~~v~~~~~~~~~~~~~~  195 (405)
T 2c78_A          148 --------------------DLVEMEVRDLLNQYEFPGDEVPVIRGSALLA------------LEQMHRNPKTRRGENEW  195 (405)
T ss_dssp             --------------------HHHHHHHHHHHHHTTSCTTTSCEEECCHHHH------------HHHHHHCTTCCTTSCHH
T ss_pred             --------------------HHHHHHHHHHHHHhcccccCCCEEEccHHHh------------hhhhccccccccCCCcc
Confidence                                112233567777665     57999999999            66               


Q ss_pred             ---HHHHHHHHHHhcc
Q 040295          251 ---VERLYGALSAHMW  263 (289)
Q Consensus       251 ---i~~l~~~L~~~~~  263 (289)
                         +.++++.|...+.
T Consensus       196 ~~~i~~Ll~~l~~~lp  211 (405)
T 2c78_A          196 VDKIWELLDAIDEYIP  211 (405)
T ss_dssp             HHHHHHHHHHHHHHSC
T ss_pred             cccHHHHHHHHHhhcC
Confidence               7888888887654

>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*

Probab=99.71  E-value=2.1e-17  Score=157.25  Aligned_cols=171  Identities=15%  Similarity=0.102  Sum_probs=108.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcC-------CCCCC--C-----CCCcceEE--eeEEeecCcceEEEEEEEcCCchhhh
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSV-------NFEDA--S-----DSSSELLV--NGWTINTKYYTADVSLWMAHLHEEFS  112 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~-------~~~~~--~-----~~t~~~~~--~~~~i~~~~~~~~l~I~Dt~G~e~~~  112 (289)
                      .++|+++|+.++|||||+++|++.       .+...  .     ....+.+.  ....+..  ....+.+|||||++.|.
T Consensus         3 ~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~~~~~~~--~~~~~~iiDtpG~~~f~   80 (397)
T 1d2e_A            3 HVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYST--AARHYAHTDCPGHADYV   80 (397)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEEC--SSCEEEEEECSSHHHHH
T ss_pred             eEEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEeeeEEecc--CCeEEEEEECCChHHHH
Confidence            479999999999999999999874       11110  0     00111111  1112222  23578999999999998


Q ss_pred             ccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccC
Q 040295          113 IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQ  192 (289)
Q Consensus       113 ~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~  192 (289)
                      .....+++.+|++|+|+|+++....+....| ..+...+.+.+++|+||+|+...       ...+              
T Consensus        81 ~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l-~~~~~~~vp~iivviNK~Dl~~~-------~~~~--------------  138 (397)
T 1d2e_A           81 KNMITGTAPLDGCILVVAANDGPMPQTREHL-LLARQIGVEHVVVYVNKADAVQD-------SEMV--------------  138 (397)
T ss_dssp             HHHHHTSSCCSEEEEEEETTTCSCHHHHHHH-HHHHHTTCCCEEEEEECGGGCSC-------HHHH--------------
T ss_pred             HHHHhhHhhCCEEEEEEECCCCCCHHHHHHH-HHHHHcCCCeEEEEEECcccCCC-------HHHH--------------
Confidence            7777889999999999999985443333333 33444444447889999999631       1111              


Q ss_pred             CCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC-----CeEEEeecCCCcccccccCCCCchh-HHHHHHHHHHhccc
Q 040295          193 SGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR-----IEYIEACASNVDFDKCLSIDGDSQG-VERLYGALSAHMWP  264 (289)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~ie~Sa~~~~~~~~~~~~~~~~~-i~~l~~~L~~~~~~  264 (289)
                                        +.+..++.+++..++     ++++++||+++.-.+.+.-   ..| +.++++.|...+.+
T Consensus       139 ------------------~~~~~~~~~~l~~~~~~~~~~~~i~~SA~~g~n~~~~~~---~~g~i~~Ll~~l~~~~p~  195 (397)
T 1d2e_A          139 ------------------ELVELEIRELLTEFGYKGEETPIIVGSALCALEQRDPEL---GLKSVQKLLDAVDTYIPV  195 (397)
T ss_dssp             ------------------HHHHHHHHHHHHHTTSCTTTSCEEECCHHHHHTTCCTTT---THHHHHHHHHHHHHHSCC
T ss_pred             ------------------HHHHHHHHHHHHHcCCCcccCcEEEeehhhcccccCCCc---cCCcHHHHHHHHHHhCCC
Confidence                              122234667777766     5899999999700000000   024 99999999886643

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.71  E-value=1.2e-18  Score=171.88  Aligned_cols=116  Identities=14%  Similarity=0.162  Sum_probs=84.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..++|+|+|++++|||||+++|.+..+.....++++..+....+... ....+.+|||||++.|..+...+++.+|++|+
T Consensus         3 r~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~-~g~~i~~iDTPGhe~f~~~~~~~~~~aD~vIL   81 (537)
T 3izy_P            3 RSPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLP-SGEKITFLDTPGHAAFSAMRARGTQVTDIVIL   81 (537)
T ss_dssp             CCCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSS-CSSCCBCEECSSSCCTTTSBBSSSBSBSSCEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeC-CCCEEEEEECCChHHHHHHHHHHHccCCEEEE
Confidence            45799999999999999999999877654444444433322222221 11258999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      |+|+++....+....| ..+... ..|+|+|+||+|+..
T Consensus        82 VVDa~dg~~~qt~e~l-~~~~~~-~vPiIVViNKiDl~~  118 (537)
T 3izy_P           82 VVAADDGVMKQTVESI-QHAKDA-HVPIVLAINKCDKAE  118 (537)
T ss_dssp             ECBSSSCCCHHHHHHH-HHHHTT-TCCEEECCBSGGGTT
T ss_pred             EEECCCCccHHHHHHH-HHHHHc-CCcEEEEEecccccc
Confidence            9999986555544433 233333 337999999999953

>3p26_A Elongation factor 1 alpha-like protein; GTP/GDP binding domain, beta-barrel, translational GTPase, D structural genomics; 2.50A {Saccharomyces cerevisiae} PDB: 3p27_A*

Probab=99.71  E-value=2.7e-17  Score=160.30  Aligned_cols=117  Identities=15%  Similarity=0.146  Sum_probs=77.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCC--C-----------------------------CCCCCcceEEeeEEeecCcc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFE--D-----------------------------ASDSSSELLVNGWTINTKYY   96 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~--~-----------------------------~~~~t~~~~~~~~~i~~~~~   96 (289)
                      ..+||+++|++|+|||||+++|++....  .                             ...+.+........+...  
T Consensus        32 ~~~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~--  109 (483)
T 3p26_A           32 PHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTH--  109 (483)
T ss_dssp             CEEEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEECS--
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEecC--
Confidence            4589999999999999999999865210  0                             001111111122222222  


Q ss_pred             eEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHH------HHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295           97 TADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDA------LKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        97 ~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~------l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ...+.||||||++.|......+++.+|++|+|+|+++..++..      ....+......+.+|+|+|+||+|+..
T Consensus       110 ~~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~~~~~iIvviNK~Dl~~  185 (483)
T 3p26_A          110 RANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVD  185 (483)
T ss_dssp             SCEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHTTCCCEEEEEECGGGGT
T ss_pred             CceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHcCCCcEEEEEECcCccc
Confidence            4579999999999999888889999999999999998765432      222223334445567999999999964

>1zun_B Sulfate adenylate transferase, subunit 1/adenylylsulfate kinase; beta barrel, switch domain, heterodimer, pyrophosphate, G protein; HET: GDP AGS; 2.70A {Pseudomonas syringae PV} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.71  E-value=2.1e-17  Score=158.93  Aligned_cols=147  Identities=16%  Similarity=0.102  Sum_probs=97.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCC---CCC---------CCCCcce---------------------EEeeEEeecCc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNF---EDA---------SDSSSEL---------------------LVNGWTINTKY   95 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~---~~~---------~~~t~~~---------------------~~~~~~i~~~~   95 (289)
                      .++|+++|+.++|||||+++|++...   ...         ...+.+.                     ......+..  
T Consensus        24 ~~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~~~--  101 (434)
T 1zun_B           24 MLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFST--  101 (434)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEEC--
T ss_pred             ceEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEeec--
Confidence            48999999999999999999986541   110         0011100                     000011111  


Q ss_pred             ceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHH
Q 040295           96 YTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYR  175 (289)
Q Consensus        96 ~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~  175 (289)
                      ....+.+|||||++.|......+++.+|++|+|+|+++.... ....|+..+...+.+++|+|+||+|+....      .
T Consensus       102 ~~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~~-qt~~~l~~~~~~~~~~iIvviNK~Dl~~~~------~  174 (434)
T 1zun_B          102 AKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQT-QTRRHSYIASLLGIKHIVVAINKMDLNGFD------E  174 (434)
T ss_dssp             SSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCH-HHHHHHHHHHHTTCCEEEEEEECTTTTTSC------H
T ss_pred             CCceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCcH-HHHHHHHHHHHcCCCeEEEEEEcCcCCccc------H
Confidence            235789999999999988777889999999999999975432 233444445555556899999999996421      0


Q ss_pred             HHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC-----CeEEEeecCCC
Q 040295          176 RRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR-----IEYIEACASNV  236 (289)
Q Consensus       176 r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~ie~Sa~~~  236 (289)
                      ..                                ...+...+..++...+     ++++++||++|
T Consensus       175 ~~--------------------------------~~~i~~~~~~~~~~~g~~~~~~~~i~vSA~~g  208 (434)
T 1zun_B          175 RV--------------------------------FESIKADYLKFAEGIAFKPTTMAFVPMSALKG  208 (434)
T ss_dssp             HH--------------------------------HHHHHHHHHHHHHTTTCCCSEEEEEECCTTTC
T ss_pred             HH--------------------------------HHHHHHHHHHHHHHhCCCccCceEEEEeccCC
Confidence            10                                1123344677777777     67999999999

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.71  E-value=6.6e-18  Score=163.41  Aligned_cols=153  Identities=18%  Similarity=0.194  Sum_probs=99.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCC--------chhhhcccccccc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHL--------HEEFSIRSLPISD  120 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G--------~e~~~~~~~~~~~  120 (289)
                      ..+|+|+|.+|||||||+|+|++..+. ....+.+.+..............+.+|||||        ++.+......+++
T Consensus        23 ~~~V~lvG~~nvGKSTL~n~l~~~~~~-~v~~~~g~t~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~  101 (456)
T 4dcu_A           23 KPVVAIVGRPNVGKSTIFNRIAGERIS-IVEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMD  101 (456)
T ss_dssp             CCEEEEECSSSSSHHHHHHHHEEEEEC------------CEEEECTTCSSCCEEECCCC------CCHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCc-ccCCCCCcceeEEEEEEEECCceEEEEECCCCCCcchHHHHHHHHHHHhhHh
Confidence            479999999999999999999987753 2223344433222222222334689999999        7788877788899


Q ss_pred             CccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          121 QLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       121 ~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      .+|++|+|+|.++..+  ....|+..+-.....|+++|+||+|+...        +..                      
T Consensus       102 ~ad~il~VvD~~~~~~--~~d~~l~~~l~~~~~pvilV~NK~D~~~~--------~~~----------------------  149 (456)
T 4dcu_A          102 EADVIIFMVNGREGVT--AADEEVAKILYRTKKPVVLAVNKLDNTEM--------RAN----------------------  149 (456)
T ss_dssp             HCSEEEEEEESSSCSC--HHHHHHHHHHTTCCSCEEEEEECC--------------------------------------
T ss_pred             hCCEEEEEEeCCCCCC--hHHHHHHHHHHHcCCCEEEEEECccchhh--------hhh----------------------
Confidence            9999999999876433  33344444433355689999999998531        100                      


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                      +.++. ..++ +++++||++|            .|+.++++.+...+.
T Consensus       150 ----------------~~e~~-~lg~~~~~~iSA~~g------------~gv~~L~~~i~~~l~  184 (456)
T 4dcu_A          150 ----------------IYDFY-SLGFGEPYPISGTHG------------LGLGDLLDAVAEHFK  184 (456)
T ss_dssp             -----------------CCSG-GGSSSSEEECCTTTC------------TTHHHHHHHHHTTGG
T ss_pred             ----------------HHHHH-HcCCCceEEeecccc------------cchHHHHHHHHhhcc
Confidence                            11111 1243 4689999999            999999999988664

>1jny_A EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-1; GTPase, alpha/beta structure, protein biosynthesis, translation; HET: GDP; 1.80A {Sulfolobus solfataricus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1skq_A* 3agj_A*

Probab=99.70  E-value=2e-17  Score=159.31  Aligned_cols=148  Identities=19%  Similarity=0.214  Sum_probs=99.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcC--CCCCC-------------------------------CCCCcceEEeeEEeecC
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSV--NFEDA-------------------------------SDSSSELLVNGWTINTK   94 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~--~~~~~-------------------------------~~~t~~~~~~~~~i~~~   94 (289)
                      +.++|+++|+.++|||||+++|+..  .+...                               ...|....+.  .+...
T Consensus         5 ~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~~~~~--~~~~~   82 (435)
T 1jny_A            5 PHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFM--RFETK   82 (435)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------C--EEECS
T ss_pred             CEEEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeEeeEE--EEecC
Confidence            3489999999999999999999864  33211                               1112222221  22222


Q ss_pred             cceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHH-------hhhcCCCeEEEEeeCCCCCCC
Q 040295           95 YYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPS-------IDLQKFEILLCIGNKVDLLPG  167 (289)
Q Consensus        95 ~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~-------i~~~~~~~iivvgnK~Dl~~~  167 (289)
                        ...+.+|||||++.|......+++.+|++|+|+|+++ .+|+.+..|...       ....+.+++|+|+||+|+...
T Consensus        83 --~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~  159 (435)
T 1jny_A           83 --KYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEP  159 (435)
T ss_dssp             --SCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSS
T ss_pred             --CeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCC-CccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCCCc
Confidence              3579999999999998888888999999999999998 788865444332       233344578899999999642


Q ss_pred             CCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC-----CeEEEeecCCC
Q 040295          168 HPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR-----IEYIEACASNV  236 (289)
Q Consensus       168 ~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~ie~Sa~~~  236 (289)
                      .. . + .+                                 ...+..++.+++..++     ++++++||++|
T Consensus       160 ~~-~-~-~~---------------------------------~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g  197 (435)
T 1jny_A          160 PY-D-E-KR---------------------------------YKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSG  197 (435)
T ss_dssp             TT-C-H-HH---------------------------------HHHHHHHHHHHHHHTTCCCTTCEEEECBTTTT
T ss_pred             cc-c-H-HH---------------------------------HHHHHHHHHHHHHHcCCCcCCceEEEeecccC
Confidence            10 0 0 00                                 1223345677777776     67999999999

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.70  E-value=1.4e-16  Score=159.56  Aligned_cols=118  Identities=15%  Similarity=0.140  Sum_probs=79.6

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCC-------------------------------CCCcceEEeeEEeecCc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDAS-------------------------------DSSSELLVNGWTINTKY   95 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~-------------------------------~~t~~~~~~~~~i~~~~   95 (289)
                      ...+||+|+|++|+|||||+++|++.......                               .+.+........+... 
T Consensus       165 k~~lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~~-  243 (611)
T 3izq_1          165 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTH-  243 (611)
T ss_dssp             CCCCEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEECS-
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEecC-
Confidence            44689999999999999999999976432110                               0111111111222222 


Q ss_pred             ceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHh---hH---HHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295           96 YTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLS---TL---DALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        96 ~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~---S~---~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                       ...+.||||||++.|......+++.+|++|+|+|+++..   +|   ......+......+.+++|||+||+|+..
T Consensus       244 -~~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~lgi~~iIVVvNKiDl~~  319 (611)
T 3izq_1          244 -RANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVD  319 (611)
T ss_dssp             -SCEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTTTCCEEEEEEECTTTTT
T ss_pred             -CceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHcCCCeEEEEEecccccc
Confidence             357999999999999888888899999999999998742   11   11112222233445567999999999964

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.67  E-value=9.1e-17  Score=158.42  Aligned_cols=114  Identities=18%  Similarity=0.125  Sum_probs=81.4

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCC------------------CCCC------CCCCcceEEeeEEeecCcceEEEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVN------------------FEDA------SDSSSELLVNGWTINTKYYTADVSL  102 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~------------------~~~~------~~~t~~~~~~~~~i~~~~~~~~l~I  102 (289)
                      ....+|+|+|++|||||||+++|+...                  +.+.      ...|....  ...+..  ..+.+.|
T Consensus        11 ~~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~--~~~~~~--~~~~i~l   86 (528)
T 3tr5_A           11 AMRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTS--VMQFPY--KDYLINL   86 (528)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSS--EEEEEE--TTEEEEE
T ss_pred             hcCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEe--EEEEEe--CCEEEEE
Confidence            345789999999999999999997211                  1000      01111111  112222  2467999


Q ss_pred             EEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          103 WMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       103 ~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      |||||++.|......+++.+|++|+|+|.++..+.+....|.. +... ..|+++|+||+|+..
T Consensus        87 iDTPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~~-~~~~-~iPiivviNK~Dl~~  148 (528)
T 3tr5_A           87 LDTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLMEV-CRLR-HTPIMTFINKMDRDT  148 (528)
T ss_dssp             ECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHH-HHTT-TCCEEEEEECTTSCC
T ss_pred             EECCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHH-HHHc-CCCEEEEEeCCCCcc
Confidence            9999999998888889999999999999998877777776643 3332 348999999999964

>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation of protein synthesis, cryo-eletron microscopy, translation/RNA complex; 13.80A {Escherichia coli}

Probab=99.67  E-value=1e-17  Score=164.09  Aligned_cols=112  Identities=17%  Similarity=0.258  Sum_probs=80.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +.++|+|+|+.++|||||+++|.+..+.....+++........+..++  ..+.+|||||++.|..++..+++.+|++|+
T Consensus         3 R~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~~~--~~i~~iDTPGhe~f~~~~~~~~~~aD~aIL   80 (501)
T 1zo1_I            3 RAPVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETEN--GMITFLDTPGHAAFTSMRARGAQATDIVVL   80 (501)
T ss_dssp             CCCCEEEEESTTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCTTS--SCCCEECCCTTTCCTTSBCSSSBSCSSEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEECC--EEEEEEECCCcHHHHHHHHHHHhhCCEEEE
Confidence            457899999999999999999987655433222222222112222233  358999999999999999888999999999


Q ss_pred             EEeCCC---HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          128 VFNLND---LSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       128 V~Dv~~---~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      |+|+++   +++++.+..    +... ..|+|+++||+|+..
T Consensus        81 VVda~~g~~~qT~e~l~~----~~~~-~vPiIVviNKiDl~~  117 (501)
T 1zo1_I           81 VVAADDGVMPQTIEAIQH----AKAA-QVPVVVAVNKIDKPE  117 (501)
T ss_dssp             EEETTTBSCTTTHHHHHH----HHHT-TCCEEEEEECSSSST
T ss_pred             EeecccCccHHHHHHHHH----HHhc-CceEEEEEEeccccc
Confidence            999987   555554432    2222 337999999999953

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.66  E-value=2.2e-16  Score=149.24  Aligned_cols=148  Identities=14%  Similarity=0.097  Sum_probs=105.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEe
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFN  130 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~D  130 (289)
                      +|+++|++++|||||+++|+      ....|+...+..  +...  ...+.+|||||++.|.......++.+|++|+|+|
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~------~~giTi~~~~~~--~~~~--~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd   92 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG------KKGTSSDITMYN--NDKE--GRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP   92 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS------EEEEESSSEEEE--ECSS--SSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHH------hCCEEEEeeEEE--EecC--CeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc
Confidence            89999999999999999998      222333333332  2223  3469999999999997766677899999999999


Q ss_pred             CCCHhhHHHHHHHHHHhhhcCCCeEEEEee-CCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCC
Q 040295          131 LNDLSTLDALKHWVPSIDLQKFEILLCIGN-KVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEP  209 (289)
Q Consensus       131 v~~~~S~~~l~~~~~~i~~~~~~~iivvgn-K~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  209 (289)
                       + ...+.....|+..+...+.+.+|+|+| |+|+ ..     +...                                 
T Consensus        93 -~-~g~~~qt~e~~~~~~~~~i~~~ivvvNNK~Dl-~~-----~~~~---------------------------------  131 (370)
T 2elf_A           93 -P-QGLDAHTGECIIALDLLGFKHGIIALTRSDST-HM-----HAID---------------------------------  131 (370)
T ss_dssp             -T-TCCCHHHHHHHHHHHHTTCCEEEEEECCGGGS-CH-----HHHH---------------------------------
T ss_pred             -C-CCCcHHHHHHHHHHHHcCCCeEEEEEEeccCC-CH-----HHHH---------------------------------
Confidence             5 334555566666666666655477788 9999 41     1111                                 


Q ss_pred             cHHHHHHHHHHHHHcC---CeEEE--eecCC---CcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          210 SWEIRRSCLEWCTEHR---IEYIE--ACASN---VDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       210 ~~~~~~~~~~~~~~~~---~~~ie--~Sa~~---~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                        ....++.+++..++   +++++  +||++   +            .|++++++.|.+.+-
T Consensus       132 --~~~~~i~~~l~~~~~~~~~ii~~~~SA~~~~~g------------~gi~~L~~~l~~~~~  179 (370)
T 2elf_A          132 --ELKAKLKVITSGTVLQDWECISLNTNKSAKNPF------------EGVDELKARINEVAE  179 (370)
T ss_dssp             --HHHHHHHHHTTTSTTTTCEEEECCCCTTSSSTT------------TTHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHhcCCCceEEEecccccccCcCC------------CCHHHHHHHHHhhcc
Confidence              11122455555543   68999  99999   9            999999999987653

>1cip_A Protein (guanine nucleotide-binding protein alpha-1 subunit); GTPase, hydrolase; HET: GNP; 1.50A {Rattus norvegicus} SCOP: a.66.1.1 c.37.1.8 PDB: 1agr_A* 1bof_A* 1gdd_A* 1gfi_A* 1gia_A* 1gp2_A* 3ffa_A* 3ffb_A* 1gg2_A* 1git_A* 1svs_A* 1svk_A* 2zjz_A* 2zjy_A* 3ums_A* 2pz2_A* 2pz3_A* 1as0_A* 1as2_A* 1as3_A* ...

Probab=99.66  E-value=2.8e-16  Score=147.70  Aligned_cols=143  Identities=15%  Similarity=0.208  Sum_probs=102.3

Q ss_pred             CCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCC----------HhhHHHHHHHHHHhh
Q 040295           79 DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLND----------LSTLDALKHWVPSID  148 (289)
Q Consensus        79 ~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~----------~~S~~~l~~~~~~i~  148 (289)
                      .+|.|.......+  +  .+.+.+|||+||+.|+..+..|+++++++|||||+++          ..+|+....|+..+.
T Consensus       178 ~~T~Gi~~~~~~~--~--~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~  253 (353)
T 1cip_A          178 VKTTGIVETHFTF--K--DLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSIC  253 (353)
T ss_dssp             CCCCSEEEEEEEE--T--TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHH
T ss_pred             CceeceEEEEEee--C--CeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHH
Confidence            4566655433333  2  4789999999999999999999999999999999998          567999999998886


Q ss_pred             hc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHH---
Q 040295          149 LQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCT---  222 (289)
Q Consensus       149 ~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---  222 (289)
                      ..   ...|+||||||+|+..         .++.......+-|++        .|.  .+        ...+..++.   
T Consensus       254 ~~~~~~~~piiLv~NK~DL~~---------~ki~~~~l~~~fp~~--------~g~--~~--------~~e~~~~~~~~f  306 (353)
T 1cip_A          254 NNKWFTDTSIILFLNKKDLFE---------EKIKKSPLTICYPEY--------AGS--NT--------YEEAAAYIQCQF  306 (353)
T ss_dssp             TCGGGTTSEEEEEEECHHHHH---------HHHTTSCGGGTCTTC--------CSC--SC--------HHHHHHHHHHHH
T ss_pred             cCccccCCcEEEEEECcCchh---------hhccccchhhccccc--------CCC--CC--------HHHHHHHHHHHH
Confidence            54   3459999999999941         122111111122222        010  01        123666665   


Q ss_pred             --------HcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          223 --------EHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       223 --------~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                              ..++.|++|||+++            .||.++|.++.+.++.
T Consensus       307 ~~l~~~~~~~~~~~~etSA~~~------------~nV~~vF~~v~~~i~~  344 (353)
T 1cip_A          307 EDLNKRKDTKEIYTHFTCATDT------------KNVQFVFDAVTDVIIK  344 (353)
T ss_dssp             HTTCSCTTTCCEEEEECCTTCH------------HHHHHHHHHHHHHHHH
T ss_pred             HHhhcccCCCceEEEEEECcCc------------hhHHHHHHHHHHHHHH
Confidence                    35678999999999            9999999999988764

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=99.66  E-value=9.8e-17  Score=147.36  Aligned_cols=136  Identities=13%  Similarity=0.079  Sum_probs=110.4

Q ss_pred             HHHHHHhcCCCC-CCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHh-hHHHHH
Q 040295           64 TILSRLLSVNFE-DASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLS-TLDALK  141 (289)
Q Consensus        64 SLi~rl~~~~~~-~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~-S~~~l~  141 (289)
                      +|+.++..+.|. ..+.+|++..+. ..+..++   ++.+|||  +++|+.+++.|++++|++|+|||++++. +|+.+.
T Consensus        32 sl~~~~~~~~f~~~~~~pTiGd~~~-~~~~~~~---~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~  105 (301)
T 1u0l_A           32 ERILCKLRGKFRLQNLKIYVGDRVE-YTPDETG---SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYIID  105 (301)
T ss_dssp             CEEEEEECGGGTTTTCCCCTTCEEE-EECCCSS---SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHHH
T ss_pred             cEEEEEEcccccccCCCCCCccEEE-EEEcCCC---eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHHH
Confidence            688899999998 788999996554 4443333   5899999  9999999999999999999999999997 799999


Q ss_pred             HHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHH
Q 040295          142 HWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWC  221 (289)
Q Consensus       142 ~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  221 (289)
                      .|+..++. ...|+++|+||+||.+.        +.+                                    .++.+|+
T Consensus       106 ~~l~~~~~-~~~piilv~NK~DL~~~--------~~v------------------------------------~~~~~~~  140 (301)
T 1u0l_A          106 KFLVLAEK-NELETVMVINKMDLYDE--------DDL------------------------------------RKVRELE  140 (301)
T ss_dssp             HHHHHHHH-TTCEEEEEECCGGGCCH--------HHH------------------------------------HHHHHHH
T ss_pred             HHHHHHHH-CCCCEEEEEeHHHcCCc--------hhH------------------------------------HHHHHHH
Confidence            99998866 34588999999999531        111                                    1256777


Q ss_pred             HHcC--CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          222 TEHR--IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       222 ~~~~--~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                      ..++  ++|++|||+++            .|++++|..+...+
T Consensus       141 ~~~~~~~~~~~~SAktg------------~gv~~lf~~l~gei  171 (301)
T 1u0l_A          141 EIYSGLYPIVKTSAKTG------------MGIEELKEYLKGKI  171 (301)
T ss_dssp             HHHTTTSCEEECCTTTC------------TTHHHHHHHHSSSE
T ss_pred             HHHhhhCcEEEEECCCC------------cCHHHHHHHhcCCe
Confidence            7777  89999999999            99999999886543

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.65  E-value=8.9e-17  Score=145.49  Aligned_cols=117  Identities=14%  Similarity=0.130  Sum_probs=77.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCC------CCCc-----------------c---eEEe--------------
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDAS------DSSS-----------------E---LLVN--------------   87 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~------~~t~-----------------~---~~~~--------------   87 (289)
                      ..++|+|+|.+|||||||+++|++..+.+..      .++.                 +   .++.              
T Consensus        25 ~~~~i~vvG~~~~GKSSLln~l~g~~~~~~~~~~~t~~p~~~~~~~~~~~~~~~~~~~g~~~tt~~~~~~~~~~~~~~i~  104 (299)
T 2aka_B           25 DLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVT  104 (299)
T ss_dssp             CCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHC
T ss_pred             CCCeEEEEeCCCCCHHHHHHHHHCCCcCCCCCCcccccceEEEEecCCcccchhhhcCCcccCCHHHHHHHHHHHHHHhc
Confidence            4589999999999999999999999874221      1110                 0   0000              


Q ss_pred             -----------eEEeecCcceEEEEEEEcCCch-------------hhhccccccccCccEEE-EEEeCCCHhhHHHHHH
Q 040295           88 -----------GWTINTKYYTADVSLWMAHLHE-------------EFSIRSLPISDQLTALV-MVFNLNDLSTLDALKH  142 (289)
Q Consensus        88 -----------~~~i~~~~~~~~l~I~Dt~G~e-------------~~~~~~~~~~~~ad~vI-lV~Dv~~~~S~~~l~~  142 (289)
                                 ...+... ....+.+|||||..             .+..+...|++.++++| +|+|.++..+......
T Consensus       105 g~~~gi~~~~~~~~~~~~-~~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~  183 (299)
T 2aka_B          105 GTNKGISPVPINLRVYSP-HVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALK  183 (299)
T ss_dssp             SSTTCCCSCCEEEEEEET-TCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHH
T ss_pred             ccCCCccccceEEEEeCC-CCCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHH
Confidence                       0000000 02569999999963             45556667888888776 7999987655544445


Q ss_pred             HHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          143 WVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       143 ~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      |+..+... ..|+++|+||+|+..
T Consensus       184 ~~~~~~~~-~~~~i~V~NK~Dl~~  206 (299)
T 2aka_B          184 IAKEVDPQ-GQRTIGVITKLDLMD  206 (299)
T ss_dssp             HHHHHCTT-CSSEEEEEECGGGSC
T ss_pred             HHHHhCCC-CCeEEEEEEccccCC
Confidence            55555432 348999999999975

>1f60_A Elongation factor EEF1A; protein-protein complex, translation; 1.67A {Saccharomyces cerevisiae} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1g7c_A* 1ije_A* 1ijf_A* 2b7b_A* 2b7c_A

Probab=99.65  E-value=1e-16  Score=155.37  Aligned_cols=146  Identities=14%  Similarity=0.152  Sum_probs=97.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcC--CCCC-------------------------------CCCCCcceEEeeEEeecCc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSV--NFED-------------------------------ASDSSSELLVNGWTINTKY   95 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~--~~~~-------------------------------~~~~t~~~~~~~~~i~~~~   95 (289)
                      .++|+++|++++|||||+++|++.  .+..                               ....|....+.  .+... 
T Consensus         7 ~~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~~~--~~~~~-   83 (458)
T 1f60_A            7 HINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALW--KFETP-   83 (458)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCE--EEECS-
T ss_pred             eeEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEEEE--EEecC-
Confidence            479999999999999999999864  2211                               01122222222  22222 


Q ss_pred             ceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHh---hHH---HHHHHHHHhhhcCCCeEEEEeeCCCCCCCCC
Q 040295           96 YTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLS---TLD---ALKHWVPSIDLQKFEILLCIGNKVDLLPGHP  169 (289)
Q Consensus        96 ~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~---S~~---~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~  169 (289)
                       ...+.||||||++.|......+++.+|++|+|+|+++..   +|+   ....++......+.+++|+|+||+|+.... 
T Consensus        84 -~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~~~v~~iivviNK~Dl~~~~-  161 (458)
T 1f60_A           84 -KYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNKMDSVKWD-  161 (458)
T ss_dssp             -SEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTTCCEEEEEEECGGGGTTC-
T ss_pred             -CceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHHcCCCeEEEEEEccccccCC-
Confidence             357999999999999888888899999999999999752   332   222233334444555699999999996210 


Q ss_pred             chhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC-----CeEEEeecCCC
Q 040295          170 VHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR-----IEYIEACASNV  236 (289)
Q Consensus       170 ~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~ie~Sa~~~  236 (289)
                         + .+                                 ..++..++..++...+     ++++++||++|
T Consensus       162 ---~-~~---------------------------------~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g  196 (458)
T 1f60_A          162 ---E-SR---------------------------------FQEIVKETSNFIKKVGYNPKTVPFVPISGWNG  196 (458)
T ss_dssp             ---H-HH---------------------------------HHHHHHHHHHHHHHHTCCGGGCCEEECCTTTC
T ss_pred             ---H-HH---------------------------------HHHHHHHHHHHHHHcCCCccCceEEEeecccC
Confidence               0 10                                 1123344667777666     57999999999

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.64  E-value=1.1e-15  Score=146.70  Aligned_cols=160  Identities=11%  Similarity=0.117  Sum_probs=88.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCC-C-------CCCcceEEeeEEeecCcceEEEEEEEcCCchhhh-------c
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDA-S-------DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFS-------I  113 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~-~-------~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~-------~  113 (289)
                      .++|+|+|++|||||||+++|++..+... +       .++.........+...+....+.+|||+|...+.       .
T Consensus        31 sf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~~Ltv~Dt~g~~~~~~~~~~~~~  110 (418)
T 2qag_C           31 EFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQP  110 (418)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CEEEEEEECC-----------CHH
T ss_pred             CEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCcccceeeeechhhhhhccchhhHHH
Confidence            36789999999999999999998876321 1       1222222222222333444578999999986531       1


Q ss_pred             ------------------cccccccCccEEEEEEeCCCH-hhHHHHH-HHHHHhhhcCCCeEEEEeeCCCCCCCCCchhH
Q 040295          114 ------------------RSLPISDQLTALVMVFNLNDL-STLDALK-HWVPSIDLQKFEILLCIGNKVDLLPGHPVHAE  173 (289)
Q Consensus       114 ------------------~~~~~~~~ad~vIlV~Dv~~~-~S~~~l~-~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~  173 (289)
                                        +...+++++++.+++|.+... .+|..+. .|+..+..  ..++|+|+||+|+...      
T Consensus       111 i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~~--~v~iIlVinK~Dll~~------  182 (418)
T 2qag_C          111 VIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE--KVNIIPLIAKADTLTP------  182 (418)
T ss_dssp             HHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHHTT--TSEEEEEEESTTSSCH------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHHhc--cCcEEEEEEcccCccH------
Confidence                              123456677777777777654 5676665 67777753  4589999999999641      


Q ss_pred             HHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHH
Q 040295          174 YRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVER  253 (289)
Q Consensus       174 ~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~  253 (289)
                        +++                                ...+..+..++..++++++++||+++            .++++
T Consensus       183 --~ev--------------------------------~~~k~~i~~~~~~~~i~~~~~sa~~~------------~~v~~  216 (418)
T 2qag_C          183 --EEC--------------------------------QQFKKQIMKEIQEHKIKIYEFPETDD------------EEENK  216 (418)
T ss_dssp             --HHH--------------------------------HHHHHHHHHHHHHHTCCCCCCC---------------------
T ss_pred             --HHH--------------------------------HHHHHHHHHHHHHcCCeEEeCCCCCC------------cCHHH
Confidence              222                                12334578888899999999999998            88998


Q ss_pred             HHHHHHHhc
Q 040295          254 LYGALSAHM  262 (289)
Q Consensus       254 l~~~L~~~~  262 (289)
                      +|..|...+
T Consensus       217 ~~~~l~~~i  225 (418)
T 2qag_C          217 LVKKIKDRL  225 (418)
T ss_dssp             --------C
T ss_pred             HHHHHHhhC
Confidence            888887654

>1r5b_A Eukaryotic peptide chain release factor GTP-bindi subunit; translation termination, peptide release, GTPase, translatio; 2.35A {Schizosaccharomyces pombe} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1r5n_A* 1r5o_A* 3e20_A

Probab=99.63  E-value=3.4e-16  Score=152.05  Aligned_cols=114  Identities=18%  Similarity=0.159  Sum_probs=65.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcC--CCCC-------------------------------CCCCCcceEEeeEEeecC
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSV--NFED-------------------------------ASDSSSELLVNGWTINTK   94 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~--~~~~-------------------------------~~~~t~~~~~~~~~i~~~   94 (289)
                      +.++|+++|+.++|||||+++|+..  .+..                               ....|+...+.  .+..+
T Consensus        42 ~~~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~~--~~~~~  119 (467)
T 1r5b_A           42 EHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRA--YFETE  119 (467)
T ss_dssp             EEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CC--EEECS
T ss_pred             CeeEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeeeE--EEecC
Confidence            3479999999999999999999752  2110                               01112222211  12222


Q ss_pred             cceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCH---hhHHHHHHHHHH---hhhcCCCeEEEEeeCCCCC
Q 040295           95 YYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDL---STLDALKHWVPS---IDLQKFEILLCIGNKVDLL  165 (289)
Q Consensus        95 ~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~---~S~~~l~~~~~~---i~~~~~~~iivvgnK~Dl~  165 (289)
                        ...+.||||||++.|......+++.+|++|+|+|+++.   .+|+....|...   ....+.+++|+|+||+|+.
T Consensus       120 --~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~  194 (467)
T 1r5b_A          120 --HRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEP  194 (467)
T ss_dssp             --SEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTST
T ss_pred             --CeEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccCC
Confidence              35789999999999988888889999999999999986   344432223222   2333444489999999995

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=99.63  E-value=7.9e-17  Score=148.11  Aligned_cols=173  Identities=11%  Similarity=0.124  Sum_probs=83.7

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC-CCCCCC--------CCCcceEEeeEEeecCcceEEEEE
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV-NFEDAS--------DSSSELLVNGWTINTKYYTADVSL  102 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~-~~~~~~--------~~t~~~~~~~~~i~~~~~~~~l~I  102 (289)
                      .||...++++.      .++|+|+|++|||||||++++.+. .+....        .++.........+...+....+.+
T Consensus         7 ~~~~~~~l~~~------~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv   80 (301)
T 2qnr_A            7 QVHRKSVKKGF------EFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTV   80 (301)
T ss_dssp             -----------------CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEE
T ss_pred             eECCEEEEcCC------CEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcch
Confidence            45555444432      478999999999999999998875 443222        122222223333334445678999


Q ss_pred             EEcCCc-------hhhhcccc-------ccccCcc-----------EEEEEEeCCC-HhhHHHHH-HHHHHhhhcCCCeE
Q 040295          103 WMAHLH-------EEFSIRSL-------PISDQLT-----------ALVMVFNLND-LSTLDALK-HWVPSIDLQKFEIL  155 (289)
Q Consensus       103 ~Dt~G~-------e~~~~~~~-------~~~~~ad-----------~vIlV~Dv~~-~~S~~~l~-~~~~~i~~~~~~~i  155 (289)
                      |||+|+       +.+..+..       .+++.+.           +.+++|..+. ..+|+.+. .++..+.  ...++
T Consensus        81 ~Dt~g~~~~~~~~e~~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~~~Ld~~~~~~l~~l~--~~~~i  158 (301)
T 2qnr_A           81 VDTPGYGDAINCRDCFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAIH--NKVNI  158 (301)
T ss_dssp             EEEC-----------CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSSSSCCHHHHHHHHHHT--TTSCE
T ss_pred             hhhhhhhhhcCcHHHHHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCcccCCCHHHHHHHHHHH--hcCCE
Confidence            999998       55554443       3333222           1123333332 12344433 2333332  22379


Q ss_pred             EEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCC
Q 040295          156 LCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASN  235 (289)
Q Consensus       156 ivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~  235 (289)
                      ++|+||.|+...        +++                                ...++.+.+++..++++|+++||++
T Consensus       159 ilV~~K~Dl~~~--------~e~--------------------------------~~~~~~~~~~~~~~~~~~~e~Sa~~  198 (301)
T 2qnr_A          159 VPVIAKADTLTL--------KER--------------------------------ERLKKRILDEIEEHNIKIYHLPDAE  198 (301)
T ss_dssp             EEEECCGGGSCH--------HHH--------------------------------HHHHHHHHHHHHHTTCCCCCCC---
T ss_pred             EEEEEeCCCCCH--------HHH--------------------------------HHHHHHHHHHHHHcCCeEEecCCcc
Confidence            999999999641        111                                1123447889999999999999998


Q ss_pred             CcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          236 VDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       236 ~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                      +             +++++|..+.+.+...
T Consensus       199 ~-------------~v~e~f~~l~~~i~~~  215 (301)
T 2qnr_A          199 S-------------DEDEDFKEQTRLLKAS  215 (301)
T ss_dssp             -------------------CHHHHHHHHTT
T ss_pred             c-------------cccHHHHHHHHHhhcC
Confidence            6             7888888888777543

>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA polymerase, translation, transferase-RNA complex; HET: GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A* 3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G* 1efu_B

Probab=99.63  E-value=9.4e-16  Score=161.28  Aligned_cols=172  Identities=12%  Similarity=0.067  Sum_probs=109.4

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcC-------CCCC-------CCCCCcceEE--eeEEeecCcceEEEEEEEcCCchh
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSV-------NFED-------ASDSSSELLV--NGWTINTKYYTADVSLWMAHLHEE  110 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~-------~~~~-------~~~~t~~~~~--~~~~i~~~~~~~~l~I~Dt~G~e~  110 (289)
                      .+.++|+++|++++|||||+++|++.       .+..       ....+.+.++  ....+.  .....+.||||||++.
T Consensus       294 k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~--~~~~kI~IIDTPGHed  371 (1289)
T 3avx_A          294 KPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYD--TPTRHYAHVDCPGHAD  371 (1289)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEE--CSSCEEEEEECCCHHH
T ss_pred             CCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEc--CCCEEEEEEECCChHH
Confidence            34589999999999999999999864       1100       0111222221  111222  2345789999999999


Q ss_pred             hhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcc
Q 040295          111 FSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDF  190 (289)
Q Consensus       111 ~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~  190 (289)
                      |......+++.+|++|+|+|+++....+ ...|+..+...+.+.+|+|+||+|+...     +.  .+            
T Consensus       372 F~~~mi~gas~AD~aILVVDAtdGv~~Q-TrEhL~ll~~lgIP~IIVVINKiDLv~d-----~e--~l------------  431 (1289)
T 3avx_A          372 YVKNMITGAAQMDGAILVVAATDGPMPQ-TREHILLGRQVGVPYIIVFLNKCDMVDD-----EE--LL------------  431 (1289)
T ss_dssp             HHHHHHHTSCCCSEEEEEEETTTCSCTT-HHHHHHHHHHHTCSCEEEEEECCTTCCC-----HH--HH------------
T ss_pred             HHHHHHHHHhhCCEEEEEEcCCccCcHH-HHHHHHHHHHcCCCeEEEEEeecccccc-----hh--hH------------
Confidence            9887778899999999999999754332 2334445555555558889999999641     11  00            


Q ss_pred             cCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC-----CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          191 CQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR-----IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       191 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                          +.+..++..++..++     ++++++||++|.- ....   -..|+.++++.|...+.+
T Consensus       432 --------------------e~i~eEi~elLk~~G~~~~~vp~IpvSAktG~n-g~~~---w~eGI~eLleaL~~~Ip~  486 (1289)
T 3avx_A          432 --------------------ELVEMEVRELLSQYDFPGDDTPIVRGSALKALE-GDAE---WEAKILELAGFLDSYIPE  486 (1289)
T ss_dssp             --------------------HHHHHHHHHHHHHTTSCTTTCCEEECCSTTTTT-CCHH---HHHHHHHHHHHHHHTSCC
T ss_pred             --------------------HHHHHHHHHHHHhccccccceeEEEEEeccCCC-CCcc---ccccchhhHhHHhhhcCC
Confidence                                122234667777766     5799999999810 0000   004799999999886643

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.62  E-value=1.5e-16  Score=158.87  Aligned_cols=114  Identities=17%  Similarity=0.151  Sum_probs=63.0

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCC-------------------------------CCCCCCcceEEeeEEeecCc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFE-------------------------------DASDSSSELLVNGWTINTKY   95 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~-------------------------------~~~~~t~~~~~~~~~i~~~~   95 (289)
                      ...++|+|+|++++|||||+++|+.....                               .+..+.+........+... 
T Consensus       175 k~~~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~~~~~~~~-  253 (592)
T 3mca_A          175 KPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVASTTFESD-  253 (592)
T ss_dssp             CCEEEEEEECCSSSTHHHHHHHHHHHHHCC--------------------------------------------------
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEeeEEEEEeC-
Confidence            34578999999999999999999642100                               0001111211111122222 


Q ss_pred             ceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCH----------hhHHHHHHHHHHhhhcCCCeEEEEeeCCCCC
Q 040295           96 YTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDL----------STLDALKHWVPSIDLQKFEILLCIGNKVDLL  165 (289)
Q Consensus        96 ~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~----------~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~  165 (289)
                       ...+.||||||++.|......+++.+|++|+|+|+++.          ++.+.+    ..+...+.+++|+|+||+|+.
T Consensus       254 -~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l----~~~~~lgip~iIvviNKiDl~  328 (592)
T 3mca_A          254 -KKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHA----YLLRALGISEIVVSVNKLDLM  328 (592)
T ss_dssp             ------CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHH----HHHHHSSCCCEEEEEECGGGG
T ss_pred             -CeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHH----HHHHHcCCCeEEEEEeccccc
Confidence             35689999999999988888889999999999999853          333332    223344455689999999995


Q ss_pred             C
Q 040295          166 P  166 (289)
Q Consensus       166 ~  166 (289)
                      .
T Consensus       329 ~  329 (592)
T 3mca_A          329 S  329 (592)
T ss_dssp             T
T ss_pred             c
Confidence            3

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=99.61  E-value=3.9e-15  Score=139.97  Aligned_cols=70  Identities=11%  Similarity=0.069  Sum_probs=61.2

Q ss_pred             ceEEEEEEEcCCchhhhccccccccCccEEEEEEeCC----------CHhhHHHHHHHHHHhhhc---CCCeEEEEeeCC
Q 040295           96 YTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLN----------DLSTLDALKHWVPSIDLQ---KFEILLCIGNKV  162 (289)
Q Consensus        96 ~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~----------~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~  162 (289)
                      ..+.+++|||+||++|+.++..|+++++++|||||++          +..+|+.+..|+..+...   ...|+||||||+
T Consensus       181 ~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~piiLvgNK~  260 (354)
T 2xtz_A          181 SGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKTSFMLFLNKF  260 (354)
T ss_dssp             ---EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECH
T ss_pred             cceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCCeEEEEEECc
Confidence            5688999999999999999999999999999999998          889999999999888654   334999999999


Q ss_pred             CCC
Q 040295          163 DLL  165 (289)
Q Consensus       163 Dl~  165 (289)
                      |+.
T Consensus       261 DL~  263 (354)
T 2xtz_A          261 DIF  263 (354)
T ss_dssp             HHH
T ss_pred             chh
Confidence            994

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=99.61  E-value=7.4e-15  Score=140.13  Aligned_cols=156  Identities=14%  Similarity=0.133  Sum_probs=101.4

Q ss_pred             CCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCC----------HhhHHHHHHHHHHhhh
Q 040295           80 SSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLND----------LSTLDALKHWVPSIDL  149 (289)
Q Consensus        80 ~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~----------~~S~~~l~~~~~~i~~  149 (289)
                      +|+|.......+  +  .+.+++|||+||++|+.++..|+++++++|||||+++          ..+|+.+..|+..+..
T Consensus       203 ~TiGi~~~~~~~--~--~v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~  278 (402)
T 1azs_C          203 LTSGIFETKFQV--D--KVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWN  278 (402)
T ss_dssp             CCCSEEEEEEEE--T--TEEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHT
T ss_pred             ceeeeEEEEeec--C--CccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHh
Confidence            355555433333  2  3789999999999999999999999999999999999          8999999999999876


Q ss_pred             cC---CCeEEEEeeCCCCCCCCCchhHHHHHhh-hcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHH-----
Q 040295          150 QK---FEILLCIGNKVDLLPGHPVHAEYRRRLL-KREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEW-----  220 (289)
Q Consensus       150 ~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----  220 (289)
                      ..   ..|+||||||+|+.        ..+... ......+-|++-..  ..+..   ....++.......+..|     
T Consensus       279 ~~~~~~~piiLvgNK~DL~--------~~ki~~~~~~l~~~fp~y~~~--~~~~~---~~~~~g~~~~~~~a~~fi~~kF  345 (402)
T 1azs_C          279 NRWLRTISVILFLNKQDLL--------AEKVLAGKSKIEDYFPEFARY--TTPED---ATPEPGEDPRVTRAKYFIRDEF  345 (402)
T ss_dssp             CTTCSSCCEEEEEECHHHH--------HHHHHHCSSCGGGTCGGGGTC--CCCSS---CCCCTTCCHHHHHHHHHHHHHH
T ss_pred             cccCCCCeEEEEEEChhhh--------hhhhcccccchhhcccccccc--ccccc---cccccCCcccHHHHHHHHHHHH
Confidence            52   33999999999993        223210 00111233333110  00000   00000110112234444     


Q ss_pred             HHH--------cCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          221 CTE--------HRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       221 ~~~--------~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                      +..        +++.+++|||+++            .||+++|.++...++.
T Consensus       346 ~~~~~~~~~~~~~~~~~~TSA~d~------------~nV~~vF~~v~~~I~~  385 (402)
T 1azs_C          346 LRISTASGDGRHYCYPHFTCAVDT------------ENIRRVFNDCRDIIQR  385 (402)
T ss_dssp             HHHHHTSCTTSSCEEEEECCTTCH------------HHHHHHHHHHHHHHHH
T ss_pred             HHhhccccccCcccEEEEEEeecC------------cCHHHHHHHHHHHHHH
Confidence            232        2466789999999            9999999998876653

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.60  E-value=2.7e-15  Score=134.55  Aligned_cols=115  Identities=16%  Similarity=0.114  Sum_probs=79.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCC--CCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcccccccc-----
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFED--ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISD-----  120 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~--~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~-----  120 (289)
                      ..++|+++|.+|||||||+++|++..+..  .+..+ ........+...  ...+.+|||||++.|......+++     
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~~~~~~-t~~~~~~~~~~~--~~~l~liDTpG~~~~~~~~~~~~~~i~~~  111 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAE-GLRPVMVSRTMG--GFTINIIDTPGLVEAGYVNHQALELIKGF  111 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHTSCCSCCCSSCC--CCCCEEEEEEET--TEEEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCc-ceeeEEEEEEEC--CeeEEEEECCCCCCcccchHHHHHHHHHH
Confidence            45899999999999999999999987532  22221 111122222333  347999999999888766554443     


Q ss_pred             ----CccEEEEEEeCCCHhhHHHH-HHHHHHhhhcCC----CeEEEEeeCCCCCC
Q 040295          121 ----QLTALVMVFNLNDLSTLDAL-KHWVPSIDLQKF----EILLCIGNKVDLLP  166 (289)
Q Consensus       121 ----~ad~vIlV~Dv~~~~S~~~l-~~~~~~i~~~~~----~~iivvgnK~Dl~~  166 (289)
                          .+|++++|++++... +... ..|+..+.....    .|+++|+||+|+.+
T Consensus       112 l~~~~~~~il~V~~~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~  165 (262)
T 3def_A          112 LVNRTIDVLLYVDRLDVYA-VDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSP  165 (262)
T ss_dssp             TTTCEECEEEEEEESSCSC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCC
T ss_pred             HhcCCCCEEEEEEcCCCCC-CCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCC
Confidence                789999999997654 4433 366666655422    38999999999964

>2dy1_A Elongation factor G; translocation, GTP complex, structural genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1wdt_A*

Probab=99.60  E-value=5.1e-15  Score=149.62  Aligned_cols=119  Identities=12%  Similarity=-0.034  Sum_probs=80.2

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCC----------------cceEEeeEEeecCcceEEEEEEEcCCc
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSS----------------SELLVNGWTINTKYYTADVSLWMAHLH  108 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t----------------~~~~~~~~~i~~~~~~~~l~I~Dt~G~  108 (289)
                      ......+|+|+|++|+|||||+++|++.........+                .+..+...........+.+.+|||||+
T Consensus         5 ~~~~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~~~~~nliDTpG~   84 (665)
T 2dy1_A            5 GGAMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGY   84 (665)
T ss_dssp             -CCCEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCS
T ss_pred             ccCCCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeCCEEEEEEeCCCc
Confidence            3456679999999999999999999854322100000                011111111122223568999999999


Q ss_pred             hhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCC
Q 040295          109 EEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLL  165 (289)
Q Consensus       109 e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~  165 (289)
                      +.|......+++.+|++++|+|.++....... .|+..+... ..|+|+|+||+|+.
T Consensus        85 ~~f~~~~~~~l~~ad~~ilVvD~~~g~~~qt~-~~~~~~~~~-~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           85 GDFVGEIRGALEAADAALVAVSAEAGVQVGTE-RAWTVAERL-GLPRMVVVTKLDKG  139 (665)
T ss_dssp             GGGHHHHHHHHHHCSEEEEEEETTTCSCHHHH-HHHHHHHHT-TCCEEEEEECGGGC
T ss_pred             cchHHHHHHHHhhcCcEEEEEcCCcccchhHH-HHHHHHHHc-cCCEEEEecCCchh
Confidence            99988888889999999999999876544433 333444433 34788899999996

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=99.60  E-value=3.5e-15  Score=140.73  Aligned_cols=157  Identities=13%  Similarity=0.121  Sum_probs=101.2

Q ss_pred             HHHHhcCCCCCC-------CCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCC-----
Q 040295           66 LSRLLSVNFEDA-------SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLND-----  133 (289)
Q Consensus        66 i~rl~~~~~~~~-------~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~-----  133 (289)
                      +.|+...++.+.       ..+|.|.......+  +  .+.+.+|||+||+.++..+..|+++++++|||||+++     
T Consensus       166 ~~ri~~~~Y~PT~~Dil~~r~~T~Gi~~~~~~~--~--~~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l  241 (362)
T 1zcb_A          166 LDKLGVPDYIPSQQDILLARRPTKGIHEYDFEI--K--NVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVL  241 (362)
T ss_dssp             HHHHTSTTCCCCHHHHHHCCCCCSSEEEEEEEE--T--TEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEE
T ss_pred             HHHHhcCCCCCChhhhhhccCCccceEEEEeee--C--CeEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccc
Confidence            566666665543       34566665543333  2  4789999999999999999999999999999999998     


Q ss_pred             -----HhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          134 -----LSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       134 -----~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                           ..+|+....|+..+...   ...|+||||||+|+..         .++.......+-|++        +|.    
T Consensus       242 ~ed~~~n~~~es~~~~~~i~~~~~~~~~piILv~NK~DL~~---------~ki~~~~l~~~fp~y--------~g~----  300 (362)
T 1zcb_A          242 MEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLE---------EKVQVVSIKDYFLEF--------EGD----  300 (362)
T ss_dssp             TTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHH---------HHTTTCCGGGTCTTC--------CSC----
T ss_pred             cccccccHHHHHHHHHHHHhcchhhCCCCEEEEEEChhhhh---------hhccccchhhcCccc--------cCC----
Confidence                 78999999999888654   3459999999999941         122111111122221        010    


Q ss_pred             CCCCcHHHHHHHHHHH--------H---HcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          206 DEEPSWEIRRSCLEWC--------T---EHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~--------~---~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                       ...    ...+..++        .   ..++.+++|||+++            .||.++|.++.+.++.
T Consensus       301 -~~~----~~e~~~~~~~~f~~l~~~~~~~~~~~~~tSA~d~------------~nV~~vF~~v~~~i~~  353 (362)
T 1zcb_A          301 -PHC----LRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINT------------ENIRLVFRDVKDTILH  353 (362)
T ss_dssp             -TTC----HHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCH------------HHHHHHHHHHHHHHHH
T ss_pred             -CCC----HHHHHHHHHHHHHHhhcccCCCceEEEEEecCCc------------hhHHHHHHHHHHHHHH
Confidence             000    12255554        1   34578999999999            9999999999987764

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.57  E-value=1.6e-14  Score=146.66  Aligned_cols=119  Identities=15%  Similarity=0.114  Sum_probs=82.1

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCC-CCCCcc-eE---E-----eeEEe-------------------------
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDA-SDSSSE-LL---V-----NGWTI-------------------------   91 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~-~~~t~~-~~---~-----~~~~i-------------------------   91 (289)
                      ...++|+|+|.+|+|||||+|+|++..+.+. ..++.. ..   +     .....                         
T Consensus        67 ~~~~~V~VvG~~naGKSSLlNaLlg~~~~~v~~~p~T~~~~~i~~g~~~~~t~~~~~g~~~~~~~~~~i~~~~~i~~~~~  146 (695)
T 2j69_A           67 QGVFRLLVLGDMKRGKSTFLNALIGENLLPSDVNPCTAVLTVLRYGPEKKVTIHFNDGKSPQQLDFQNFKYKYTIDPAEA  146 (695)
T ss_dssp             HCCEEEEEECCTTSCHHHHHHHHHTSSCSCCCCCTTTCCCEEEEECSSCEEEEEESSSCCCCEEEHHHHHHHSCCCHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCCCCCccceEEEEeCCCCeEEEEEcCCCcccccChhhhhhhhcCCHHHH
Confidence            3568999999999999999999998876432 222221 00   0     00000                         


Q ss_pred             -------------------ecCcce--EEEEEEEcCCchhh---hccccccccCccEEEEEEeCCCHhhHHHHHHHHHHh
Q 040295           92 -------------------NTKYYT--ADVSLWMAHLHEEF---SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI  147 (289)
Q Consensus        92 -------------------~~~~~~--~~l~I~Dt~G~e~~---~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i  147 (289)
                                         ......  ..+.||||||....   ......+++.+|++|+|+|.+++.+......|...+
T Consensus       147 ~~l~~~~~~~~~~v~~i~i~~p~~~l~~~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l  226 (695)
T 2j69_A          147 KKLEQEKKQAFPDVDYAVVEYPLTLLQKGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYI  226 (695)
T ss_dssp             HHHHTSSCCSCTTEEEEEEEECCHHHHTTEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHT
T ss_pred             HHHhhccccccccceEEEEEccchhccCCeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHH
Confidence                               000000  25899999997653   334457788999999999999988888887776666


Q ss_pred             hhcCCCeEEEEeeCCCCCC
Q 040295          148 DLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       148 ~~~~~~~iivvgnK~Dl~~  166 (289)
                      ... ..|+++|+||+|+..
T Consensus       227 ~~~-~~~iiiVlNK~Dl~~  244 (695)
T 2j69_A          227 KGR-GLTVFFLVNAWDQVR  244 (695)
T ss_dssp             TTS-CCCEEEEEECGGGGG
T ss_pred             Hhh-CCCEEEEEECccccc
Confidence            544 346999999999963

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.56  E-value=6.8e-15  Score=132.40  Aligned_cols=117  Identities=14%  Similarity=0.079  Sum_probs=77.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccc-------c--
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLP-------I--  118 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~-------~--  118 (289)
                      ..++|+++|.+|+|||||+++|++..+.... .+.+..+.............+.+|||||++.+......       +  
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~l~iiDTpG~~~~~~~~~~~~~~i~~~~~  116 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIGERVVSIS-PFQSEGPRPVMVSRSRAGFTLNIIDTPGLIEGGYINDMALNIIKSFLL  116 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTSCCSCCC-SSSCCCSSCEEEEEEETTEEEEEEECCCSEETTEECHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCccccc-CCCCcceeeEEEEEeeCCeEEEEEECCCCCCCccchHHHHHHHHHHhh
Confidence            3589999999999999999999988763211 11111111112222223467999999999776543321       1  


Q ss_pred             ccCccEEEEEEeCCCHhhHHHH-HHHHHHhhhc-CC---CeEEEEeeCCCCCC
Q 040295          119 SDQLTALVMVFNLNDLSTLDAL-KHWVPSIDLQ-KF---EILLCIGNKVDLLP  166 (289)
Q Consensus       119 ~~~ad~vIlV~Dv~~~~S~~~l-~~~~~~i~~~-~~---~~iivvgnK~Dl~~  166 (289)
                      .+.+|++|+|||++.. ++... ..|+..+... ..   .|+++|+||+|+.+
T Consensus       117 ~~~~d~il~v~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~  168 (270)
T 1h65_A          117 DKTIDVLLYVDRLDAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSP  168 (270)
T ss_dssp             TCEECEEEEEEESSCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCC
T ss_pred             cCCCCEEEEEEeCCCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCC
Confidence            3479999999998753 34433 3677766544 22   48999999999965

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=99.56  E-value=4.5e-14  Score=135.38  Aligned_cols=166  Identities=16%  Similarity=0.099  Sum_probs=113.0

Q ss_pred             ccccccCCCceEEEEcCCCCCHHHHHHHHhcCCCC-CCCC-CCcceEEeeEEeecCcceEEEEEEEcCCchh----hhcc
Q 040295           41 TDRASLEKRPGILIIGSSNVGKRTILSRLLSVNFE-DASD-SSSELLVNGWTINTKYYTADVSLWMAHLHEE----FSIR  114 (289)
Q Consensus        41 ~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~-~~~~-~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~----~~~~  114 (289)
                      ..+........|+|+|++|||||||++++.+.... ..+. .|.......  +.... ...+.+||++|...    +..+
T Consensus       149 ~i~lelk~g~~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~~ftTl~p~~G~--V~~~~-~~~~~l~DtpGli~~a~~~~~L  225 (416)
T 1udx_A          149 RLRLELMLIADVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGV--VEVSE-EERFTLADIPGIIEGASEGKGL  225 (416)
T ss_dssp             EEEEEECCSCSEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEE--EECSS-SCEEEEEECCCCCCCGGGSCCS
T ss_pred             eeeeEEcCCCEEEEECCCCCcHHHHHHHHHcCCccccCcccceecceeeE--EEecC-cceEEEEeccccccchhhhhhh
Confidence            34556666788999999999999999999987531 1121 122222222  22222 24589999999732    2222


Q ss_pred             cccc---ccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcC----CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCC
Q 040295          115 SLPI---SDQLTALVMVFNLNDLSTLDALKHWVPSIDLQK----FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSAD  187 (289)
Q Consensus       115 ~~~~---~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~----~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~  187 (289)
                      ...+   +..++.+++|+|++ ...+..+..|...+....    ..|.|+|+||+|+...        ..+         
T Consensus       226 ~~~fl~~~era~~lL~vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~--------~~~---------  287 (416)
T 1udx_A          226 GLEFLRHIARTRVLLYVLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE--------EAV---------  287 (416)
T ss_dssp             CHHHHHHHTSSSEEEEEEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH--------HHH---------
T ss_pred             hHHHHHHHHHHHhhhEEeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhH--------HHH---------
Confidence            2222   34689999999998 667888887777665542    3478888999999531        111         


Q ss_pred             CcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          188 PDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       188 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                                                 ..+..++...++.++++||+++            +|+++++++|.+.+....
T Consensus       288 ---------------------------~~l~~~l~~~g~~vi~iSA~~g------------~gi~eL~~~i~~~l~~~~  327 (416)
T 1udx_A          288 ---------------------------KALADALAREGLAVLPVSALTG------------AGLPALKEALHALVRSTP  327 (416)
T ss_dssp             ---------------------------HHHHHHHHTTTSCEEECCTTTC------------TTHHHHHHHHHHHHHTSC
T ss_pred             ---------------------------HHHHHHHHhcCCeEEEEECCCc------------cCHHHHHHHHHHHHHhcc
Confidence                                       1244555566789999999999            999999999999886544

>1dar_A EF-G, elongation factor G; ribosomal translocase, translational GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A 2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A* 1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A* 3izp_E 1zn0_B 1jqs_C 2bcw_C ...

Probab=99.55  E-value=1.9e-14  Score=146.09  Aligned_cols=116  Identities=17%  Similarity=0.156  Sum_probs=82.3

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcC--CCC------C------------CCCCCcceEEeeEEeecCcceEEEEEEEc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSV--NFE------D------------ASDSSSELLVNGWTINTKYYTADVSLWMA  105 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~--~~~------~------------~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt  105 (289)
                      .....+|+|+|++|+|||||+++|+..  .+.      .            ....|+.....  .+..  ..+.+.+|||
T Consensus         9 ~~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~~--~~~~--~~~~i~liDT   84 (691)
T 1dar_A            9 LKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVT--TCFW--KDHRINIIDT   84 (691)
T ss_dssp             GGGEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CCEE--EEEE--TTEEEEEECC
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccceE--EEEE--CCeEEEEEEC
Confidence            345689999999999999999999842  110      0            11122222211  2222  2467999999


Q ss_pred             CCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCC
Q 040295          106 HLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPG  167 (289)
Q Consensus       106 ~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~  167 (289)
                      ||+..|......+++.+|++|+|+|.++..+++....|.. +... ..|+++|+||+|+...
T Consensus        85 PG~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~-~~~~-~~p~ivviNKiD~~~~  144 (691)
T 1dar_A           85 PGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQ-AEKY-KVPRIAFANKMDKTGA  144 (691)
T ss_dssp             CSSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHH-HHHT-TCCEEEEEECTTSTTC
T ss_pred             cCccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHH-HHHc-CCCEEEEEECCCcccC
Confidence            9999998888888999999999999999888887777764 3332 3478889999999753

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=99.54  E-value=5.2e-15  Score=138.66  Aligned_cols=116  Identities=12%  Similarity=0.179  Sum_probs=74.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcc---eEE------------e---------------------------
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSE---LLV------------N---------------------------   87 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~---~~~------------~---------------------------   87 (289)
                      .+|+|+|++|||||||+++|++..|.+....+..   ...            .                           
T Consensus        35 p~I~vvG~~~sGKSSLln~l~g~~~lp~~~~~vT~~p~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~~~~~~  114 (360)
T 3t34_A           35 PAIAVVGGQSSGKSSVLESIVGKDFLPRGSGIVTRRPLVLQLQKIDDGTREYAEFLHLPRKKFTDFAAVRKEIQDETDRE  114 (360)
T ss_dssp             CEEEEECBTTSSHHHHHHHHHTSCCSCCCSSSCCCSCEEEEEEECSSCSCCEEEETTSTTCCBSCHHHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCcCCCCCCcccCcceEEEEecCCCcccceeeeecCCCcccCCHHHHHHHHHHHHHHh
Confidence            4999999999999999999999887433221111   000            0                           


Q ss_pred             ------------eEEeecCcceEEEEEEEcCCchhh-------------hccccccccCccEEEEEEeCCCHhhH-HHHH
Q 040295           88 ------------GWTINTKYYTADVSLWMAHLHEEF-------------SIRSLPISDQLTALVMVFNLNDLSTL-DALK  141 (289)
Q Consensus        88 ------------~~~i~~~~~~~~l~I~Dt~G~e~~-------------~~~~~~~~~~ad~vIlV~Dv~~~~S~-~~l~  141 (289)
                                  ...+.. .....+.+|||||...+             ..+...|++.++++|+|+|..+.... ....
T Consensus       115 ~g~~~~~s~~~i~l~i~~-~~~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~~~~~  193 (360)
T 3t34_A          115 TGRSKAISSVPIHLSIYS-PNVVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLATSDAI  193 (360)
T ss_dssp             SCTTCCCCCSCEEEEEEE-TTSCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGGCHHH
T ss_pred             cCCCCCcccceEEEEEeC-CCCCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCCHHHH
Confidence                        000000 01235899999998876             45566788999999999987543322 2222


Q ss_pred             HHHHHhhhcCCCeEEEEeeCCCCCCC
Q 040295          142 HWVPSIDLQKFEILLCIGNKVDLLPG  167 (289)
Q Consensus       142 ~~~~~i~~~~~~~iivvgnK~Dl~~~  167 (289)
                      .++..+... ..|+|+|+||+|+...
T Consensus       194 ~l~~~~~~~-~~~~i~V~nK~Dl~~~  218 (360)
T 3t34_A          194 KISREVDPS-GDRTFGVLTKIDLMDK  218 (360)
T ss_dssp             HHHHHSCTT-CTTEEEEEECGGGCCT
T ss_pred             HHHHHhccc-CCCEEEEEeCCccCCC
Confidence            333333332 3378999999999753

>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET: GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W* 3zvo_Y* 3uoq_W*

Probab=99.52  E-value=7e-14  Score=137.86  Aligned_cols=119  Identities=19%  Similarity=0.178  Sum_probs=77.0

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCC--------------------CCCCcceEEeeEEeecCcceEEEEEEEcC
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDA--------------------SDSSSELLVNGWTINTKYYTADVSLWMAH  106 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~--------------------~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~  106 (289)
                      ....+|+|+|++|+|||||+++|+.......                    ...+.+..+........+..+.+.+||||
T Consensus        11 ~~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~liDTP   90 (529)
T 2h5e_A           11 AKRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFPYHDCLVNLLDTP   90 (529)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEEEETTEEEEEECCC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEEEECCeEEEEEECC
Confidence            3458999999999999999999996321000                    00111111111111122234679999999


Q ss_pred             CchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCC
Q 040295          107 LHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPG  167 (289)
Q Consensus       107 G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~  167 (289)
                      |++.|......+++.+|++|+|+|+++...... ..++..+.. ...|+++|+||+|+...
T Consensus        91 G~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~t-~~~~~~~~~-~~ipiivviNK~Dl~~~  149 (529)
T 2h5e_A           91 GHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRT-RKLMEVTRL-RDTPILTFMNKLDRDIR  149 (529)
T ss_dssp             CSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHH-HHHHHHHTT-TTCCEEEEEECTTSCCS
T ss_pred             CChhHHHHHHHHHHHCCEEEEEEeCCccchHHH-HHHHHHHHH-cCCCEEEEEcCcCCccc
Confidence            999998877788999999999999987643322 222233332 23478999999999654

>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP, 50S subunit, cryo-EM, REAL-space refinement, ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H

Probab=99.50  E-value=2.5e-13  Score=138.07  Aligned_cols=120  Identities=16%  Similarity=0.109  Sum_probs=83.0

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCC--CCC------------------CCCCCcceEEeeEEeec---CcceEEEEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVN--FED------------------ASDSSSELLVNGWTINT---KYYTADVSL  102 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~--~~~------------------~~~~t~~~~~~~~~i~~---~~~~~~l~I  102 (289)
                      .....+|+|+|+.|+|||||+++|+...  +..                  ....|+...........   .+..+.+.|
T Consensus         7 ~~~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~~~~i~l   86 (704)
T 2rdo_7            7 IARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINI   86 (704)
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEEECCccccCCceeEEE
Confidence            3456899999999999999999997531  111                  01112221112222211   233478999


Q ss_pred             EEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCC
Q 040295          103 WMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPG  167 (289)
Q Consensus       103 ~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~  167 (289)
                      |||||+..|......+++.+|++|+|+|.++....+....|.. .... ..|+++|+||+|+...
T Consensus        87 iDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~-~~~~-~ip~ilviNKiD~~~~  149 (704)
T 2rdo_7           87 IDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWRQ-ANKY-KVPRIAFVNKMDRMGA  149 (704)
T ss_pred             EeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHHH-HHHc-CCCEEEEEeCCCcccc
Confidence            9999999998888888999999999999998776666665543 2222 3478889999999653

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=99.50  E-value=6.4e-14  Score=127.81  Aligned_cols=68  Identities=9%  Similarity=0.062  Sum_probs=44.6

Q ss_pred             EEEEEEEcCCchh-------------hhccccccccCccEEEEEEeCCCHh-hHHHHHHHHHHhhhcCCCeEEEEeeCCC
Q 040295           98 ADVSLWMAHLHEE-------------FSIRSLPISDQLTALVMVFNLNDLS-TLDALKHWVPSIDLQKFEILLCIGNKVD  163 (289)
Q Consensus        98 ~~l~I~Dt~G~e~-------------~~~~~~~~~~~ad~vIlV~Dv~~~~-S~~~l~~~~~~i~~~~~~~iivvgnK~D  163 (289)
                      ..+.+|||||...             +......+++.+|++|+|+|.++.. .-.....+...+.. ...|+++|+||+|
T Consensus       131 ~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~~~-~~~~~i~v~NK~D  209 (315)
T 1jwy_B          131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVDP-EGKRTIGVITKLD  209 (315)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHCS-SCSSEEEEEECTT
T ss_pred             CCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHhCC-CCCcEEEEEcCcc
Confidence            4689999999753             4455567788999999999974322 11111123333332 3448999999999


Q ss_pred             CCC
Q 040295          164 LLP  166 (289)
Q Consensus       164 l~~  166 (289)
                      +..
T Consensus       210 l~~  212 (315)
T 1jwy_B          210 LMD  212 (315)
T ss_dssp             SSC
T ss_pred             cCC
Confidence            974

>1wxq_A GTP-binding protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2

Probab=99.50  E-value=7.1e-14  Score=133.25  Aligned_cols=85  Identities=16%  Similarity=-0.015  Sum_probs=47.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCC-CCC-----CCcceEEeeEEe----------------ecCcceEEEEEEEcCC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFED-ASD-----SSSELLVNGWTI----------------NTKYYTADVSLWMAHL  107 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~-----~t~~~~~~~~~i----------------~~~~~~~~l~I~Dt~G  107 (289)
                      +||+|+|.+|||||||+|+|++..... .+.     ++.+..+.....                ......+.+.+|||||
T Consensus         1 ~kI~ivG~pnvGKSTL~n~L~~~~~~~~~~p~tT~~~~~g~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~i~lvDtpG   80 (397)
T 1wxq_A            1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (397)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCcccCCceEEEeeccCCchHHhhhhcccccccccCCcceEEEEEEECCC
Confidence            589999999999999999999887321 121     122211111000                0112246799999999


Q ss_pred             chh----hhcccc---ccccCccEEEEEEeCCCH
Q 040295          108 HEE----FSIRSL---PISDQLTALVMVFNLNDL  134 (289)
Q Consensus       108 ~e~----~~~~~~---~~~~~ad~vIlV~Dv~~~  134 (289)
                      +..    +..+..   .+++.+|++++|+|+++.
T Consensus        81 ~~~~a~~~~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             --------------CCCSSTTCSEEEEEEETTCC
T ss_pred             cccchhhhhhHHHHHHHHHhcCCEEEEEEecccc
Confidence            854    222333   457899999999999874

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.47  E-value=9.8e-14  Score=119.86  Aligned_cols=152  Identities=16%  Similarity=0.062  Sum_probs=90.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCC------CCCc----------ceEEeeEEeec----------------Ccc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDAS------DSSS----------ELLVNGWTINT----------------KYY   96 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~------~~t~----------~~~~~~~~i~~----------------~~~   96 (289)
                      ..+|+|+|.+|||||||+++|+........      .+..          +...  ..+..                ...
T Consensus        30 ~~~i~i~G~~g~GKTTl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~  107 (221)
T 2wsm_A           30 TVAVNIMGAIGSGKTLLIERTIERIGNEVKIGAMLGDVVSKADYERVRRFGIKA--EAISTGKECHLDAHMIYHRLKKFS  107 (221)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHTTTSCEEEEECSCCCHHHHHHHHTTTCEE--EECCCTTCSSCCHHHHHTTGGGGT
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEecCCCCchhHHHHHhCCCcE--EEecCCceeecccHHHHHHHHhcC
Confidence            468999999999999999999865321100      0000          0000  11111                112


Q ss_pred             eEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHH
Q 040295           97 TADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRR  176 (289)
Q Consensus        97 ~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r  176 (289)
                      .+.+.+|||+|+-....   .+...++++|+|+|++.....  ...+...+    ..|+++|+||+|+.+        .+
T Consensus       108 ~~d~iiidt~G~~~~~~---~~~~~~~~~i~vvd~~~~~~~--~~~~~~~~----~~~~iiv~NK~Dl~~--------~~  170 (221)
T 2wsm_A          108 DCDLLLIENVGNLICPV---DFDLGENYRVVMVSVTEGDDV--VEKHPEIF----RVADLIVINKVALAE--------AV  170 (221)
T ss_dssp             TCSEEEEEEEEBSSGGG---GCCCSCSEEEEEEEGGGCTTH--HHHCHHHH----HTCSEEEEECGGGHH--------HH
T ss_pred             CCCEEEEeCCCCCCCCc---hhccccCcEEEEEeCCCcchh--hhhhhhhh----hcCCEEEEecccCCc--------ch
Confidence            35789999999611111   122357899999998765321  11122211    236788999999942        11


Q ss_pred             HhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHc--CCeEEEeecCCCcccccccCCCCchhHHHH
Q 040295          177 RLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEH--RIEYIEACASNVDFDKCLSIDGDSQGVERL  254 (289)
Q Consensus       177 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l  254 (289)
                      ..                              ...    .+..++...  +++++++||++|            .|++++
T Consensus       171 ~~------------------------------~~~----~~~~~~~~~~~~~~i~~~Sa~~g------------~gi~~l  204 (221)
T 2wsm_A          171 GA------------------------------DVE----KMKADAKLINPRAKIIEMDLKTG------------KGFEEW  204 (221)
T ss_dssp             TC------------------------------CHH----HHHHHHHHHCTTSEEEECBTTTT------------BTHHHH
T ss_pred             hh------------------------------HHH----HHHHHHHHhCCCCeEEEeecCCC------------CCHHHH
Confidence            01                              001    133334333  478999999999            999999


Q ss_pred             HHHHHHhcccC
Q 040295          255 YGALSAHMWPG  265 (289)
Q Consensus       255 ~~~L~~~~~~~  265 (289)
                      |++|.+.+...
T Consensus       205 ~~~l~~~~~~~  215 (221)
T 2wsm_A          205 IDFLRGILNVH  215 (221)
T ss_dssp             HHHHHHHHC--
T ss_pred             HHHHHHHHHHH
Confidence            99999877654

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.46  E-value=2.4e-13  Score=137.95  Aligned_cols=116  Identities=19%  Similarity=0.124  Sum_probs=82.2

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhc--CCCCCC------------------CCCCcceEEeeEEeecCcceEEEEEEEc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLS--VNFEDA------------------SDSSSELLVNGWTINTKYYTADVSLWMA  105 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~--~~~~~~------------------~~~t~~~~~~~~~i~~~~~~~~l~I~Dt  105 (289)
                      .....+|+|+|++|+|||||+++|+.  +.+...                  ...|.....  ..+...  ...+.+|||
T Consensus         7 ~~~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~--~~~~~~--~~~i~liDT   82 (693)
T 2xex_A            7 LEKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAA--TTAAWE--GHRVNIIDT   82 (693)
T ss_dssp             STTEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------CCSE--EEEEET--TEEEEEECC
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeee--EEEEEC--CeeEEEEEC
Confidence            44568999999999999999999985  222100                  001111111  112222  467999999


Q ss_pred             CCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCC
Q 040295          106 HLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPG  167 (289)
Q Consensus       106 ~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~  167 (289)
                      ||+..|......+++.+|++|+|+|.++..+++....|.. +... ..|+++|+||+|+...
T Consensus        83 PG~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~-~~~~-~~p~ilviNK~Dl~~~  142 (693)
T 2xex_A           83 PGHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQ-ATTY-GVPRIVFVNKMDKLGA  142 (693)
T ss_dssp             CCCSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHH-HHHT-TCCEEEEEECTTSTTC
T ss_pred             cCCcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHH-HHHc-CCCEEEEEECCCcccc
Confidence            9999988877788999999999999998888877776654 3333 3478889999999753

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=99.44  E-value=1.1e-12  Score=123.49  Aligned_cols=84  Identities=15%  Similarity=-0.004  Sum_probs=55.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCC-CC-CCcceEEeeEEeecCc-------------ceEEEEEEEcCCchhhh--
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDA-SD-SSSELLVNGWTINTKY-------------YTADVSLWMAHLHEEFS--  112 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~-~~-~t~~~~~~~~~i~~~~-------------~~~~l~I~Dt~G~e~~~--  112 (289)
                      ++|+|+|.+|||||||+|++++..+... +. .|.........+....             ....+.+|||||+..+.  
T Consensus         3 ~kI~IVG~pnvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~g~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~a~~   82 (363)
T 1jal_A            3 FKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGASK   82 (363)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceECceEEEEecCCcccceeeeeecccceeeeEEEEEECCCCcccccc
Confidence            7999999999999999999998774221 21 2333322222222110             02469999999997653  


Q ss_pred             --ccccc---cccCccEEEEEEeCCC
Q 040295          113 --IRSLP---ISDQLTALVMVFNLND  133 (289)
Q Consensus       113 --~~~~~---~~~~ad~vIlV~Dv~~  133 (289)
                        .+...   +++.+|++++|+|+++
T Consensus        83 ~~gl~~~fl~~ir~ad~il~VvD~~~  108 (363)
T 1jal_A           83 GEGLGNKFLANIRETDAIGHVVRCFE  108 (363)
T ss_dssp             HGGGTCCHHHHHHTCSEEEEEEECSC
T ss_pred             cchHHHHHHHHHHhcCeEEEEEecCC
Confidence              33333   4789999999999985

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.43  E-value=6.1e-16  Score=134.28  Aligned_cols=36  Identities=11%  Similarity=0.129  Sum_probs=27.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSE   83 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~   83 (289)
                      ..++|+|+|++|||||||+++|+...+...+..+++
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~~~~~~~~~~i~   72 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDNLKDKYKIACIA   72 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEE
Confidence            347999999999999999999998765443333333

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=99.42  E-value=7.4e-14  Score=130.63  Aligned_cols=117  Identities=13%  Similarity=0.150  Sum_probs=69.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCC-C-C--cce-EEe-----------------------------------
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASD-S-S--SEL-LVN-----------------------------------   87 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~-~-t--~~~-~~~-----------------------------------   87 (289)
                      ..++|+|+|.+|||||||+++|++..+.+... . |  .+. ...                                   
T Consensus        30 ~~~~I~vvG~~~~GKSSLln~L~g~~~~p~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~tt~~~v~~~i~~~~~~i~  109 (353)
T 2x2e_A           30 DLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNATTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVT  109 (353)
T ss_dssp             CCCEEEEECBTTSSHHHHHHTTTTSCCSCCCSSSCCCSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhCCCcCCCCCCcccccceEEEEEcCCccceeeeecCCcccCCHHHHHHHHHHHHHHhc
Confidence            34799999999999999999999988743211 0 0  000 000                                   


Q ss_pred             -----------eEEeecCcceEEEEEEEcCCch-------------hhhccccccccCccEEEE-EEeCCCHhhHHHHHH
Q 040295           88 -----------GWTINTKYYTADVSLWMAHLHE-------------EFSIRSLPISDQLTALVM-VFNLNDLSTLDALKH  142 (289)
Q Consensus        88 -----------~~~i~~~~~~~~l~I~Dt~G~e-------------~~~~~~~~~~~~ad~vIl-V~Dv~~~~S~~~l~~  142 (289)
                                 ...+... ....+.+|||||..             .+..+...|++.++.+|+ |.|.+....-.....
T Consensus       110 g~~~gi~~~~~~~~i~~~-~~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~~~  188 (353)
T 2x2e_A          110 GTNKGISPVPINLRVYSP-HVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALK  188 (353)
T ss_dssp             TTTTCCCCCCEEEEEEET-TCCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCHHHH
T ss_pred             ccCCCcccCceEEEEecC-CCCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhHHHH
Confidence                       0000000 12468999999963             455566677766665555 555543222122223


Q ss_pred             HHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          143 WVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       143 ~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ++..+.. ...|+++|+||+|+..
T Consensus       189 i~~~~~~-~~~~~i~V~NK~Dl~~  211 (353)
T 2x2e_A          189 VAKEVDP-QGQRTIGVITKLDLMD  211 (353)
T ss_dssp             HHHHHCT-TCTTEEEEEECGGGSC
T ss_pred             HHHHhCc-CCCceEEEeccccccC
Confidence            4444433 2348899999999975

>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation; HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A* 1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T* 2zit_A* 1u2r_A* 3b78_A* 3b8h_A*

Probab=99.37  E-value=5e-13  Score=138.34  Aligned_cols=117  Identities=15%  Similarity=0.077  Sum_probs=85.1

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCC------------CCC----C--CCCCcceEEeeEEee------------cCcc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVN------------FED----A--SDSSSELLVNGWTIN------------TKYY   96 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~------------~~~----~--~~~t~~~~~~~~~i~------------~~~~   96 (289)
                      ....+|+|+|+.++|||||+++|+...            +.+    +  ...|+..........            .++.
T Consensus        17 ~~~rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~~   96 (842)
T 1n0u_A           17 TNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGN   96 (842)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSS
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEecccccccccccccccCC
Confidence            345789999999999999999998641            111    0  111332222222222            1334


Q ss_pred             eEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCC
Q 040295           97 TADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLL  165 (289)
Q Consensus        97 ~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~  165 (289)
                      .+.+.||||||+..|......+++.+|++|+|+|+++..+++....|.....  ...|+++|+||+|+.
T Consensus        97 ~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~~--~~~p~ilviNK~D~~  163 (842)
T 1n0u_A           97 SFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALG--ERIKPVVVINKVDRA  163 (842)
T ss_dssp             EEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH--TTCEEEEEEECHHHH
T ss_pred             CceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHH--cCCCeEEEEECCCcc
Confidence            6789999999999999888889999999999999999988888777765432  234788899999985

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.36  E-value=5.8e-13  Score=131.90  Aligned_cols=119  Identities=13%  Similarity=0.221  Sum_probs=81.9

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCC---CCCCCCcceEEeeEEeecC-----------------------c----
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFE---DASDSSSELLVNGWTINTK-----------------------Y----   95 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~---~~~~~t~~~~~~~~~i~~~-----------------------~----   95 (289)
                      ....++|+|+|.+|||||||+|+|++..+.   ....++... .........                       +    
T Consensus        62 ~~~~~~V~vvG~~n~GKSTLIN~Llg~~~~~~~vs~~p~T~~-~~~i~~~~~~~i~~g~~l~~~~~~~~~~L~~~g~~~~  140 (550)
T 2qpt_A           62 FDGKPMVLVAGQYSTGKTSFIQYLLEQEVPGSRVGPEPTTDC-FVAVMHGETEGTVPGNALVVDPEKPFRKLNPFGNTFL  140 (550)
T ss_dssp             TSSCCEEEEEEBTTSCHHHHHHHHHTSCCSSCCCCSSCCCCS-EEEEECCSSSEEECCC------------------CCC
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHhCCccccCccCCCCccce-EEEEEECCcccccCCceeeecCcccHHHHhhhccccc
Confidence            455689999999999999999999998863   122222211 100000000                       0    


Q ss_pred             -c----------eEEEEEEEcCCchh-----------hhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCC
Q 040295           96 -Y----------TADVSLWMAHLHEE-----------FSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFE  153 (289)
Q Consensus        96 -~----------~~~l~I~Dt~G~e~-----------~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~  153 (289)
                       .          ...+.+|||||...           |......+++.+|++|+|+|+++....+....|+..+.... .
T Consensus       141 ~~~~~~~~~~~ll~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~~~-~  219 (550)
T 2qpt_A          141 NRFMCAQLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRGHE-D  219 (550)
T ss_dssp             TTEEEEECCCHHHHHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTTCG-G
T ss_pred             ccceEEeccccccCCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHhcC-C
Confidence             0          02588999999864           44555567888999999999988666666677777776433 4


Q ss_pred             eEEEEeeCCCCCC
Q 040295          154 ILLCIGNKVDLLP  166 (289)
Q Consensus       154 ~iivvgnK~Dl~~  166 (289)
                      |+++|+||+|+..
T Consensus       220 pvilVlNK~Dl~~  232 (550)
T 2qpt_A          220 KIRVVLNKADMVE  232 (550)
T ss_dssp             GEEEEEECGGGSC
T ss_pred             CEEEEEECCCccC
Confidence            7899999999975

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=99.35  E-value=4.9e-13  Score=125.24  Aligned_cols=106  Identities=15%  Similarity=0.068  Sum_probs=67.2

Q ss_pred             eEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHH
Q 040295           97 TADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRR  176 (289)
Q Consensus        97 ~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r  176 (289)
                      .+.+.||||||.....   ......+|++|+|+|.+..+.++.+..+   +   ...|+++|+||+|+.+.     ....
T Consensus       171 ~~~~iiiDTpGi~~~~---~~~~~~aD~vl~V~d~~~~~~~~~l~~~---~---~~~p~ivVlNK~Dl~~~-----~~~~  236 (355)
T 3p32_A          171 GFDVILIETVGVGQSE---VAVANMVDTFVLLTLARTGDQLQGIKKG---V---LELADIVVVNKADGEHH-----KEAR  236 (355)
T ss_dssp             TCCEEEEEECSCSSHH---HHHHTTCSEEEEEEESSTTCTTTTCCTT---S---GGGCSEEEEECCCGGGH-----HHHH
T ss_pred             CCCEEEEeCCCCCcHH---HHHHHhCCEEEEEECCCCCccHHHHHHh---H---hhcCCEEEEECCCCcCh-----hHHH
Confidence            3578999999943211   1235789999999998766555333211   1   11278889999999421     0111


Q ss_pred             HhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHH-------HcCCeEEEeecCCCcccccccCCCCch
Q 040295          177 RLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCT-------EHRIEYIEACASNVDFDKCLSIDGDSQ  249 (289)
Q Consensus       177 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~ie~Sa~~~~~~~~~~~~~~~~  249 (289)
                      ..                                   .+.......       .++.+++++||++|            .
T Consensus       237 ~~-----------------------------------~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g------------~  269 (355)
T 3p32_A          237 LA-----------------------------------ARELSAAIRLIYPREALWRPPVLTMSAVEG------------R  269 (355)
T ss_dssp             HH-----------------------------------HHHHHHHHHHHSTTCCSCCCCEEEEBGGGT------------B
T ss_pred             HH-----------------------------------HHHHHHHHhhccccccCCCCceEEEEcCCC------------C
Confidence            11                                   011111111       12578999999999            9


Q ss_pred             hHHHHHHHHHHhcc
Q 040295          250 GVERLYGALSAHMW  263 (289)
Q Consensus       250 ~i~~l~~~L~~~~~  263 (289)
                      |+++++++|.+.+.
T Consensus       270 Gi~~L~~~i~~~~~  283 (355)
T 3p32_A          270 GLAELWDTVERHRQ  283 (355)
T ss_dssp             SHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999988763

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=99.29  E-value=8e-12  Score=117.96  Aligned_cols=84  Identities=15%  Similarity=0.043  Sum_probs=54.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCC-CCCCC-CcceEEeeEEeec------------C-----cceEEEEEEEcCCchh
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFE-DASDS-SSELLVNGWTINT------------K-----YYTADVSLWMAHLHEE  110 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~-~~~~~-t~~~~~~~~~i~~------------~-----~~~~~l~I~Dt~G~e~  110 (289)
                      ++|+|+|.+|||||||++++.+.... ..+.. |.........+..            .     .....+.+|||||+..
T Consensus         2 ~~v~IVG~pnvGKSTL~n~L~~~~~~v~~~p~~Ti~pn~g~~~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvDtpGl~~   81 (368)
T 2dby_A            2 LAVGIVGLPNVGKSTLFNALTRANALAANYPFATIDKNVGVVPLEDERLYALQRTFAKGERVPPVVPTHVEFVDIAGLVK   81 (368)
T ss_dssp             CSEEEECCSSSSHHHHHHHHHHHHTTCSSCCGGGGSTTEEEEECCCHHHHHHHHHHCBTTBCCCEECCEEEEEECCSCCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeccceeeEecChHHHHHHHHHhcccccccccCCceEEEEECCCccc
Confidence            68999999999999999999976421 11111 2221111112111            0     1235699999999876


Q ss_pred             hhc----ccc---ccccCccEEEEEEeCCC
Q 040295          111 FSI----RSL---PISDQLTALVMVFNLND  133 (289)
Q Consensus       111 ~~~----~~~---~~~~~ad~vIlV~Dv~~  133 (289)
                      +.+    +..   .+++.+|++++|+|+++
T Consensus        82 ~a~~~~~lg~~fl~~ir~ad~ii~VvD~~~  111 (368)
T 2dby_A           82 GAHKGEGLGNQFLAHIREVAAIAHVLRCFP  111 (368)
T ss_dssp             CCCSSSCTTHHHHHHHHTCSEEEEEEECCC
T ss_pred             cccccchHHHHHHHHHHhCCEEEEEEECCC
Confidence            532    222   34789999999999974

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=99.27  E-value=2.3e-12  Score=120.17  Aligned_cols=124  Identities=11%  Similarity=-0.008  Sum_probs=69.1

Q ss_pred             cCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC------CCC-----CCCCCCcce----------------E
Q 040295           33 FGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV------NFE-----DASDSSSEL----------------L   85 (289)
Q Consensus        33 ~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~------~~~-----~~~~~t~~~----------------~   85 (289)
                      |+...+..+.+........|+++|++|+|||||++.+.+.      ...     .....+.+.                -
T Consensus        40 ~~~~~~~~~l~~~~~~~~~i~i~G~~g~GKSTl~~~l~~~~~~~~~~v~v~~~d~~~~~~~~~il~d~~~~~~~~~~~~~  119 (341)
T 2p67_A           40 ALSTQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSILGDKTRMNDLARAEAA  119 (341)
T ss_dssp             HHHHHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC---------------CTTTTCTTE
T ss_pred             hHHHHHHHhCCcccCCCEEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEeecCCcCCCCcceecccchHHhhccCCCc
Confidence            4444455445566677889999999999999999999631      100     000000000                0


Q ss_pred             EeeEEee------------------cCcceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHh
Q 040295           86 VNGWTIN------------------TKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI  147 (289)
Q Consensus        86 ~~~~~i~------------------~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i  147 (289)
                      +. ....                  .....+.+.||||||...+..   ...+.+|++++|+|.+....++.+....  .
T Consensus       120 ~i-~~~~~~~~l~g~~~~~~~~~~~~~~~~~~i~liDTpG~~~~~~---~~~~~aD~vl~Vvd~~~~~~~~~l~~~~--~  193 (341)
T 2p67_A          120 FI-RPVPSSGHLGGASQRARELMLLCEAAGYDVVIVETVGVGQSET---EVARMVDCFISLQIAGGGDDLQGIKKGL--M  193 (341)
T ss_dssp             EE-EEECC-----CHHHHHHHHHHHHHHTTCSEEEEEEECCTTHHH---HHHTTCSEEEEEECC------CCCCHHH--H
T ss_pred             ee-ecCccccccchhHHHHHHHHHHhhccCCCEEEEeCCCccchHH---HHHHhCCEEEEEEeCCccHHHHHHHHhh--h
Confidence            00 0000                  001135699999999654432   2357899999999997654432221110  1


Q ss_pred             hhcCCCeEEEEeeCCCCCC
Q 040295          148 DLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       148 ~~~~~~~iivvgnK~Dl~~  166 (289)
                          ..|+++|+||+|+..
T Consensus       194 ----~~p~ivv~NK~Dl~~  208 (341)
T 2p67_A          194 ----EVADLIVINKDDGDN  208 (341)
T ss_dssp             ----HHCSEEEECCCCTTC
T ss_pred             ----cccCEEEEECCCCCC
Confidence                126788999999953

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=99.26  E-value=1.1e-10  Score=103.39  Aligned_cols=68  Identities=19%  Similarity=0.023  Sum_probs=41.0

Q ss_pred             EEEEEEEcCCchhhhcccc------ccccCccEEEEEEeCCC---HhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295           98 ADVSLWMAHLHEEFSIRSL------PISDQLTALVMVFNLND---LSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        98 ~~l~I~Dt~G~e~~~~~~~------~~~~~ad~vIlV~Dv~~---~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      +.+.||||||+..+.....      ..+.. +++|+|.|...   +..+.....+..........|+++|+||+|+..
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~~~~~p~~iv~NK~D~~~  185 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLS  185 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCC
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhcccCCCeEEEEecccccc
Confidence            4799999999976543321      13455 88888888653   333333222222211222347889999999964

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.23  E-value=1.4e-11  Score=115.26  Aligned_cols=59  Identities=17%  Similarity=0.052  Sum_probs=34.1

Q ss_pred             EEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCC
Q 040295           98 ADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLL  165 (289)
Q Consensus        98 ~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~  165 (289)
                      +.+.++||+|....   .......+|++++|+|.+.+...+.+..+   +  . ..|.++|.||+|+.
T Consensus       167 ~~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~~i~~~---i--l-~~~~ivVlNK~Dl~  225 (349)
T 2www_A          167 YDIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQGIKRG---I--I-EMADLVAVTKSDGD  225 (349)
T ss_dssp             CSEEEEECCCC--C---HHHHHTTCSEEEEEECCC-----------------C-CSCSEEEECCCSGG
T ss_pred             CCEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHHHhHHH---H--H-hcCCEEEEeeecCC
Confidence            46899999995311   12346689999999999876543333221   1  1 12667889999995

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=99.21  E-value=8.5e-12  Score=116.29  Aligned_cols=39  Identities=21%  Similarity=0.175  Sum_probs=33.1

Q ss_pred             cCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           33 FGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        33 ~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      |+...+++..++....+..++|+|++|||||||++.+.+
T Consensus        39 ~~~~~~l~~i~~~~~~g~~v~i~G~~GaGKSTLl~~l~g   77 (337)
T 2qm8_A           39 AAVRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGS   77 (337)
T ss_dssp             HHHHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             cChHHHHHhCCcccCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            444566777788888899999999999999999999973

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=99.15  E-value=1.4e-10  Score=106.32  Aligned_cols=101  Identities=14%  Similarity=0.134  Sum_probs=80.1

Q ss_pred             CchhhhccccccccCccEEEEEEeCCCHh-hHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCC
Q 040295          107 LHEEFSIRSLPISDQLTALVMVFNLNDLS-TLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESS  185 (289)
Q Consensus       107 G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~-S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~  185 (289)
                      .+++++.+.+.+++++|++++|||++++. ++..+..|+..+... ..|+++|+||+|+.+.        +.+       
T Consensus        65 i~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~~-~~~~ilV~NK~DL~~~--------~~v-------  128 (302)
T 2yv5_A           65 VEERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEYF-KVEPVIVFNKIDLLNE--------EEK-------  128 (302)
T ss_dssp             ECCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHHT-TCEEEEEECCGGGCCH--------HHH-------
T ss_pred             eCChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHhC-CCCEEEEEEcccCCCc--------ccc-------
Confidence            37899999999999999999999999886 999999999887763 3477889999999641        111       


Q ss_pred             CCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          186 ADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       186 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                                .....+..++...+++++++||+++            .|+++++..+...
T Consensus       129 --------------------------~~~~~~~~~~~~~g~~~~~~SA~~g------------~gi~~L~~~l~G~  166 (302)
T 2yv5_A          129 --------------------------KELERWISIYRDAGYDVLKVSAKTG------------EGIDELVDYLEGF  166 (302)
T ss_dssp             --------------------------HHHHHHHHHHHHTTCEEEECCTTTC------------TTHHHHHHHTTTC
T ss_pred             --------------------------HHHHHHHHHHHHCCCeEEEEECCCC------------CCHHHHHhhccCc
Confidence                                      0011255667777899999999999            9999999887543

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.06  E-value=1.1e-09  Score=108.32  Aligned_cols=117  Identities=16%  Similarity=0.166  Sum_probs=77.0

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCC------------------CCC----CCCCCcceEEeeEEeecCcceEEEEEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVN------------------FED----ASDSSSELLVNGWTINTKYYTADVSLW  103 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~------------------~~~----~~~~t~~~~~~~~~i~~~~~~~~l~I~  103 (289)
                      ..+.=.|+|+|+.++|||||..+++...                  +.+    +....+........+..  ..+.++|.
T Consensus        28 ~~r~RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~~~--~~~~iNlI  105 (548)
T 3vqt_A           28 AARRRTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQFPY--RDRVVNLL  105 (548)
T ss_dssp             HHTEEEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEEEE--TTEEEEEE
T ss_pred             ccccceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEEEE--CCEEEEEE
Confidence            3344569999999999999999997211                  111    11111111111222223  34679999


Q ss_pred             EcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          104 MAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       104 Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ||||+..|..-....++-+|++|+|+|....-.-+....|... ...+- |+|++.||+|...
T Consensus       106 DTPGHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~~~a-~~~~l-p~i~fINK~Dr~~  166 (548)
T 3vqt_A          106 DTPGHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLMDVC-RMRAT-PVMTFVNKMDREA  166 (548)
T ss_dssp             CCCCGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHHHHH-HHTTC-CEEEEEECTTSCC
T ss_pred             eCCCcHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHHHHH-HHhCC-ceEEEEecccchh
Confidence            9999999987777778899999999999876555555556433 33333 6788999999854

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=98.98  E-value=1.4e-09  Score=111.10  Aligned_cols=118  Identities=14%  Similarity=0.151  Sum_probs=71.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCC-CCCCcc--eEE--------------------------------------
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDA-SDSSSE--LLV--------------------------------------   86 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~-~~~t~~--~~~--------------------------------------   86 (289)
                      ..++|+|+|..++|||||+|.+++..+.+. ...++.  ...                                      
T Consensus        50 ~lp~I~vvG~~saGKSSllnaL~g~~~LP~g~g~~Tr~Pl~l~l~~~~~~~~~~l~~~~~~~~~~~~v~~~I~~~~~~~~  129 (772)
T 3zvr_A           50 DLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVT  129 (772)
T ss_dssp             CCSEEEEEECTTTCHHHHHHHHHSSCCSCCSSSCSCSSCEEEEEEECSSCEEECSTTTTCCBCCHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCccCcCCccccccceEEEeecCCcchhheeccCCcccCCHHHHHHHHHHHHhhhc
Confidence            347999999999999999999999887321 111110  000                                      


Q ss_pred             ----------eeEEeecCcceEEEEEEEcCCchh-------------hhccccccc-cCccEEEEEEeCCCHhhHHHHHH
Q 040295           87 ----------NGWTINTKYYTADVSLWMAHLHEE-------------FSIRSLPIS-DQLTALVMVFNLNDLSTLDALKH  142 (289)
Q Consensus        87 ----------~~~~i~~~~~~~~l~I~Dt~G~e~-------------~~~~~~~~~-~~ad~vIlV~Dv~~~~S~~~l~~  142 (289)
                                ....+.... ...+.++||||...             +..+...|+ ..+|++++|.|.+....-.....
T Consensus       130 g~~~~is~~~i~l~I~~P~-~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~  208 (772)
T 3zvr_A          130 GTNKGISPVPINLRVYSPH-VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALK  208 (772)
T ss_dssp             CSTTCCCSCCEEEEEEETT-CCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHH
T ss_pred             CCCCcccccceEEEEecCC-CCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHH
Confidence                      000000000 12467899999543             223334444 57899999999986533333323


Q ss_pred             HHHHhhhcCCCeEEEEeeCCCCCCC
Q 040295          143 WVPSIDLQKFEILLCIGNKVDLLPG  167 (289)
Q Consensus       143 ~~~~i~~~~~~~iivvgnK~Dl~~~  167 (289)
                      ++..+... ..|+|+|.||+|+.+.
T Consensus       209 ll~~L~~~-g~pvIlVlNKiDlv~~  232 (772)
T 3zvr_A          209 IAKEVDPQ-GQRTIGVITKLDLMDE  232 (772)
T ss_dssp             HHHHHCTT-CSSEEEEEECTTSSCT
T ss_pred             HHHHHHhc-CCCEEEEEeCcccCCc
Confidence            44444433 3489999999999753

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=98.97  E-value=4.5e-10  Score=106.87  Aligned_cols=93  Identities=12%  Similarity=-0.003  Sum_probs=50.4

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCC--CCcceEEeeEEeecC-------------cceEEEEEEEcCCch
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASD--SSSELLVNGWTINTK-------------YYTADVSLWMAHLHE  109 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~--~t~~~~~~~~~i~~~-------------~~~~~l~I~Dt~G~e  109 (289)
                      .....++|+|+|.+|||||||+|++.+..+.....  .|.........+...             .....+.+|||||+.
T Consensus        18 ~i~~~~kvgIVG~pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~   97 (396)
T 2ohf_A           18 RFGTSLKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLV   97 (396)
T ss_dssp             CSSSCCCEEEECCSSSSHHHHHHHHHC-------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC--
T ss_pred             hccCCCEEEEECCCCCCHHHHHHHHHCCCccccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCcc
Confidence            34456899999999999999999999886532211  122222222222211             012358999999988


Q ss_pred             hhhc-------cccccccCccEEEEEEeCCCHhhH
Q 040295          110 EFSI-------RSLPISDQLTALVMVFNLNDLSTL  137 (289)
Q Consensus       110 ~~~~-------~~~~~~~~ad~vIlV~Dv~~~~S~  137 (289)
                      .+.+       ....+++.+|++++|+|+++.+++
T Consensus        98 ~~as~~~glg~~~l~~ir~aD~Il~VvD~~~~~~i  132 (396)
T 2ohf_A           98 KGAHNGQGLGNAFLSHISACDGIFHLTRAFEDDDI  132 (396)
T ss_dssp             ---------CCHHHHHHHTSSSEEEEEEC------
T ss_pred             cccchhhHHHHHHHHHHHhcCeEEEEEecCCCcch
Confidence            6554       223567899999999999865544

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=98.80  E-value=1.2e-08  Score=96.50  Aligned_cols=117  Identities=15%  Similarity=0.102  Sum_probs=71.6

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc----ccc---c
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFED-ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI----RSL---P  117 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~----~~~---~  117 (289)
                      .....+|+|+|.||||||||+|++++..... .+..|+-... .-.+...  ...+++.||||.-.-..    +..   .
T Consensus        69 k~g~a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~~pftT~~~~-~g~~~~~--~~~i~l~D~pGl~~~a~~~~~~g~~~l~  145 (376)
T 4a9a_A           69 RTGVASVGFVGFPSVGKSTLLSKLTGTESEAAEYEFTTLVTV-PGVIRYK--GAKIQMLDLPGIIDGAKDGRGRGKQVIA  145 (376)
T ss_dssp             BCSSEEEEEECCCCHHHHHHHHHHHSBCCCGGGTCSSCCCEE-EEEEEET--TEEEEEEECGGGCCC-----CHHHHHHH
T ss_pred             ecCCCeEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeeee-eEEEEeC--CcEEEEEeCCCccCCchhhhHHHHHHHH
Confidence            3445689999999999999999999876432 2333222222 2223333  35689999999632111    111   3


Q ss_pred             cccCccEEEEEEeCCCHhh-HHHHHHHHHHhhh-cCCCeEEEEeeCCCCC
Q 040295          118 ISDQLTALVMVFNLNDLST-LDALKHWVPSIDL-QKFEILLCIGNKVDLL  165 (289)
Q Consensus       118 ~~~~ad~vIlV~Dv~~~~S-~~~l~~~~~~i~~-~~~~~iivvgnK~Dl~  165 (289)
                      .++.+|++++|.|+++|.. ++.+..-+..+.. ...+|.+++.||.|..
T Consensus       146 ~i~~ad~il~vvD~~~p~~~~~~i~~EL~~~~~~l~~k~~~i~~nK~d~~  195 (376)
T 4a9a_A          146 VARTCNLLFIILDVNKPLHHKQIIEKELEGVGIRLNKTPPDILIKKKEKG  195 (376)
T ss_dssp             HHHHCSEEEEEEETTSHHHHHHHHHHHHHHTTEEETCCCCCEEEEECSSS
T ss_pred             HHHhcCccccccccCccHHHHHHHHHHHHHhhHhhccCChhhhhhHhhhh
Confidence            3678999999999998732 2333332332221 2334667789999963

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=98.79  E-value=2.6e-09  Score=107.45  Aligned_cols=116  Identities=12%  Similarity=0.110  Sum_probs=74.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC--CCCC----CCCCCc----------ceEEeeEEeecCcceEEEEEEEcCCchhhhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV--NFED----ASDSSS----------ELLVNGWTINTKYYTADVSLWMAHLHEEFSI  113 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~--~~~~----~~~~t~----------~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~  113 (289)
                      -+|+|+|+.++|||||..+++..  ....    ....+.          |.......+......+.++|.||||+..|..
T Consensus         3 RNi~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPGH~DF~~   82 (638)
T 3j25_A            3 INIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWENTKVNIIDTPGHMDFLA   82 (638)
T ss_dssp             CCCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCBCSSCBCCCEECCCSSSTHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEEECCEEEEEEECCCcHHHHH
Confidence            35899999999999999999731  1110    000000          1111111112223345689999999999988


Q ss_pred             cccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCC
Q 040295          114 RSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPG  167 (289)
Q Consensus       114 ~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~  167 (289)
                      -....++-+|++|+|+|....-.-+....|.. ....+- |.|++.||+|....
T Consensus        83 Ev~raL~~~DgavlVVDa~~GV~~qT~~v~~~-a~~~~l-p~i~~INKmDr~~a  134 (638)
T 3j25_A           83 EVYRSLSVLDGAILLISAKDGVQAQTRILFHA-LRKMGI-PTIFFINKIDQNGI  134 (638)
T ss_dssp             HHHHHHTTCSEEECCEESSCTTCSHHHHHHHH-HHHHTC-SCEECCEECCSSSC
T ss_pred             HHHHHHHHhCEEEEEEeCCCCCcHHHHHHHHH-HHHcCC-CeEEEEeccccccC
Confidence            77777899999999999986544343444443 333344 45668999998643

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=98.77  E-value=6.4e-08  Score=98.39  Aligned_cols=115  Identities=19%  Similarity=0.131  Sum_probs=74.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC--------CCCC----------CCCCCcceEEeeEEeec-----CcceEEEEEEEcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV--------NFED----------ASDSSSELLVNGWTINT-----KYYTADVSLWMAH  106 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~--------~~~~----------~~~~t~~~~~~~~~i~~-----~~~~~~l~I~Dt~  106 (289)
                      =.|+|+|+.++|||||..+|+..        ....          +....+........+..     .+..+.++|.|||
T Consensus        14 RNi~IiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~~~~~~D~~~~E~eRGITI~s~~~s~~~~~~~~~~~~~~iNlIDTP   93 (709)
T 4fn5_A           14 RNIGICAHVDAGKTTTTERVLFYTGVNHKLGEVHDGAATTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYRVNVIDTP   93 (709)
T ss_dssp             EEEEEECCSSSCHHHHHHHHHHHHHHHHHC------------------------CCEEEEEECCTTSCSCCEEEEEECCC
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHhcCCCCcCceecCCCccCCChHHHHHcCCeEEeeeEEEEeccCcCCCCCEEEEEEeCC
Confidence            35999999999999999999731        1110          11111111111222222     2235789999999


Q ss_pred             CchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          107 LHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       107 G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      |+-.|..-....++-+|++|+|+|+...-.-+....|....+ .+- |.+++.||+|...
T Consensus        94 GHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~a~~-~~l-p~i~~iNKiDr~~  151 (709)
T 4fn5_A           94 GHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQANK-YGV-PRIVYVNKMDRQG  151 (709)
T ss_dssp             SCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHH-HTC-CEEEEEECSSSTT
T ss_pred             CCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHHHHHH-cCC-CeEEEEccccccC
Confidence            999998777777889999999999986655544445544433 333 5677899999854

>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain, acetylation, ADP- ribosylation, alternative splicing, cell cycle, cell division; 2.40A {Homo sapiens}

Probab=98.73  E-value=6.2e-09  Score=90.95  Aligned_cols=107  Identities=8%  Similarity=-0.077  Sum_probs=66.2

Q ss_pred             cCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHH----HHhhhc---CCCeEEEEeeCC-CCCCCCCchhHHHH
Q 040295          105 AHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWV----PSIDLQ---KFEILLCIGNKV-DLLPGHPVHAEYRR  176 (289)
Q Consensus       105 t~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~----~~i~~~---~~~~iivvgnK~-Dl~~~~~~~~~~~r  176 (289)
                      .+||+.++.+|+.|+.++||+|||.|.+|.+-++ .+.-+    ..+...   ..-|++|.+||. |+ ++.....+...
T Consensus       109 ~GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDl-p~Ams~~EI~e  186 (227)
T 3l82_B          109 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGD-VKRMPCFYLAH  186 (227)
T ss_dssp             --------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTT-SCBCCHHHHHH
T ss_pred             cCcHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCc-cCCCCHHHHHH
Confidence            3489999999999999999999999999886554 33222    222221   334999999996 66 43332222222


Q ss_pred             HhhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHH
Q 040295          177 RLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYG  256 (289)
Q Consensus       177 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~  256 (289)
                      .+                          .           ...+  ...+.+..|||++|            +|+.+.++
T Consensus       187 ~L--------------------------~-----------L~~l--~R~W~Iq~csA~TG------------eGL~EGLd  215 (227)
T 3l82_B          187 EL--------------------------H-----------LNLL--NHPWLVQDTEAETL------------TGFLNGIE  215 (227)
T ss_dssp             HT--------------------------T-----------GGGG--CSCEEEEEEETTTC------------TTHHHHHH
T ss_pred             Hc--------------------------C-----------CcCC--CCCEEEEEeECCCC------------cCHHHHHH
Confidence            22                          0           1111  13456789999999            99999999


Q ss_pred             HHHHhccc
Q 040295          257 ALSAHMWP  264 (289)
Q Consensus       257 ~L~~~~~~  264 (289)
                      ||+..+..
T Consensus       216 WL~~~l~~  223 (227)
T 3l82_B          216 WILEEVES  223 (227)
T ss_dssp             HHTTTTTT
T ss_pred             HHHHHHHh
Confidence            99987643

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.61  E-value=5.2e-08  Score=91.66  Aligned_cols=99  Identities=18%  Similarity=0.254  Sum_probs=73.0

Q ss_pred             CchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhc-CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCC
Q 040295          107 LHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQ-KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESS  185 (289)
Q Consensus       107 G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~-~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~  185 (289)
                      ..++|+.+...+.+.++++++|+|++++.     ..|...+... ...|+++|+||+|+.+...                
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~-----~~~~~~l~~~~~~~p~ilV~NK~DL~~~~~----------------  113 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN-----GSWLPGLHRFVGNNKVLLVGNKADLIPKSV----------------  113 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH-----HHCCTTHHHHSSSSCEEEEEECGGGSCTTS----------------
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc-----ccHHHHHHHHhCCCcEEEEEEChhcCCccc----------------
Confidence            46899999999999999999999999864     4565555544 3458999999999975321                


Q ss_pred             CCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCC---eEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          186 ADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRI---EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       186 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                             ......+....++...|+   +++++||++|            .|++++++.|.+.
T Consensus       114 -----------------------~~~~~~~~l~~~~~~~g~~~~~v~~iSA~~g------------~gi~~L~~~l~~~  157 (368)
T 3h2y_A          114 -----------------------KHDKVKHWMRYSAKQLGLKPEDVFLISAAKG------------QGIAELADAIEYY  157 (368)
T ss_dssp             -----------------------CHHHHHHHHHHHHHHTTCCCSEEEECCTTTC------------TTHHHHHHHHHHH
T ss_pred             -----------------------CHHHHHHHHHHHHHHcCCCcccEEEEeCCCC------------cCHHHHHhhhhhh
Confidence                                   011111123445677787   7999999999            9999999999764

>3uc9_A Increased recombination centers protein 6; rossmann-fold, clathrin accessory factor; 1.80A {Saccharomyces cerevisiae}

Probab=98.57  E-value=2.3e-07  Score=81.80  Aligned_cols=173  Identities=16%  Similarity=0.273  Sum_probs=102.5

Q ss_pred             CceEEEE--cCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEE-EcCC-ch----hhhcc-ccccc
Q 040295           49 RPGILII--GSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLW-MAHL-HE----EFSIR-SLPIS  119 (289)
Q Consensus        49 ~iKI~il--G~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~-Dt~G-~e----~~~~~-~~~~~  119 (289)
                      .=||+|+  |+++.|||.|++++.+..      .+..-....+.+.++||+.++.|| |.-. .+    .|.+- .....
T Consensus        27 ~nkilvl~~~~~~~~~~~~~~~lf~~~------~~~~~i~k~v~w~TKYYsa~V~IwVDe~~~l~~W~~EF~SdEA~EVR  100 (233)
T 3uc9_A           27 QNKILVLSDHPHNFLKTQFLQDLFHCS------STGISIVKDQTWENRYYKVHFDLYIDSCKDIPVWVEEFITPECEPLR  100 (233)
T ss_dssp             CCEEEEEEEGGGHHHHHHHHHHHHCCC------CCSSCEEEEEEEECSSCEEEEEEEEEEESCHHHHHHHHTSGGGHHHH
T ss_pred             CCceEEEecCcccccHHHHHHHHhccc------ccccccccCCeeeeceEEEEcceEEEecCCHHHHHHHhcCHHHHHHH
Confidence            3467776  999999999999998774      233334567788999999999997 4322 11    12110 01111


Q ss_pred             cCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCC-eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcc
Q 040295          120 DQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFE-ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISET  198 (289)
Q Consensus       120 ~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~-~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~  198 (289)
                      .-..|+|+||+...+..++.+...+.   ....+ .+++||.-.+...      +.....                    
T Consensus       101 ~viggII~~f~~p~~~~~~~i~~~~~---~~~~dg~~v~Vg~~~~~~~------~~~de~--------------------  151 (233)
T 3uc9_A          101 NVMAGIILITDIRQTKPQELLHQFMI---AAHRNTFVVLVNVNEEVEQ------DEIDEL--------------------  151 (233)
T ss_dssp             HTEEEEEEEECHHHHCGGGTHHHHHH---HSCTTCEEEEEECCTTCCH------HHHHHH--------------------
T ss_pred             HhcceEEEEEeCCCcchHHHHHHHhc---cCCCCceEEEEecCCccCC------CchhhH--------------------
Confidence            23478999998766655555544332   22223 5555554333210      111111                    


Q ss_pred             cCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcccccCCCC
Q 040295          199 EGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKSGDKI  274 (289)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~~~~~  274 (289)
                                      .+...+|..+|++|++.......  ..-..++++.|++++.++|..++|+++.++.....
T Consensus       152 ----------------~e~~~~~~~~GfE~V~~~~~~~~--~~~ne~gE~~Gi~RI~E~Le~h~W~~~~~~~~~~~  209 (233)
T 3uc9_A          152 ----------------NEIWSNAFTNVIEFVNWKRSKPT--VNHNDYGEKLGLDRIQEIIDTHDWLNCEVQPATKI  209 (233)
T ss_dssp             ----------------HHHHTTSSSSCEEEEECC----C--CCBCTTSCBCHHHHHHHHHHHCCCTTCCCBC----
T ss_pred             ----------------HHHHHHHHhcCeEEEEecCCCcc--cccccccchhCHHHHHHHHHhCCCCCCcccccccc
Confidence                            11334466689999987543221  11256788999999999999999999988775443

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=98.56  E-value=4e-07  Score=87.32  Aligned_cols=133  Identities=15%  Similarity=0.143  Sum_probs=71.1

Q ss_pred             heecCCcccccccccccCCCce--EEEEcCCCCCHHHHHHHHhcCCCCCC-C---CCCcceEEeeEEeecCcceEEEEEE
Q 040295           30 VLIFGRQEMDSTDRASLEKRPG--ILIIGSSNVGKRTILSRLLSVNFEDA-S---DSSSELLVNGWTINTKYYTADVSLW  103 (289)
Q Consensus        30 ~~~~g~~~~~~~~~~~~~~~iK--I~ilG~~gvGKSSLi~rl~~~~~~~~-~---~~t~~~~~~~~~i~~~~~~~~l~I~  103 (289)
                      ...||... +...+.....+..  ++|+|++|+|||||++.+.+..+... .   .+..............+....+.++
T Consensus        22 ~~~y~~~~-L~~vsl~i~~Gei~~vaLvG~nGaGKSTLln~L~G~~l~g~~~~~~~~~~~~~~i~~v~Q~~~l~~~ltv~  100 (427)
T 2qag_B           22 HVGFDSLP-DQLVNKSVSQGFCFNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIV  100 (427)
T ss_dssp             CC-CC--C-HHHHHHSCC-CCEEEEEEECSTTSSSHHHHHHHHTSCC-------CCSSCEEEEEEEEEEC--CEEEEEEE
T ss_pred             EEEECCee-cCCCceEecCCCeeEEEEECCCCCCHHHHHHHHhCccccCCcCCCCCccceEeeEEEEeecCccccccchh
Confidence            34566555 7778888888877  99999999999999999998754321 1   1111111122222233333468899


Q ss_pred             EcCCchhh------------------hcccccc---------ccCc--c-EEEEEEeCCCHhhHHHHHHHHHHhhhcCCC
Q 040295          104 MAHLHEEF------------------SIRSLPI---------SDQL--T-ALVMVFNLNDLSTLDALKHWVPSIDLQKFE  153 (289)
Q Consensus       104 Dt~G~e~~------------------~~~~~~~---------~~~a--d-~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~  153 (289)
                      |++|....                  ......+         ...+  | +++|+.|...+-+-..+ .++..+.  ...
T Consensus       101 D~~~~g~~~~~~~~~~~i~~~i~~q~~~~L~e~~~i~r~l~~~~d~rVh~~v~fI~d~~~~l~~~Di-eilk~L~--~~~  177 (427)
T 2qag_B          101 STVGFGDQINKEDSYKPIVEFIDAQFEAYLQEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLDL-VTMKKLD--SKV  177 (427)
T ss_dssp             EEECCCC-CCHHHHSHHHHHHHHHHHHHHHHHC--CCCCCCCSCC--CCEEEEEECCCC---CHHHH-HHHHHTC--SCS
T ss_pred             hhhhhhhccccchhhhHHHHHHHHHHHHHHHHHHhhhhhhcccccccccEEEEEEeCCCCCCCHHHH-HHHHHHh--hCC
Confidence            99864211                  1111111         1122  3 35566666544333222 2333343  345


Q ss_pred             eEEEEeeCCCCCC
Q 040295          154 ILLCIGNKVDLLP  166 (289)
Q Consensus       154 ~iivvgnK~Dl~~  166 (289)
                      ++|+|.||+|.+.
T Consensus       178 ~vI~Vi~KtD~Lt  190 (427)
T 2qag_B          178 NIIPIIAKADAIS  190 (427)
T ss_dssp             EEEEEESCGGGSC
T ss_pred             CEEEEEcchhccc
Confidence            8999999999975

>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation pathway, ubiquitin Pro ligase, protein binding-cell cycle complex; 2.80A {Homo sapiens}

Probab=98.49  E-value=8.3e-08  Score=87.58  Aligned_cols=108  Identities=9%  Similarity=-0.032  Sum_probs=70.8

Q ss_pred             cCCchhhhccccccccCccEEEEEEeCCCHhhHH---HHHHHHHHhhh---cCCCeEEEEeeC-CCCCCCCCchhHHHHH
Q 040295          105 AHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLD---ALKHWVPSIDL---QKFEILLCIGNK-VDLLPGHPVHAEYRRR  177 (289)
Q Consensus       105 t~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~---~l~~~~~~i~~---~~~~~iivvgnK-~Dl~~~~~~~~~~~r~  177 (289)
                      .+||+.++.+|+.|+.++||+|+|+|.+|.+.++   ++..+...+..   ...-|++|.+|| .|+. +.....+....
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRleak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp-~Ams~~EI~e~  272 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDV-KRMPCFYLAHE  272 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCCHHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTS-CBCCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCccccc-CCCCHHHHHHH
Confidence            4689999999999999999999999999887554   22211122211   244589999997 5773 33222222222


Q ss_pred             hhhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHH
Q 040295          178 LLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGA  257 (289)
Q Consensus       178 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~  257 (289)
                      +                          .           ...+  .....+..|||++|            +|+.+.+++
T Consensus       273 L--------------------------~-----------L~~l--~r~W~Iq~csA~tG------------eGL~EGldW  301 (312)
T 3l2o_B          273 L--------------------------H-----------LNLL--NHPWLVQDTEAETL------------TGFLNGIEW  301 (312)
T ss_dssp             T--------------------------T-----------GGGG--CSCEEEEEEETTTC------------TTHHHHHHH
T ss_pred             c--------------------------C-----------CccC--CCcEEEEecccCCC------------cCHHHHHHH
Confidence            2                          0           0111  13456789999999            999999999


Q ss_pred             HHHhccc
Q 040295          258 LSAHMWP  264 (289)
Q Consensus       258 L~~~~~~  264 (289)
                      |+..+..
T Consensus       302 L~~~l~~  308 (312)
T 3l2o_B          302 ILEEVES  308 (312)
T ss_dssp             HHHHSCC
T ss_pred             HHHHHHh
Confidence            9987754

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.42  E-value=1.6e-07  Score=88.32  Aligned_cols=100  Identities=18%  Similarity=0.226  Sum_probs=71.2

Q ss_pred             CchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhc-CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCC
Q 040295          107 LHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQ-KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESS  185 (289)
Q Consensus       107 G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~-~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~  185 (289)
                      .++.|+....++++.++++|+|+|++++.+     .|...+... ...|+++|+||+|+.+....               
T Consensus        57 ~~e~f~~~L~~~~~~~~lil~VvD~~d~~~-----s~~~~l~~~l~~~piilV~NK~DLl~~~~~---------------  116 (369)
T 3ec1_A           57 DDDDFLSMLHRIGESKALVVNIVDIFDFNG-----SFIPGLPRFAADNPILLVGNKADLLPRSVK---------------  116 (369)
T ss_dssp             --CHHHHHHHHHHHHCCEEEEEEETTCSGG-----GCCSSHHHHCTTSCEEEEEECGGGSCTTCC---------------
T ss_pred             CHHHHHHHHHHhhccCcEEEEEEECCCCCC-----chhhHHHHHhCCCCEEEEEEChhcCCCccC---------------
Confidence            588999999888899999999999998764     344444333 34589999999999753210               


Q ss_pred             CCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCC---eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          186 ADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRI---EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       186 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                              .....+....++...|+   +++++||++|            +|++++++.|.+..
T Consensus       117 ------------------------~~~~~~~l~~~~~~~g~~~~~v~~iSA~~g------------~gi~~L~~~I~~~~  160 (369)
T 3ec1_A          117 ------------------------YPKLLRWMRRMAEELGLCPVDVCLVSAAKG------------IGMAKVMEAINRYR  160 (369)
T ss_dssp             ------------------------HHHHHHHHHHHHHTTTCCCSEEEECBTTTT------------BTHHHHHHHHHHHH
T ss_pred             ------------------------HHHHHHHHHHHHHHcCCCcccEEEEECCCC------------CCHHHHHHHHHhhc
Confidence                                    11111113444666676   6899999999            99999999997644

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=98.41  E-value=3.6e-07  Score=86.75  Aligned_cols=89  Identities=15%  Similarity=0.054  Sum_probs=56.0

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCCC-CCCCCC--CcceEEeeEEeecC-----------cc--eEEEEEEEcCCc
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVNF-EDASDS--SSELLVNGWTINTK-----------YY--TADVSLWMAHLH  108 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~-~~~~~~--t~~~~~~~~~i~~~-----------~~--~~~l~I~Dt~G~  108 (289)
                      ....+.+|+|+|++|||||||+|.+.+..+ .....+  |.........+...           ..  ...+.+||+||.
T Consensus        16 ~v~~g~~vgiVG~pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl   95 (392)
T 1ni3_A           16 RPGNNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGL   95 (392)
T ss_dssp             SSSSCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGG
T ss_pred             cccCCCEEEEECCCCCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEecccc
Confidence            445568999999999999999999999765 222112  22222222233210           00  135899999996


Q ss_pred             hhhhc-------cccccccCccEEEEEEeCCC
Q 040295          109 EEFSI-------RSLPISDQLTALVMVFNLND  133 (289)
Q Consensus       109 e~~~~-------~~~~~~~~ad~vIlV~Dv~~  133 (289)
                      ....+       .....++.+|++++|+|+.+
T Consensus        96 ~~~~s~~e~L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A           96 TKGASTGVGLGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             CCCCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             ccCCcHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            43221       12234678999999999863

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=98.28  E-value=1.5e-06  Score=78.29  Aligned_cols=115  Identities=10%  Similarity=0.093  Sum_probs=60.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCC---------CCCCcceEEeeEEeecCcceEEEEEEEcCCchhh--------
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDA---------SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF--------  111 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~---------~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~--------  111 (289)
                      .++++|+|++|+|||||++.+.+......         ...+.............+....+.++|++|....        
T Consensus         2 ~f~v~lvG~nGaGKSTLln~L~g~~~~~~G~i~~~g~~i~~~~~~~~i~~v~q~~~~~~~ltv~d~~~~g~~~~~~~~~~   81 (270)
T 3sop_A            2 DFNIMVVGQSGLGKSTLVNTLFKSQVSRKASSWNREEKIPKTVEIKAIGHVIEEGGVKMKLTVIDTPGFGDQINNENCWE   81 (270)
T ss_dssp             EEEEEEEESSSSSHHHHHHHHHHHHC------------CCCCCSCCEEEESCC----CCEEEEECCCC--CCSBCTTCSH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCCCCCCccccCCcccCcceeeeeeEEEeecCCCcCCceEEechhhhhhcccHHHHH
Confidence            37899999999999999999997543211         0011111111111111222336788998863110        


Q ss_pred             ----------hcc----------ccccccCccEEEEEEeCC-CHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          112 ----------SIR----------SLPISDQLTALVMVFNLN-DLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       112 ----------~~~----------~~~~~~~ad~vIlV~Dv~-~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                                ...          ....+..+++++++.|-. .+-.-.. ...+..+...  .++|+|.+|+|.+.
T Consensus        82 ~i~~~~~~~~~~~~~~~LS~G~~qrv~iaRal~~lllldep~~gL~~lD-~~~l~~L~~~--~~vI~Vi~K~D~lt  154 (270)
T 3sop_A           82 PIEKYINEQYEKFLKEEVNIARKKRIPDTRVHCCLYFISPTGHSLRPLD-LEFMKHLSKV--VNIIPVIAKADTMT  154 (270)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCCSSCCCCSCCEEEEEECCCSSSCCHHH-HHHHHHHHTT--SEEEEEETTGGGSC
T ss_pred             HHHHHHHHHHHhhhHHhcCcccchhhhhheeeeeeEEEecCCCcCCHHH-HHHHHHHHhc--CcEEEEEeccccCC
Confidence                      000          011133468888888854 2211111 2333444433  58999999999975

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=98.19  E-value=1.1e-06  Score=86.04  Aligned_cols=114  Identities=16%  Similarity=0.059  Sum_probs=61.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHh------cCCCC----CCCCCCc-----------ceEEeeEEee-------------c
Q 040295           48 KRPGILIIGSSNVGKRTILSRLL------SVNFE----DASDSSS-----------ELLVNGWTIN-------------T   93 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~------~~~~~----~~~~~t~-----------~~~~~~~~i~-------------~   93 (289)
                      ....|+|+|.+||||||++++|.      +.+..    +.+.+..           +..++.....             .
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~~r~aa~~qL~~~~~~~~i~v~~~~~~~dp~~i~~~al~~~  179 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARIPFYGSYTEMDPVIIASEGVEKF  179 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSSHHHHHHHHHHHHHTCCEEECCCCSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEeccccchhHHHHHHHHhhccCceEEccCCCCCHHHHHHHHHHHH
Confidence            34579999999999999999998      33321    0011100           1111110000             0


Q ss_pred             CcceEEEEEEEcCCchhhhc-ccc---cc--ccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeE-EEEeeCCCCCC
Q 040295           94 KYYTADVSLWMAHLHEEFSI-RSL---PI--SDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEIL-LCIGNKVDLLP  166 (289)
Q Consensus        94 ~~~~~~l~I~Dt~G~e~~~~-~~~---~~--~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~i-ivvgnK~Dl~~  166 (289)
                      ....+++.|+||||...... +..   ..  ...+|.+++|+|.+........   ...+...  .|+ ++|.||+|...
T Consensus       180 ~~~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~~~---a~~~~~~--~~i~gvVlNK~D~~~  254 (504)
T 2j37_W          180 KNENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACEAQ---AKAFKDK--VDVASVIVTKLDGHA  254 (504)
T ss_dssp             HHTTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHHHH---HHHHHHH--HCCCCEEEECTTSCC
T ss_pred             HHCCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHHHH---HHHHHhh--cCceEEEEeCCcccc
Confidence            00235799999999753211 110   11  1268999999999865332111   2222221  243 77899999964

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=98.17  E-value=1.8e-06  Score=78.29  Aligned_cols=99  Identities=11%  Similarity=0.016  Sum_probs=66.0

Q ss_pred             EEEcCCch-hhhccccccccCccEEEEEEeCCCHhhHH--HHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHh
Q 040295          102 LWMAHLHE-EFSIRSLPISDQLTALVMVFNLNDLSTLD--ALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRL  178 (289)
Q Consensus       102 I~Dt~G~e-~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~--~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~  178 (289)
                      |-..||+. .........++.+|+++.|+|+.++.+..  .+..|+      ...|+++|.||+|+.+.        ..+
T Consensus         3 i~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l------~~kp~ilVlNK~DL~~~--------~~~   68 (282)
T 1puj_A            3 IQWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL------KNKPRIMLLNKADKADA--------AVT   68 (282)
T ss_dssp             ------CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC------SSSCEEEEEECGGGSCH--------HHH
T ss_pred             CcCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH------CCCCEEEEEECcccCCH--------HHH
Confidence            33467765 33333446688999999999999987775  455554      45688999999999641        011


Q ss_pred             hhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHH
Q 040295          179 LKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGAL  258 (289)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L  258 (289)
                                                          +....+....+++++++||+++            .|+.++++.+
T Consensus        69 ------------------------------------~~~~~~~~~~g~~~i~iSA~~~------------~gi~~L~~~i  100 (282)
T 1puj_A           69 ------------------------------------QQWKEHFENQGIRSLSINSVNG------------QGLNQIVPAS  100 (282)
T ss_dssp             ------------------------------------HHHHHHHHTTTCCEEECCTTTC------------TTGGGHHHHH
T ss_pred             ------------------------------------HHHHHHHHhcCCcEEEEECCCc------------ccHHHHHHHH
Confidence                                                0123444455789999999999            9999998887


Q ss_pred             HHhc
Q 040295          259 SAHM  262 (289)
Q Consensus       259 ~~~~  262 (289)
                      .+.+
T Consensus       101 ~~~l  104 (282)
T 1puj_A          101 KEIL  104 (282)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7654

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=98.14  E-value=1.1e-05  Score=77.07  Aligned_cols=165  Identities=10%  Similarity=0.069  Sum_probs=85.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCC-CCCcceEE--eeEEeecCcceEEEEEEEcCCchhhhcccccc-----ccCc
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDAS-DSSSELLV--NGWTINTKYYTADVSLWMAHLHEEFSIRSLPI-----SDQL  122 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~-~~t~~~~~--~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~-----~~~a  122 (289)
                      .++|+|++|||||||+|.+.+......- ....+...  ........ ....+.+||++|...-......+     +...
T Consensus        71 ~valvG~nGaGKSTLln~L~Gl~~p~~GsI~~~g~~~t~~~~v~q~~-~~~~ltv~D~~g~~~~~~~~~~~L~~~~L~~~  149 (413)
T 1tq4_A           71 NVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHP-NIPNVVFWDLPGIGSTNFPPDTYLEKMKFYEY  149 (413)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECS-SCTTEEEEECCCGGGSSCCHHHHHHHTTGGGC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCccCceEEECCeecceeEEecccc-ccCCeeehHhhcccchHHHHHHHHHHcCCCcc
Confidence            8999999999999999999985432211 11111110  01111111 11247899999853211111111     2333


Q ss_pred             cEEEEEEeCC--CHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          123 TALVMVFNLN--DLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       123 d~vIlV~Dv~--~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      +.+++ ++..  ...... +..++..    ...|+++|.||.|++-        .-+.                     .
T Consensus       150 ~~~~~-lS~G~~~kqrv~-la~aL~~----~~~p~~lV~tkpdlll--------LDEP---------------------t  194 (413)
T 1tq4_A          150 DFFII-ISATRFKKNDID-IAKAISM----MKKEFYFVRTKVDSDI--------TNEA---------------------D  194 (413)
T ss_dssp             SEEEE-EESSCCCHHHHH-HHHHHHH----TTCEEEEEECCHHHHH--------HHHH---------------------T
T ss_pred             CCeEE-eCCCCccHHHHH-HHHHHHh----cCCCeEEEEecCcccc--------cCcc---------------------c
Confidence            44444 7766  332221 2222222    2348999999998741        0000                     0


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHH----HcC--C-eEEEeec--CCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCT----EHR--I-EYIEACA--SNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~----~~~--~-~~ie~Sa--~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                      +.  -+......+.+.+.+++.    ..+  . ..|.+|+  ..+            .|++++.+.+.+.+-.+
T Consensus       195 sg--LD~~~~~~l~~~l~~l~~~~l~~~g~~~~~iiliSsh~l~~------------~~~e~L~d~I~~~Lpeg  254 (413)
T 1tq4_A          195 GE--PQTFDKEKVLQDIRLNCVNTFRENGIAEPPIFLLSNKNVCH------------YDFPVLMDKLISDLPIY  254 (413)
T ss_dssp             TC--CTTCCHHHHHHHHHHHHHHHHHHTTCSSCCEEECCTTCTTS------------TTHHHHHHHHHHHSCGG
T ss_pred             cc--CCHHHHHHHHHHHHHHHHHHHHhcCCCCCcEEEEecCcCCc------------cCHHHHHHHHHHhCccc
Confidence            00  111123444445566652    333  2 4788899  555            78999999998876443

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.07  E-value=1.4e-06  Score=81.86  Aligned_cols=111  Identities=15%  Similarity=0.164  Sum_probs=61.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcC-----C-CCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccc-------
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSV-----N-FEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRS-------  115 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~-----~-~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~-------  115 (289)
                      ..+|+++|.+|||||||+|.+++.     . ......+......  ..+....   .+.++||||......+.       
T Consensus       162 ~~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~gtT~~~--~~~~~~~---~~~liDtPG~~~~~~~~~~l~~~~  236 (369)
T 3ec1_A          162 GGDVYVVGCTNVGKSTFINRIIEEATGKGNVITTSYFPGTTLDM--IEIPLES---GATLYDTPGIINHHQMAHFVDARD  236 (369)
T ss_dssp             TSCEEEECCTTSSHHHHHHHHHHHHHHTTCCCEEEECTTSSCEE--EEEECST---TCEEEECCSCCCCSSGGGGSCTTT
T ss_pred             cCcEEEEcCCCCchHHHHHHHHhhccCCccceeecCCCCeEEee--EEEEeCC---CeEEEeCCCcCcHHHHHHHHhHHH
Confidence            468999999999999999999976     2 1111111111111  1222221   27899999964322111       


Q ss_pred             -cccc--cCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          116 -LPIS--DQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       116 -~~~~--~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                       ..++  +..++++++.+..+..-+..+.. +..+.. ...|++++.||.|...
T Consensus       237 l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~-l~~l~~-~~~~~~~v~~k~d~~~  288 (369)
T 3ec1_A          237 LKIITPKREIHPRVYQLNEGQTLFFGGLAR-LDYIKG-GRRSFVCYMANELTVH  288 (369)
T ss_dssp             HHHHSCSSCCCCEEEEECTTEEEEETTTEE-EEEEES-SSEEEEEEECTTSCEE
T ss_pred             HHHHhcccccCceEEEEcCCceEEECCEEE-EEEccC-CCceEEEEecCCcccc
Confidence             1111  56789999998743211111110 111111 2238999999999964

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.06  E-value=1.6e-06  Score=81.41  Aligned_cols=113  Identities=13%  Similarity=0.135  Sum_probs=61.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCC-----CCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccc----c---
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFE-----DASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRS----L---  116 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~-----~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~----~---  116 (289)
                      ..+|+++|.+|||||||+|++++....     .......+.+.....+....   .+.++||||......+.    .   
T Consensus       160 ~~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~---~~~liDtPG~~~~~~~~~~l~~~~l  236 (368)
T 3h2y_A          160 GKDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLIDIPLDE---ESSLYDTPGIINHHQMAHYVGKQSL  236 (368)
T ss_dssp             TSCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEEEEESSS---SCEEEECCCBCCTTSGGGGSCHHHH
T ss_pred             cceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCeecceEEEEecC---CeEEEeCCCcCcHHHHHHHhhHHHH
Confidence            468999999999999999999986311     11111222222222222222   17899999974332111    1   


Q ss_pred             -cc--ccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          117 -PI--SDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       117 -~~--~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                       .+  .+..+.++++++..+..-+..+.. +..+.. ...|++++.||.|...
T Consensus       237 ~~~~~~~~i~~~~~~l~~~~~~~~g~l~~-~d~l~~-~~~~~~~v~nk~d~~~  287 (368)
T 3h2y_A          237 KLITPTKEIKPMVFQLNEEQTLFFSGLAR-FDYVSG-GRRAFTCHFSNRLTIH  287 (368)
T ss_dssp             HHHSCSSCCCCEEEEECTTEEEEETTTEE-EEEEES-SSEEEEEEECTTSCEE
T ss_pred             HHhccccccCceEEEEcCCCEEEEcceEE-EEEecC-CCceEEEEecCccccc
Confidence             11  356778888887642211111100 111111 2238999999999974

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=97.98  E-value=3.6e-06  Score=75.45  Aligned_cols=58  Identities=17%  Similarity=0.134  Sum_probs=35.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhh
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF  111 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~  111 (289)
                      ++++++|.+|||||||+|++.+..... ...+.+.+.....+...   ..+.+|||||....
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~~-~~~~~g~T~~~~~~~~~---~~~~l~DtpG~~~~  157 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRASS-VGAQPGITKGIQWFSLE---NGVKILDTPGILYK  157 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC-----------CCSCEEECT---TSCEEESSCEECCC
T ss_pred             hheEEeCCCCCCHHHHHHHHhcccccc-cCCCCCCccceEEEEeC---CCEEEEECCCcccC
Confidence            699999999999999999999877532 22233332211112211   24799999997643

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=97.92  E-value=1.1e-05  Score=73.10  Aligned_cols=59  Identities=22%  Similarity=0.254  Sum_probs=35.1

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCch
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHE  109 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e  109 (289)
                      ...++|+++|.+|||||||+|++.+...... ....+.+.....+...   ..+.+|||||.-
T Consensus       118 ~~~~~v~~vG~~nvGKSsliN~l~~~~~~~~-~~~~g~T~~~~~~~~~---~~~~l~DtpG~~  176 (282)
T 1puj_A          118 PRAIRALIIGIPNVGKSTLINRLAKKNIAKT-GDRPGITTSQQWVKVG---KELELLDTPGIL  176 (282)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTSCCC-------------CCEEET---TTEEEEECCCCC
T ss_pred             CCCceEEEEecCCCchHHHHHHHhcCceeec-CCCCCeeeeeEEEEeC---CCEEEEECcCcC
Confidence            3558999999999999999999998764221 1122221111111111   147899999964

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=97.52  E-value=4.9e-05  Score=68.01  Aligned_cols=81  Identities=11%  Similarity=0.034  Sum_probs=58.1

Q ss_pred             cccccCccEEEEEEeCCCHhhHHH--HHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCC
Q 040295          116 LPISDQLTALVMVFNLNDLSTLDA--LKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQS  193 (289)
Q Consensus       116 ~~~~~~ad~vIlV~Dv~~~~S~~~--l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~  193 (289)
                      ...++.+|++|.|+|+.++.+...  +. |+       ..|.++|.||+|+.+.        ..+               
T Consensus        16 ~~~l~~~D~vl~VvDar~P~~~~~~~l~-ll-------~k~~iivlNK~DL~~~--------~~~---------------   64 (262)
T 3cnl_A           16 KDLLRLVNTVVEVRDARAPFATSAYGVD-FS-------RKETIILLNKVDIADE--------KTT---------------   64 (262)
T ss_dssp             HHHHTTCSEEEEEEETTSTTTTSCTTSC-CT-------TSEEEEEEECGGGSCH--------HHH---------------
T ss_pred             HHHHhhCCEEEEEeeCCCCCcCcChHHH-hc-------CCCcEEEEECccCCCH--------HHH---------------
Confidence            356788999999999998866642  22 22       5588999999999641        111               


Q ss_pred             CCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          194 GISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                           +....+....++++ .+||+++            .|++++++.|...
T Consensus        65 ---------------------~~~~~~~~~~g~~v-~iSa~~~------------~gi~~L~~~l~~~   98 (262)
T 3cnl_A           65 ---------------------KKWVEFFKKQGKRV-ITTHKGE------------PRKVLLKKLSFDR   98 (262)
T ss_dssp             ---------------------HHHHHHHHHTTCCE-EECCTTS------------CHHHHHHHHCCCT
T ss_pred             ---------------------HHHHHHHHHcCCeE-EEECCCC------------cCHHHHHHHHHHh
Confidence                                 01234445567887 9999999            9999998887654

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=97.52  E-value=7.5e-05  Score=74.32  Aligned_cols=63  Identities=14%  Similarity=0.048  Sum_probs=38.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCc-ceEEeeEEe--ec-CcceEEEEEEEcCCchh
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSS-ELLVNGWTI--NT-KYYTADVSLWMAHLHEE  110 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~-~~~~~~~~i--~~-~~~~~~l~I~Dt~G~e~  110 (289)
                      +.++|+|+|.+|||||||+|++++.........+. +.....+..  .. ......+.++||||...
T Consensus        37 ~~~~VaivG~pnvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~~~~~~~~~~~~~~i~LiDTpGi~~  103 (592)
T 1f5n_A           37 PMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGD  103 (592)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCC
T ss_pred             CCcEEEEECCCCCCHHHHHHhHcCCCCccccCCCCCCceeEEEEeecccccCCCceEEEecCCCcCc
Confidence            34789999999999999999999886321222221 111111111  11 11234689999999754

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=97.48  E-value=8.1e-05  Score=71.59  Aligned_cols=114  Identities=13%  Similarity=0.013  Sum_probs=60.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc------CCCC----CCCCC-----------CcceEEeeEEeecC-------------
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS------VNFE----DASDS-----------SSELLVNGWTINTK-------------   94 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~------~~~~----~~~~~-----------t~~~~~~~~~i~~~-------------   94 (289)
                      ...|+++|++||||||++..+..      ....    +.+.+           ..+..++......+             
T Consensus       100 p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D~~R~aa~eqL~~~~~~~gvpv~~~~~~~dp~~i~~~al~~a~  179 (443)
T 3dm5_A          100 PTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSDTWRPGAYHQLRQLLDRYHIEVFGNPQEKDAIKLAKEGVDYFK  179 (443)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCCSSTHHHHHHHHHHGGGTCEEECCTTCCCHHHHHHHHHHHHH
T ss_pred             CeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHHH
Confidence            46799999999999999998873      1110    00111           11111111100000             


Q ss_pred             cceEEEEEEEcCCchhhh-----cccc-ccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295           95 YYTADVSLWMAHLHEEFS-----IRSL-PISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        95 ~~~~~l~I~Dt~G~e~~~-----~~~~-~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ...+++.|.||+|.....     .+.. .....+|.++||.|.+....-...   ...+.. ..++..+|.||.|...
T Consensus       180 ~~~~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~~~---a~~f~~-~~~i~gVIlTKlD~~~  253 (443)
T 3dm5_A          180 SKGVDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAYNQ---ALAFKE-ATPIGSIIVTKLDGSA  253 (443)
T ss_dssp             HTTCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHH---HHHHHH-SCTTEEEEEECCSSCS
T ss_pred             hCCCCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHHHH---HHHHHh-hCCCeEEEEECCCCcc
Confidence            112578999999953211     1110 112357899999998764332222   222322 2235567899999953

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=97.44  E-value=6e-06  Score=79.72  Aligned_cols=103  Identities=13%  Similarity=0.067  Sum_probs=62.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhh--hccc--------cc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF--SIRS--------LP  117 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~--~~~~--------~~  117 (289)
                      ...+|+++|.+|+||||+.++|...-... ...+.............+......+||..|++.+  +..+        ..
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~l~~~-~~~t~~~~~d~~r~~~~g~~~~~~ifd~~g~~~~r~re~~~~~~l~~~~~  116 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRYLNFI-GVPTREFNVGQYRRDMVKTYKSFEFFLPDNEEGLKIRKQCALAALNDVRK  116 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHT-TCCEEEEEHHHHHHHHHCSCCCGGGGCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHHhcc-CCCceEEecchhhhhhccCCCcccccCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            34689999999999999999997542110 1111111100000000111123468999988433  3222        44


Q ss_pred             cccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCC
Q 040295          118 ISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKF  152 (289)
Q Consensus       118 ~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~  152 (289)
                      ++..+.+.++|+|.++. +++....|+..++....
T Consensus       117 ~l~~~~G~~vV~D~tn~-~~~~R~~~~~~~~~~~~  150 (469)
T 1bif_A          117 FLSEEGGHVAVFDATNT-TRERRAMIFNFGEQNGY  150 (469)
T ss_dssp             HHHTTCCSEEEEESCCC-SHHHHHHHHHHHHHHTC
T ss_pred             HHHhCCCCEEEEeCCCC-CHHHHHHHHHHHHhcCC
Confidence            56667888999999987 67777788777766543

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=97.26  E-value=0.00013  Score=63.52  Aligned_cols=43  Identities=28%  Similarity=0.237  Sum_probs=37.7

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...++++.+++..++-.++|+|++|||||||++.+.+-.
T Consensus        12 ~~y~~~~~l~~vsl~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           12 KVIRGYEILKGISLSVKKGEFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             EEETTEEEEEEEEEEEETTCEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             EEECCEeeEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3567667888999999999999999999999999999997654

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=97.22  E-value=0.00017  Score=64.36  Aligned_cols=43  Identities=28%  Similarity=0.250  Sum_probs=38.1

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...++++.+++..++-.++|+|++|||||||++.+.+-.
T Consensus        14 ~~y~~~~vl~~vsl~i~~Ge~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           14 KRYGGHEVLKGVSLQARAGDVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             EEETTEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEECCEEEEEeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3567777899999999999999999999999999999998754

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=97.21  E-value=0.00016  Score=64.72  Aligned_cols=43  Identities=21%  Similarity=0.220  Sum_probs=38.8

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...++++.+++..++-.++|+|++|||||||++.+.+-.
T Consensus        19 ~~~~~~~vL~~vsl~i~~Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           19 YHVQQQALINDVSLHIASGEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             EEETTEEEEEEEEEEEETTCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             EEeCCeeEEEeeEEEEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4578788999999999999999999999999999999998754

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=97.20  E-value=0.00017  Score=64.13  Aligned_cols=43  Identities=26%  Similarity=0.296  Sum_probs=38.1

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...++++.+++..++-.++|+|++|||||||++.+.+-.
T Consensus        15 ~~y~~~~vl~~vsl~i~~Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           15 KYFGEFKALDGVSISVNKGDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             EEETTEEEEEEECCEEETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEECCEeeEeeeEEEEeCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3567777899999999999999999999999999999998764

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=97.17  E-value=0.00032  Score=67.16  Aligned_cols=66  Identities=14%  Similarity=-0.037  Sum_probs=38.8

Q ss_pred             eEEEEEEEcCCchhhh-----ccc-cccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCC-CeEEEEeeCCCCCC
Q 040295           97 TADVSLWMAHLHEEFS-----IRS-LPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKF-EILLCIGNKVDLLP  166 (289)
Q Consensus        97 ~~~l~I~Dt~G~e~~~-----~~~-~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~-~~iivvgnK~Dl~~  166 (289)
                      .+.+.|.||||.....     .+. -..+..+|.+++|.|.+....   .......+.. .. ++..+|.||+|...
T Consensus       180 ~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~---~~~~~~~~~~-~~~~i~gvVlnK~D~~~  252 (432)
T 2v3c_C          180 KADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQ---AGIQAKAFKE-AVGEIGSIIVTKLDGSA  252 (432)
T ss_dssp             SCSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGG---HHHHHHHHHT-TSCSCEEEEEECSSSCS
T ss_pred             CCCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHH---HHHHHHHHhh-cccCCeEEEEeCCCCcc
Confidence            3568999999964321     110 011236899999999875432   1222222332 22 44788999999864

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=97.16  E-value=0.00022  Score=63.83  Aligned_cols=43  Identities=26%  Similarity=0.319  Sum_probs=37.9

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...++++.+++..++-.++|+|++|||||||++.+.+-.
T Consensus        32 ~~y~~~~vL~~vsl~i~~Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           32 KSFGSLEVLKGINVHIREGEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             EEETTEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEECCEEEEEeeEEEEcCCCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            3567667899999999999999999999999999999998654

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=97.15  E-value=0.00023  Score=62.67  Aligned_cols=42  Identities=21%  Similarity=0.184  Sum_probs=36.6

Q ss_pred             ec-CCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IF-GRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~-g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .| |...++++.+++..++-.++|+|++|+|||||++.+.+-.
T Consensus        10 ~y~~~~~vl~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           10 AYDDSEQILRDISFEAQPNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             CSSSSSCSEEEEEEEECTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EeCCCCceEEEeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45 4556888899999999999999999999999999998754

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=97.13  E-value=0.00025  Score=63.45  Aligned_cols=42  Identities=14%  Similarity=0.120  Sum_probs=37.9

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..||...++++.++...++-.++|+|++|||||||++.+.+-
T Consensus        28 ~~y~~~~vl~~vsl~i~~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           28 VSVEDKAILRGLSLDVHPGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EEETTEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEECCEEEEEeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            356777789999999999999999999999999999999875

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=97.13  E-value=0.00023  Score=66.61  Aligned_cols=44  Identities=27%  Similarity=0.295  Sum_probs=39.6

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      ..||...++++.+++..++--++|+|++|||||||++.+.+-..
T Consensus        12 ~~y~~~~~L~~vsl~i~~Ge~~~llGpsGsGKSTLLr~iaGl~~   55 (359)
T 3fvq_A           12 KSFQNTPVLNDISLSLDPGEILFIIGASGCGKTTLLRCLAGFEQ   55 (359)
T ss_dssp             EEETTEEEEEEEEEEECTTCEEEEEESTTSSHHHHHHHHHTSSC
T ss_pred             EEECCEEEEEeeEEEEcCCCEEEEECCCCchHHHHHHHHhcCCC
Confidence            45788889999999999999999999999999999999987653

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=97.13  E-value=0.00025  Score=63.21  Aligned_cols=43  Identities=21%  Similarity=0.233  Sum_probs=38.0

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...+++..++...++-.++|+|++|+|||||++.+.+-.
T Consensus        23 ~~y~~~~vl~~vsl~i~~Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           23 KRIGKKEILKGISFEIEEGEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             EEETTEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEECCEEEEEeeEEEEcCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            3567677899999999999999999999999999999998764

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=97.12  E-value=0.00022  Score=62.77  Aligned_cols=43  Identities=19%  Similarity=0.271  Sum_probs=37.7

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...++++.++...++-.++|+|++|+|||||++.+.+-.
T Consensus        14 ~~y~~~~vl~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           14 VYYGAIHAIKGIDLKVPRGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEETTEEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEECCeeEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3567667888999999999999999999999999999998754

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=97.12  E-value=0.00023  Score=61.83  Aligned_cols=42  Identities=17%  Similarity=0.245  Sum_probs=37.0

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||. .+++..++...++-.++|+|++|+|||||++.+.+-.
T Consensus        18 ~~y~~-~il~~vsl~i~~Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           18 VGYDK-PVLERITMTIEKGNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             EESSS-EEEEEEEEEEETTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEeCC-eEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            35676 7888999999999999999999999999999997754

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=97.12  E-value=0.00022  Score=64.35  Aligned_cols=43  Identities=16%  Similarity=0.151  Sum_probs=38.2

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...+++..++...++-.++|+|++|+|||||++.+.+-.
T Consensus        29 ~~y~~~~vL~~isl~i~~Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           29 RMKQGKTILKKISWQIAKGDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             EEETTEEEEEEEEEEEETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEECCEEEEEeeeEEEcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4567777899999999999999999999999999999998754

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=97.12  E-value=0.00029  Score=61.85  Aligned_cols=42  Identities=19%  Similarity=0.246  Sum_probs=36.4

Q ss_pred             ecC--CcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFG--RQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g--~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .||  ...+++..++...++-.++|+|++|||||||++.+.+-.
T Consensus        12 ~y~~~~~~vl~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           12 TWARSDPPTLNGITFSIPEGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             ESCTTSCCSEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             EeCCCCCceeeeeEEEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            455  356888899999999999999999999999999997654

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=97.11  E-value=0.00023  Score=62.96  Aligned_cols=42  Identities=14%  Similarity=0.081  Sum_probs=37.5

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..||...++++.+++..++-.++|+|++|+|||||++.+.+-
T Consensus        11 ~~y~~~~vl~~vsl~i~~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           11 ASIDGETILKGVNLVVPKGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEETTEEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEECCEEEEeceEEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            356666788899999999999999999999999999999875

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=97.08  E-value=0.00027  Score=62.49  Aligned_cols=39  Identities=21%  Similarity=0.184  Sum_probs=35.0

Q ss_pred             CcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           35 RQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        35 ~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ...+++..++...++-.++|+|++|+|||||++.+.+-.
T Consensus        21 ~~~vl~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           21 SPVILDNINLSIKQGEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             SCEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CcceeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            456888899999999999999999999999999998764

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=97.06  E-value=0.0011  Score=65.96  Aligned_cols=25  Identities=36%  Similarity=0.672  Sum_probs=21.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      ..|+|+|++|||||||++.+.+-..
T Consensus        46 p~iaIvG~nGsGKSTLL~~I~Gl~~   70 (608)
T 3szr_A           46 PAIAVIGDQSSGKSSVLEALSGVAL   70 (608)
T ss_dssp             CCEECCCCTTSCHHHHHHHHHSCC-
T ss_pred             CeEEEECCCCChHHHHHHHHhCCCC
Confidence            3499999999999999999998743

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=97.06  E-value=0.0003  Score=63.35  Aligned_cols=43  Identities=14%  Similarity=0.229  Sum_probs=36.8

Q ss_pred             eecCC-cccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGR-QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~-~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..|+. ..++++.+++..++-.++|+|++|||||||++.+.+-.
T Consensus        15 ~~y~~~~~~L~~isl~i~~Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           15 YNYSDGTHALKGINMNIKRGEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             EECTTSCEEEEEEEEEEETTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEECCCCeEEEeeEEEEcCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            34654 34889999999999999999999999999999998754

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=97.05  E-value=0.00031  Score=66.26  Aligned_cols=44  Identities=16%  Similarity=0.290  Sum_probs=39.6

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      ..||...++++.+++..++--++|+|++|||||||++.+.+-..
T Consensus        11 ~~yg~~~~L~~vsl~i~~Ge~~~llGpsGsGKSTLLr~iaGl~~   54 (381)
T 3rlf_A           11 KAWGEVVVSKDINLDIHEGEFVVFVGPSGCGKSTLLRMIAGLET   54 (381)
T ss_dssp             EEETTEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEECCEEEEeeeEEEECCCCEEEEEcCCCchHHHHHHHHHcCCC
Confidence            46788889999999999999999999999999999999987653

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=97.04  E-value=0.00036  Score=62.64  Aligned_cols=42  Identities=14%  Similarity=0.150  Sum_probs=36.6

Q ss_pred             ecCC---cccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGR---QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~---~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .||.   ..+++..++...++-.++|+|++|+|||||++.+.+-.
T Consensus        25 ~y~~~~~~~vl~~vsl~i~~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           25 AYPNHPNVQVLQGLTFTLYPGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             CCTTCTTSCCEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EeCCCCCceeeEeeEEEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4554   56888899999999999999999999999999998764

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=97.00  E-value=0.00038  Score=60.78  Aligned_cols=39  Identities=15%  Similarity=0.212  Sum_probs=34.9

Q ss_pred             CcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           35 RQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        35 ~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ...+++..++...++-.++|+|++|+|||||++.+.+-.
T Consensus        20 ~~~il~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           20 GTPVLKDINFKIERGQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             SCCSEEEEEEEEETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CceeeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            356888899999999999999999999999999998754

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.99  E-value=0.00035  Score=60.31  Aligned_cols=36  Identities=31%  Similarity=0.416  Sum_probs=23.6

Q ss_pred             cccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           38 MDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        38 ~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .+++.++...++-.++|+|++|||||||++.+.+..
T Consensus        12 ~l~~isl~i~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           12 SGLVPRGSMNNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             ----------CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             cccCCceecCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            345677888888889999999999999999998743

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.98  E-value=0.00036  Score=61.95  Aligned_cols=43  Identities=21%  Similarity=0.335  Sum_probs=37.4

Q ss_pred             eecC-CcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFG-RQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g-~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..|| ...++++.++...++-.++|+|++|+|||||++.+.+-.
T Consensus        12 ~~y~~~~~vl~~isl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           12 FYYQAENFLFQQLNFDLNKGDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             EEETTTTEEEEEEEEEEETTCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             EEeCCCCeEEEEEEEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3466 567888899999999999999999999999999998764

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=96.98  E-value=0.00036  Score=61.24  Aligned_cols=37  Identities=19%  Similarity=0.222  Sum_probs=33.7

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .++++.+++..++-.++|+|++|||||||++.+.+-.
T Consensus        19 ~~L~~isl~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           19 YALKNVNLNIKEGEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             EEEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             eeEEeeeEEEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4788899999999999999999999999999997654

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=96.98  E-value=0.00043  Score=64.84  Aligned_cols=43  Identities=19%  Similarity=0.257  Sum_probs=38.3

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...++++.+++...+-.++|+|++|||||||++.+.+-.
T Consensus        11 ~~y~~~~vl~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           11 KKFGNFTALNNINLKIKDGEFMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             EESSSSEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEECCEEEEEeeEEEECCCCEEEEECCCCchHHHHHHHHhcCC
Confidence            4577777888999999999999999999999999999998765

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=96.96  E-value=0.00041  Score=64.88  Aligned_cols=43  Identities=21%  Similarity=0.268  Sum_probs=38.2

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...++++.+++..++-.++|+|++|||||||++.+.+-.
T Consensus        11 ~~y~~~~vl~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           11 KYFGKVKAVDGVSFEVKDGEFVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             EEETTEEEEEEEEEEECTTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEECCEEEEeeeEEEEcCCCEEEEEcCCCchHHHHHHHHHCCC
Confidence            4577777888999999999999999999999999999998765

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.96  E-value=0.00038  Score=60.86  Aligned_cols=40  Identities=15%  Similarity=0.064  Sum_probs=23.7

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .-|...++++.++...++..|+|+|++|+|||||++.+.+
T Consensus         8 ~~~~~~~l~~isl~i~~g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A            8 SSGVDLGTENLYFQSMRPFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             ---------------CCSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCCceeecceeccCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3456677888899999999999999999999999999876

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.93  E-value=0.00044  Score=64.62  Aligned_cols=42  Identities=21%  Similarity=0.309  Sum_probs=37.5

Q ss_pred             ec-CCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IF-GRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~-g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .| |...++++.+++..++-.++|+|++|||||||++.+.+-.
T Consensus        23 ~y~g~~~vl~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           23 IYPGGARSVRGVSFQIREGEMVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             CCTTSTTCEEEEEEEEETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEcCCCEEEeeeEEEECCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            46 6667888899999999999999999999999999998765

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=96.92  E-value=0.00054  Score=64.81  Aligned_cols=42  Identities=21%  Similarity=0.343  Sum_probs=37.3

Q ss_pred             eec--CCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           31 LIF--GRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        31 ~~~--g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      +.|  |...++++.+++..++-.++|+|++|||||||++.+.+-
T Consensus        27 ~~y~~~~~~~L~~vsl~i~~Ge~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           27 AKYTEGGNAILENISFSISPGQRVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             EESSSSSCCSEEEEEEEECTTCEEEEEESTTSSHHHHHHHHHTC
T ss_pred             EEecCCCeEEeeceeEEEcCCCEEEEECCCCChHHHHHHHHhCC
Confidence            356  566789999999999999999999999999999999864

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.91  E-value=0.00054  Score=61.02  Aligned_cols=37  Identities=16%  Similarity=0.141  Sum_probs=33.7

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .++++.++...++-.++|+|++|+|||||++.+.+-.
T Consensus        34 ~vl~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           34 RTLKSINFFIPSGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             CSEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             ceeEeeEEEECCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            5788899999999999999999999999999998753

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=96.91  E-value=0.0005  Score=64.64  Aligned_cols=43  Identities=19%  Similarity=0.285  Sum_probs=38.3

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...++++.+++..++-.++|+|++|||||||++.+.+-.
T Consensus        19 ~~y~~~~vl~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           19 KRFGNFTAVNKLNLTIKDGEFLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             EEETTEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEECCEEEEeeeEEEECCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            4577777888999999999999999999999999999998765

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=96.87  E-value=0.00036  Score=63.85  Aligned_cols=42  Identities=21%  Similarity=0.286  Sum_probs=36.1

Q ss_pred             ecC-CcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFG-RQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g-~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+ ...++++.++...++-.++|+|++|+|||||++.+.+--
T Consensus        62 ~y~~~~~vL~~isl~i~~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           62 SYADGRETLQDVSFTVMPGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             ESSTTCEEEEEEEEEECTTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             EcCCCCceeeeeeEEEcCCCEEEEECCCCchHHHHHHHHHcCC
Confidence            453 456888999999999999999999999999999987643

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=96.87  E-value=0.0002  Score=59.16  Aligned_cols=42  Identities=21%  Similarity=0.227  Sum_probs=35.3

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .||...+++..++...++-.++++|+.|+|||||++.+.+.-
T Consensus        16 ~~g~~~~l~~vsl~i~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           16 RFGKKFAEILLKLHTEKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             HHHHHHHHHHHHHCCSSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             HHHHHHHHhccccccCCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            456556677778888888899999999999999999998765

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=96.86  E-value=0.0005  Score=64.58  Aligned_cols=43  Identities=19%  Similarity=0.319  Sum_probs=38.1

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...++++.+++...+--++|+|++|||||||++.+.+-.
T Consensus        11 ~~y~~~~vl~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           11 KVFGEVTAVREMSLEVKDGEFMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             EEETTEEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEECCEEEEeeeEEEEcCCCEEEEECCCCcHHHHHHHHHHcCC
Confidence            4567777888899999999999999999999999999998765

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.84  E-value=0.00063  Score=60.77  Aligned_cols=38  Identities=16%  Similarity=0.256  Sum_probs=34.1

Q ss_pred             cccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           36 QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        36 ~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..++++.++...++-.++|+|++|+|||||++.+.+-.
T Consensus        20 ~~vl~~vsl~i~~Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           20 KKALENVSLVINEGECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             EEEEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cceeeeeEEEEcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            35788899999999999999999999999999997654

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=96.81  E-value=0.0008  Score=64.48  Aligned_cols=22  Identities=27%  Similarity=0.379  Sum_probs=19.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHh
Q 040295           49 RPGILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~   70 (289)
                      ..-|+++|++||||||++..+.
T Consensus        97 ~~vI~lvG~~GsGKTTt~~kLA  118 (433)
T 3kl4_A           97 PFIIMLVGVQGSGKTTTAGKLA  118 (433)
T ss_dssp             SEEEEECCCTTSCHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            4568999999999999999987

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=96.76  E-value=0.00054  Score=63.82  Aligned_cols=42  Identities=14%  Similarity=0.156  Sum_probs=37.4

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||.. ++++.+++..++-.++|+|++|||||||++.+.+-.
T Consensus         9 ~~y~~~-~l~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A            9 RKWKNF-SLDNLSLKVESGEYFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             EECSSC-EEEEEEEEECTTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEECCE-EEeeeEEEEcCCCEEEEECCCCccHHHHHHHHHcCC
Confidence            457766 888999999999999999999999999999998765

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=96.75  E-value=0.0063  Score=56.80  Aligned_cols=49  Identities=24%  Similarity=0.404  Sum_probs=35.2

Q ss_pred             ccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          117 PISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       117 ~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ....++|.+++|.+.....+...+..++-.....+.+| ++|.||+||.+
T Consensus       126 ~i~anvD~v~iv~a~~P~~~~~~i~r~L~~a~~~~~~~-iivlNK~DL~~  174 (358)
T 2rcn_A          126 PIAANIDQIVIVSAILPELSLNIIDRYLVGCETLQVEP-LIVLNKIDLLD  174 (358)
T ss_dssp             EEEECCCEEEEEEESTTTCCHHHHHHHHHHHHHHTCEE-EEEEECGGGCC
T ss_pred             HHHhcCCEEEEEEeCCCCCCHHHHHHHHHHHHhcCCCE-EEEEECccCCC
Confidence            34678999999988764455566667766555555544 77899999975

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.75  E-value=0.00064  Score=60.78  Aligned_cols=37  Identities=16%  Similarity=0.241  Sum_probs=33.3

Q ss_pred             cccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           36 QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        36 ~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..++++.++... +-.++|+|++|+|||||++.+.+-.
T Consensus        18 ~~il~~vsl~i~-Ge~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           18 RFSLENINLEVN-GEKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             EEEEEEEEEEEC-SSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             ceeEEeeeEEEC-CEEEEEECCCCCCHHHHHHHHhCCC
Confidence            567888899999 9999999999999999999998754

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.72  E-value=0.00091  Score=56.04  Aligned_cols=26  Identities=23%  Similarity=0.369  Sum_probs=22.4

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .++--|+|+|++|||||||++.+.+.
T Consensus         5 ~~g~ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            5 NKANLFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhh
Confidence            34557999999999999999999865

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=96.70  E-value=0.0052  Score=55.77  Aligned_cols=65  Identities=8%  Similarity=-0.121  Sum_probs=38.1

Q ss_pred             eEEEEEEEcCCchh--hhc-ccc-----ccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCC
Q 040295           97 TADVSLWMAHLHEE--FSI-RSL-----PISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLL  165 (289)
Q Consensus        97 ~~~l~I~Dt~G~e~--~~~-~~~-----~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~  165 (289)
                      .+++.|.||||...  ... +..     .....+|.+++|.|.+....   .......+.. ..+...+|.||.|..
T Consensus       180 ~~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~~---~~~~~~~~~~-~~~i~gvVlnk~D~~  252 (297)
T 1j8m_F          180 KMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQK---AYDLASKFNQ-ASKIGTIIITKMDGT  252 (297)
T ss_dssp             TCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGG---HHHHHHHHHH-TCTTEEEEEECGGGC
T ss_pred             CCCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchHH---HHHHHHHHHh-hCCCCEEEEeCCCCC
Confidence            45789999999765  211 111     12336899999999864321   1122222322 233466789999985

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=96.69  E-value=0.00046  Score=64.36  Aligned_cols=43  Identities=19%  Similarity=0.317  Sum_probs=37.7

Q ss_pred             eecCCcc--cccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQE--MDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~--~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...  ++++.+++..++-.++|+|++|||||||++.+.+-.
T Consensus        11 ~~y~~~~~~vl~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           11 KVFKKGKVVALDNVNINIENGERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             EEEGGGTEEEEEEEEEEECTTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEECCEeeeeEeceEEEECCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3566666  888899999999999999999999999999998765

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=96.64  E-value=0.0012  Score=60.39  Aligned_cols=56  Identities=14%  Similarity=0.130  Sum_probs=39.1

Q ss_pred             hhhccccccccCccEEEEEEeCCCH-hhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          110 EFSIRSLPISDQLTALVMVFNLNDL-STLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       110 ~~~~~~~~~~~~ad~vIlV~Dv~~~-~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      +-+.+....+.++|.+++|+|+.+| -+...+..++-.....+. +.++|.||+||.+
T Consensus        75 R~~~l~R~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~~~~~-~~vivlnK~DL~~  131 (307)
T 1t9h_A           75 RTNELIRPPICNVDQAVLVFSAVQPSFSTALLDRFLVLVEANDI-QPIICITKMDLIE  131 (307)
T ss_dssp             CSCEETTTTEECCCEEEEEEESTTTTCCHHHHHHHHHHHHTTTC-EEEEEEECGGGCC
T ss_pred             hhhhhhHHHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHHHCCC-CEEEEEECCccCc
Confidence            4444555568899999999999855 444556666655544444 5577899999975

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.63  E-value=0.0009  Score=56.72  Aligned_cols=24  Identities=29%  Similarity=0.531  Sum_probs=20.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcC
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      +-.++|+|++|||||||++.+.+.
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~   27 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQE   27 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            457999999999999999999763

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.60  E-value=0.0012  Score=58.07  Aligned_cols=39  Identities=13%  Similarity=0.273  Sum_probs=33.1

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .||.  .+++.+++..+ -.++|+|++|+|||||++.+.+-.
T Consensus        10 ~y~~--~l~~isl~i~~-e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           10 RLGN--FRLNVDFEMGR-DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EETT--EEEEEEEEECS-SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EeCC--EEeeeEEEECC-EEEEEECCCCCCHHHHHHHHhCCC
Confidence            4553  47788899888 889999999999999999998764

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.59  E-value=0.0013  Score=54.75  Aligned_cols=24  Identities=29%  Similarity=0.659  Sum_probs=21.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcC
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      +-.++|+|++|||||||++.+.+.
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            346999999999999999999864

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.57  E-value=0.00095  Score=55.16  Aligned_cols=28  Identities=25%  Similarity=0.444  Sum_probs=23.2

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHh
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~   70 (289)
                      ++...++--++++|++|||||||++.+.
T Consensus         3 sl~i~~gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            3 KLTIPELSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             EEEEESSEEEEEECCTTSCHHHHHHHHS
T ss_pred             cccCCCCEEEEEECCCCCCHHHHHHHHc
Confidence            4455666779999999999999999754

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=96.56  E-value=0.0014  Score=56.30  Aligned_cols=31  Identities=32%  Similarity=0.542  Sum_probs=23.4

Q ss_pred             cccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           42 DRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        42 ~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .++....+--|+|+|++|||||||+++|...
T Consensus        12 ~~~~~~~g~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           12 ENLYFQGRKTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             ----CCSCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ccCCCCCCCEEEEECcCCCCHHHHHHHHHhh
Confidence            3444556667999999999999999999864

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=96.53  E-value=0.00057  Score=62.56  Aligned_cols=37  Identities=19%  Similarity=0.241  Sum_probs=33.0

Q ss_pred             cccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           36 QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        36 ~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..+++..+....++-.++|+|++|+|||||++.+.+-
T Consensus       113 ~~vL~~vsl~i~~Ge~vaIvGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          113 INALKLWLKGIPKKNCLAFIGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             HHHHHHHHHTCTTCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             hhhhccceEEecCCCEEEEECCCCCcHHHHHHHHhhh
Confidence            4577788999999999999999999999999998754

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.51  E-value=0.0016  Score=54.93  Aligned_cols=34  Identities=15%  Similarity=0.059  Sum_probs=22.0

Q ss_pred             cccccccccCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           38 MDSTDRASLEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        38 ~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..++.++.+.+.-.|+|+|++||||||+.+.+..
T Consensus        14 ~~~~~~~~~~~~~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           14 GTENLYFQSNAMVRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             ----------CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCceeEecCCCCEEEEEcCCCCCHHHHHHHHHH
Confidence            3445667777777899999999999999999874

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=96.50  E-value=0.0014  Score=59.40  Aligned_cols=39  Identities=15%  Similarity=0.212  Sum_probs=34.8

Q ss_pred             CcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           35 RQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        35 ~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ...++++.++...++-.++|+|++|+|||||++.+.+-.
T Consensus        50 ~~~vl~~isl~i~~Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           50 GTPVLKDINFKIERGQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             CCCSEEEEEEEECTTCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CceEEEeeEEEEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            356888899999999999999999999999999997654

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.49  E-value=0.0016  Score=54.57  Aligned_cols=28  Identities=36%  Similarity=0.407  Sum_probs=23.3

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..++..|+|+|++||||||+++.+.+.-
T Consensus         3 i~~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            3 NEKGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             -CCCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            3456679999999999999999997654

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*

Probab=96.49  E-value=0.0039  Score=59.91  Aligned_cols=23  Identities=17%  Similarity=0.297  Sum_probs=20.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..-|.|+|++++|||+|+|++++
T Consensus        67 v~vVsV~G~~~~GKStLLN~llg   89 (447)
T 3q5d_A           67 VVAVSVAGAFRKGKSFLMDFMLR   89 (447)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCcHHHHHHHHhh
Confidence            34589999999999999999985

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.47  E-value=0.00096  Score=57.54  Aligned_cols=36  Identities=17%  Similarity=0.205  Sum_probs=21.3

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHh-cC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLL-SV   72 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~-~~   72 (289)
                      .+..+.+++..++--|+|+|++|||||||++.+. +.
T Consensus        15 ~~~~~~sl~v~~G~ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           15 QTQGPGSMLKSVGVILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             -------CCEECCCEEEEECSCC----CHHHHHHC--
T ss_pred             cccCCCCcccCCCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            3445677788888889999999999999999998 54

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=96.46  E-value=0.0015  Score=54.77  Aligned_cols=23  Identities=30%  Similarity=0.572  Sum_probs=20.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCC
Q 040295           51 GILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      +++|+|++|||||||++.+.+.-
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999987643

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=96.45  E-value=0.0015  Score=61.21  Aligned_cols=37  Identities=16%  Similarity=0.148  Sum_probs=34.1

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .++++.+++..++--++|+|++|||||||++.+.+-.
T Consensus        42 ~aL~~vsl~i~~Gei~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           42 QALNNVSLHVPAGQIYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             EEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEeeEEEEcCCCEEEEEcCCCchHHHHHHHHhcCC
Confidence            5788999999999999999999999999999998765

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=96.45  E-value=0.0018  Score=55.15  Aligned_cols=27  Identities=30%  Similarity=0.375  Sum_probs=23.0

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .++.-|+|+|++|||||||++.|....
T Consensus         6 ~~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            6 ERGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            445669999999999999999998654

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=96.42  E-value=0.0014  Score=57.96  Aligned_cols=37  Identities=16%  Similarity=0.281  Sum_probs=32.9

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .+++..++...++-.++|+|++|+|||||++.+.+-.
T Consensus        14 ~vl~~vsl~i~~Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           14 TRLGPLSGEVRAGEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             TTEEEEEEEEETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEeeeEEEEcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4677788999999999999999999999999997654

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=96.41  E-value=0.002  Score=53.35  Aligned_cols=26  Identities=27%  Similarity=0.305  Sum_probs=22.5

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .++-.|+|+|++|||||||++.+.+.
T Consensus         7 ~~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            7 LGGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             CTTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHhc
Confidence            34557999999999999999999875

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=96.40  E-value=0.0018  Score=55.00  Aligned_cols=30  Identities=23%  Similarity=0.247  Sum_probs=23.0

Q ss_pred             cccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           44 ASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        44 ~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ....++--++|+|++|||||||++.+.+-.
T Consensus        15 ~~i~~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           15 QPAAVGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             ----CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            356666779999999999999999998654

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=96.40  E-value=0.0018  Score=56.11  Aligned_cols=31  Identities=16%  Similarity=0.331  Sum_probs=23.3

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .-+++++--++|+|++|||||||++.+.+..
T Consensus        10 ~~~~~~G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           10 HHHMAQGTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             -----CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cccCCCCcEEEEECCCCCCHHHHHHHHhccC
Confidence            3455667789999999999999999998754

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.36  E-value=0.0022  Score=54.24  Aligned_cols=28  Identities=32%  Similarity=0.647  Sum_probs=23.2

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ++..+.-|+|+|++|||||||+++|...
T Consensus         8 ~~~~~~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A            8 HMARIPPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             -CCCCCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             ccccCCEEEEECCCCCCHHHHHHHHHHh
Confidence            4455677999999999999999999754

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.32  E-value=0.0019  Score=54.86  Aligned_cols=26  Identities=23%  Similarity=0.331  Sum_probs=22.5

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .++..|+|+|++|+|||||++.+.+.
T Consensus        20 ~~g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A           20 PGRQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             CSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            45678999999999999999998754

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.32  E-value=0.0022  Score=54.04  Aligned_cols=26  Identities=27%  Similarity=0.368  Sum_probs=21.4

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..++..|+|+|++|||||||++.+.+
T Consensus        26 ~~~g~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           26 GEPTRHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             --CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            34566799999999999999999865

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=96.29  E-value=0.0025  Score=62.95  Aligned_cols=42  Identities=19%  Similarity=0.218  Sum_probs=36.4

Q ss_pred             ecCC--cccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGR--QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~--~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+.  ..++++.+.+..++-+++|+|++|+|||||++.+.+--
T Consensus       350 ~y~~~~~~~l~~i~l~i~~G~~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          350 TYQGKEKPALSHVSFSIPQGKTVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             EcCCCCccccccceEEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4553  46888999999999999999999999999999998754

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.29  E-value=0.0015  Score=55.05  Aligned_cols=39  Identities=26%  Similarity=0.170  Sum_probs=29.2

Q ss_pred             CCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           34 GRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        34 g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      |......+...+..++.-|+|+|++|||||||++.+.+.
T Consensus        10 ~~~~~~~~~~~~~~~g~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           10 CSVEKVDRQRLLDQKGCVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             CCCCHHHHHHHHTSCCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cccCHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            333444445556667778999999999999999988653

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=96.26  E-value=0.0024  Score=63.09  Aligned_cols=42  Identities=17%  Similarity=0.167  Sum_probs=36.3

Q ss_pred             ecCC--cccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGR--QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~--~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+.  ..++++.+.+..++-+++|+|++|+|||||++.+.+--
T Consensus       350 ~y~~~~~~~l~~v~~~i~~G~~~~ivG~sGsGKSTLl~~l~g~~  393 (582)
T 3b60_A          350 TYPGREVPALRNINLKIPAGKTVALVGRSGSGKSTIASLITRFY  393 (582)
T ss_dssp             CSSSSSCCSEEEEEEEECTTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             EcCCCCCccccceeEEEcCCCEEEEECCCCCCHHHHHHHHhhcc
Confidence            4552  46888899999999999999999999999999997654

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.22  E-value=0.0023  Score=54.24  Aligned_cols=21  Identities=43%  Similarity=0.706  Sum_probs=19.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040295           52 ILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~~   72 (289)
                      |+|+||+|||||||+++|+..
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            899999999999999999864

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=96.20  E-value=0.0019  Score=59.17  Aligned_cols=29  Identities=21%  Similarity=0.263  Sum_probs=23.7

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ...++-.++|+|++|||||||+|.+.+..
T Consensus       169 ~~~~G~~~~lvG~sG~GKSTLln~L~g~~  197 (307)
T 1t9h_A          169 PHFQDKTTVFAGQSGVGKSSLLNAISPEL  197 (307)
T ss_dssp             GGGTTSEEEEEESHHHHHHHHHHHHCC--
T ss_pred             hhcCCCEEEEECCCCCCHHHHHHHhcccc
Confidence            44556789999999999999999998754

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.14  E-value=0.0007  Score=58.35  Aligned_cols=42  Identities=12%  Similarity=0.166  Sum_probs=32.5

Q ss_pred             hhhheecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           27 FVRVLIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        27 ~~~~~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .++...||...+++..    .++-.++|+|++|+|||||++.+.+-
T Consensus         4 ~i~pk~~g~~~~l~~i----~~Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A            4 VIRPKTLGQKHYVDAI----DTNTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             CCCCCSHHHHHHHHHH----HHCSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             ccccCCHhHHHHHHhc----cCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3566677776666542    45667999999999999999999875

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.12  E-value=0.0028  Score=53.46  Aligned_cols=26  Identities=31%  Similarity=0.266  Sum_probs=21.8

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .++..|+|+|++|+|||||++.+.+.
T Consensus         4 ~~~~~i~i~G~~GsGKSTl~~~l~~~   29 (211)
T 3asz_A            4 PKPFVIGIAGGTASGKTTLAQALART   29 (211)
T ss_dssp             -CCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            34567999999999999999998763

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.08  E-value=0.0037  Score=51.09  Aligned_cols=25  Identities=20%  Similarity=0.329  Sum_probs=21.3

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .++..|+|+|++|+||||+++.+..
T Consensus         6 ~~g~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            6 HDHHIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHH
Confidence            3456799999999999999999864

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=96.05  E-value=0.0042  Score=61.01  Aligned_cols=44  Identities=16%  Similarity=0.191  Sum_probs=33.7

Q ss_pred             heecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           30 VLIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        30 ~~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      +|.||.+..---.-..+.++--++|+|+.|+|||||++.+.+..
T Consensus         6 ~~~~~~~~f~l~~l~~~~~Gei~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A            6 IHRYKVNGFKLFGLPTPKNNTILGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             EEESSTTSCEEECCCCCCTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             ceecCCCceeecCCCCCCCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            78899764322234456677779999999999999999998754

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.99  E-value=0.0016  Score=57.82  Aligned_cols=40  Identities=15%  Similarity=0.248  Sum_probs=32.1

Q ss_pred             ec-CCcccccccccccCC---CceEEEEcCCCCCHHHHHHHHhc
Q 040295           32 IF-GRQEMDSTDRASLEK---RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        32 ~~-g~~~~~~~~~~~~~~---~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .| +...+++..++...+   +-.|+|+|++||||||+.+.+..
T Consensus        27 ~~~~~~~~l~~~~~~i~~~l~g~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           27 PFDEEQQILKKKAEEVKPYLNGRSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             -----CHHHHHHHHTTHHHHTTCCEEEECSTTSCHHHHHHHHHH
T ss_pred             EecCcchhhhhhhhhhhhhcCCCEEEEECCCCCCHHHHHHHHHH
Confidence            45 566788888888888   88999999999999999999864

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=95.98  E-value=0.0078  Score=54.53  Aligned_cols=26  Identities=38%  Similarity=0.413  Sum_probs=22.1

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..+-.++++|++|||||||+|.+. ..
T Consensus       163 l~G~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          163 LEGFICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             TTTCEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHH-Hh
Confidence            345568999999999999999998 54

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.97  E-value=0.0039  Score=61.89  Aligned_cols=42  Identities=14%  Similarity=0.295  Sum_probs=35.8

Q ss_pred             ecC-CcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFG-RQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g-~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+ ...++++.+.+..++-+++|+|++|+|||||++.+.+--
T Consensus       363 ~y~~~~~~l~~isl~i~~G~~~~ivG~sGsGKSTll~~l~g~~  405 (598)
T 3qf4_B          363 SYDKKKPVLKDITFHIKPGQKVALVGPTGSGKTTIVNLLMRFY  405 (598)
T ss_dssp             CSSSSSCSCCSEEEECCTTCEEEEECCTTSSTTHHHHHHTTSS
T ss_pred             ECCCCCccccceEEEEcCCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            354 345888899999999999999999999999999987654

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=95.96  E-value=0.0048  Score=51.29  Aligned_cols=30  Identities=23%  Similarity=0.326  Sum_probs=23.9

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ++.......|+|+|.+||||||+.+.|...
T Consensus         4 ~~~~~~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            4 SMEQPKGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             --CCCSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CcCCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            445556678999999999999999999754

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=95.91  E-value=0.0021  Score=57.44  Aligned_cols=40  Identities=10%  Similarity=0.076  Sum_probs=31.5

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..++..+.++..+.....+  ++++|++|+|||||++.+.+.
T Consensus        28 ~~~~~~~~l~~~~l~~~~G--vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           28 APVRNPDQFKALGLVTPAG--VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             HHHHSHHHHHHTTCCCCSE--EEEESSTTSCHHHHHHHHHHH
T ss_pred             HHhhCHHHHHHcCCCCCCe--EEEECCCCCcHHHHHHHHHHH
Confidence            3455556666666666666  999999999999999999864

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.89  E-value=0.0033  Score=62.28  Aligned_cols=39  Identities=15%  Similarity=0.214  Sum_probs=34.3

Q ss_pred             CcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           35 RQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        35 ~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ...++++.+++..++-+++|+|++|+|||||++.+.+--
T Consensus       355 ~~~~l~~isl~i~~Ge~~~ivG~sGsGKSTll~~l~g~~  393 (587)
T 3qf4_A          355 TDPVLSGVNFSVKPGSLVAVLGETGSGKSTLMNLIPRLI  393 (587)
T ss_dssp             SCCSEEEEEEEECTTCEEEEECSSSSSHHHHHHTTTTSS
T ss_pred             CCcceeceEEEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            346888899999999999999999999999999887543

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.83  E-value=0.0061  Score=51.14  Aligned_cols=24  Identities=29%  Similarity=0.235  Sum_probs=21.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .+..|+|.|.+||||||+++.|..
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHH
Confidence            456799999999999999999864

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.81  E-value=0.0046  Score=54.98  Aligned_cols=34  Identities=21%  Similarity=0.223  Sum_probs=26.3

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .+++..+  ..++-.++|+|++|+|||||++.+.+-
T Consensus        15 ~vl~~i~--i~~g~~v~i~Gp~GsGKSTll~~l~g~   48 (261)
T 2eyu_A           15 DKVLELC--HRKMGLILVTGPTGSGKSTTIASMIDY   48 (261)
T ss_dssp             THHHHGG--GCSSEEEEEECSTTCSHHHHHHHHHHH
T ss_pred             HHHHHHh--hCCCCEEEEECCCCccHHHHHHHHHHh
Confidence            3444444  556667999999999999999998763

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=95.80  E-value=0.0053  Score=49.24  Aligned_cols=20  Identities=35%  Similarity=0.396  Sum_probs=18.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHH
Q 040295           50 PGILIIGSSNVGKRTILSRL   69 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl   69 (289)
                      .-|+|+|++||||||+++.|
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            35899999999999999999

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=95.77  E-value=0.0058  Score=51.94  Aligned_cols=23  Identities=35%  Similarity=0.439  Sum_probs=20.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ...|+|+|++||||||+++.+..
T Consensus         5 ~~~i~i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A            5 APVITIDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999875

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=95.75  E-value=0.0056  Score=49.74  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=20.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..|+|+|++||||||+++.+...
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999999754

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=95.74  E-value=0.0032  Score=54.86  Aligned_cols=38  Identities=18%  Similarity=0.272  Sum_probs=28.4

Q ss_pred             cCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           33 FGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        33 ~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      |+....+...+.....+  ++|+|++|+|||||++.+.+.
T Consensus        35 ~~~~~~~~~~~~~~~~g--~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           35 LKNPSRFHEMGARIPKG--VLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             HHCHHHHHHTTCCCCSE--EEEECCTTSSHHHHHHHHHHH
T ss_pred             HHCHHHHHHcCCCCCCe--EEEECCCCCCHHHHHHHHHHH
Confidence            44444555555555555  999999999999999999864

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=95.72  E-value=0.0053  Score=49.55  Aligned_cols=22  Identities=23%  Similarity=0.218  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .|+|.|++||||||+++.|...
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~   24 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKE   24 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998643

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=95.70  E-value=0.0076  Score=60.05  Aligned_cols=42  Identities=17%  Similarity=0.093  Sum_probs=35.0

Q ss_pred             eecCCc-ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQ-EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~-~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      +.||.. .++.+.+ ...++-.++|+|++|+|||||++.+.+..
T Consensus        99 ~~yg~~~~~l~~vs-~i~~Ge~~~LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A           99 HRYGVNAFVLYRLP-IVKDGMVVGIVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             EECSTTCCEEECCC-CCCTTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEECCCCeeeCCCC-CCCCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            567765 3677777 78889999999999999999999998754

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.69  E-value=0.0073  Score=59.24  Aligned_cols=42  Identities=17%  Similarity=0.105  Sum_probs=35.2

Q ss_pred             eecCCc-ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQ-EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~-~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      +.||.. .++.+.+ ...++-.++|+|++|+|||||++.+.+..
T Consensus        29 ~~yg~~~~~l~~vs-~i~~Ge~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           29 HRYGVNAFVLYRLP-VVKEGMVVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             EECSTTCCEEECCC-CCCTTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEECCccccccCcC-cCCCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            567765 3677777 78899999999999999999999998754

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=95.69  E-value=0.0038  Score=61.64  Aligned_cols=38  Identities=21%  Similarity=0.250  Sum_probs=33.6

Q ss_pred             cccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           36 QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        36 ~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..++++.+.+..++-.++|+|++|+|||||++.+.+--
T Consensus       354 ~~~l~~isl~i~~G~~~~ivG~sGsGKSTll~~l~g~~  391 (578)
T 4a82_A          354 APILKDINLSIEKGETVAFVGMSGGGKSTLINLIPRFY  391 (578)
T ss_dssp             CCSEEEEEEEECTTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             CcceeeeEEEECCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            35788899999999999999999999999999886543

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=95.67  E-value=0.0053  Score=64.32  Aligned_cols=44  Identities=18%  Similarity=0.315  Sum_probs=39.0

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      ..||...++++.++...++-.++|+|+.|+|||||++.+.++..
T Consensus       443 ~~yg~~~iL~~vsl~I~~Ge~v~LiGpNGsGKSTLLk~LagG~i  486 (986)
T 2iw3_A          443 LAYGAKILLNKTQLRLKRARRYGICGPNGCGKSTLMRAIANGQV  486 (986)
T ss_dssp             EEETTEEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHHHTCS
T ss_pred             EEECCEEeEecceEEEcCCCEEEEECCCCCCHHHHHHHHhCCCc
Confidence            45787788999999999999999999999999999999986543

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=95.67  E-value=0.0022  Score=59.77  Aligned_cols=34  Identities=24%  Similarity=0.336  Sum_probs=29.1

Q ss_pred             cccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           40 STDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        40 ~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      +..+....++-.++|+|++|+|||||++.+.+--
T Consensus       166 ~~l~~~i~~G~~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          166 SFLRRAVQLERVIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             HHHHHHHHTTCCEEEEESSSSCHHHHHHHHHTTS
T ss_pred             HHHHHHHhcCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            5566777788899999999999999999998653

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.66  E-value=0.0084  Score=59.78  Aligned_cols=45  Identities=13%  Similarity=0.176  Sum_probs=33.9

Q ss_pred             hheecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           29 RVLIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        29 ~~~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      -++.||.....-.....+.++-.++|+|++|+|||||++.+.+..
T Consensus        83 ~~~~Y~~~~~~l~~l~~~~~Gei~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B           83 VTHRYSANSFKLHRLPTPRPGQVLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             EEEECSTTSCEEECCCCCCTTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             eEEEECCCceeecCCCCCCCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            367787654322233367788889999999999999999998754

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=95.65  E-value=0.0077  Score=50.68  Aligned_cols=29  Identities=31%  Similarity=0.196  Sum_probs=24.2

Q ss_pred             cccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           44 ASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        44 ~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .....+..|+|+|++|+|||||++.+...
T Consensus        16 ~~~~~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           16 PRGSKTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCSCCCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             ccCCCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            34555678999999999999999999764

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=95.65  E-value=0.0071  Score=52.55  Aligned_cols=22  Identities=27%  Similarity=0.433  Sum_probs=20.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHh
Q 040295           49 RPGILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~   70 (289)
                      ...|+|+|++|||||||++.+.
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            3579999999999999999998

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=95.65  E-value=0.0045  Score=57.47  Aligned_cols=41  Identities=22%  Similarity=0.084  Sum_probs=35.4

Q ss_pred             ecC-CcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFG-RQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g-~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+ ...+++.. +...++-+++|+|++|+|||||++.+.+..
T Consensus        54 ~~~tg~~ald~l-l~i~~Gq~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           54 PFILGVRAIDGL-LTCGIGQRIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             EECCSCHHHHHH-SCEETTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             ecCCCCEEEEee-eeecCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            455 55678777 899999999999999999999999998875

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=95.64  E-value=0.0054  Score=50.80  Aligned_cols=21  Identities=38%  Similarity=0.504  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      -++|+|++|||||||++.+..
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            478999999999999999975

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.60  E-value=0.007  Score=55.00  Aligned_cols=30  Identities=30%  Similarity=0.400  Sum_probs=25.1

Q ss_pred             cccccCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           42 DRASLEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        42 ~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .++...++--++++|++||||||+++.+.+
T Consensus        93 l~~~~~~g~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A           93 LQLGFRKPAVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             CCCCSSSCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             cccccCCCcEEEEEcCCCCCHHHHHHHHHH
Confidence            455566677899999999999999999875

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=95.59  E-value=0.0057  Score=58.58  Aligned_cols=41  Identities=12%  Similarity=0.186  Sum_probs=35.2

Q ss_pred             ecC-CcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFG-RQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g-~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+ ...+++.. +...++-+++|+|++|||||||++.+.+..
T Consensus       140 ~~~tg~~vld~v-l~i~~Gq~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          140 VLDTGVRAINAL-LTVGRGQRMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             BCCCSCHHHHHH-SCCBTTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             ecCCCceEEeee-EEecCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            454 45678878 899999999999999999999999998764

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=95.58  E-value=0.0071  Score=55.22  Aligned_cols=27  Identities=30%  Similarity=0.158  Sum_probs=23.7

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ...+.-|+|+|++|||||||++.+.+-
T Consensus        87 ~~~g~ivgI~G~sGsGKSTL~~~L~gl  113 (312)
T 3aez_A           87 RPVPFIIGVAGSVAVGKSTTARVLQAL  113 (312)
T ss_dssp             SCCCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCchHHHHHHHHHhh
Confidence            566778999999999999999998764

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=95.58  E-value=0.0078  Score=49.39  Aligned_cols=23  Identities=17%  Similarity=0.274  Sum_probs=20.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +..|+|.|++||||||+++.|..
T Consensus         3 ~~~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999864

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=95.57  E-value=0.0067  Score=49.29  Aligned_cols=21  Identities=33%  Similarity=0.455  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .|+|+|++||||||+++.+..
T Consensus         4 ~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            4 IILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEecCCCCCHHHHHHHHHh
Confidence            589999999999999999986

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=95.56  E-value=0.0056  Score=50.39  Aligned_cols=24  Identities=29%  Similarity=0.498  Sum_probs=20.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcC
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      +-.++++|++|+|||||++.+.+.
T Consensus        38 g~~~~l~G~~G~GKTtL~~~i~~~   61 (180)
T 3ec2_A           38 GKGLTFVGSPGVGKTHLAVATLKA   61 (180)
T ss_dssp             CCEEEECCSSSSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            456999999999999999988754

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=95.54  E-value=0.0083  Score=50.32  Aligned_cols=25  Identities=24%  Similarity=0.361  Sum_probs=21.7

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..+..|+|.|.+||||||+++.|..
T Consensus         7 ~~~~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A            7 RRGALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CCCCEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3456799999999999999999874

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=95.53  E-value=0.0093  Score=49.93  Aligned_cols=26  Identities=23%  Similarity=0.358  Sum_probs=21.8

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ......|+|+|.+||||||+++.|..
T Consensus        17 ~~~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           17 RGSHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CCSCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            33446799999999999999999864

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.49  E-value=0.0076  Score=49.55  Aligned_cols=23  Identities=30%  Similarity=0.508  Sum_probs=20.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +..|+++|++||||||+.+.|..
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999999864

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=95.46  E-value=0.0084  Score=55.98  Aligned_cols=27  Identities=30%  Similarity=0.417  Sum_probs=23.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      .+-.++|+|++|||||||+|.+.+...
T Consensus       214 ~G~~~~lvG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          214 TGRISIFAGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHCCSS
T ss_pred             CCCEEEEECCCCccHHHHHHHHhcccc
Confidence            345799999999999999999997653

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.45  E-value=0.0071  Score=51.15  Aligned_cols=22  Identities=27%  Similarity=0.570  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      +++|+|++|+|||||++.+.+.
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~   24 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhh
Confidence            6899999999999999998764

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=95.44  E-value=0.0048  Score=54.67  Aligned_cols=39  Identities=18%  Similarity=0.262  Sum_probs=28.3

Q ss_pred             cCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           33 FGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        33 ~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      |+....+...+.....+  ++|+|++|+|||||++.+.+..
T Consensus        59 ~~~~~~l~~~~~~~~~g--vll~Gp~GtGKTtl~~~i~~~~   97 (278)
T 1iy2_A           59 LKNPSRFHEMGARIPKG--VLLVGPPGVGKTHLARAVAGEA   97 (278)
T ss_dssp             HHCHHHHHHTTCCCCCE--EEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHCHHHHHHcCCCCCCe--EEEECCCcChHHHHHHHHHHHc
Confidence            34434444455555555  9999999999999999998643

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.44  E-value=0.008  Score=50.80  Aligned_cols=22  Identities=23%  Similarity=0.459  Sum_probs=19.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ++|+|+|++||||||+++.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            1 MNIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999999854

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.41  E-value=0.0092  Score=49.99  Aligned_cols=23  Identities=22%  Similarity=0.417  Sum_probs=20.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..|+|+|++||||||+++.|...
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~~   41 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAEA   41 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999998653

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=95.40  E-value=0.0072  Score=51.15  Aligned_cols=27  Identities=19%  Similarity=0.274  Sum_probs=22.9

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..++--++|+|++|||||||++.+.+.
T Consensus        22 i~~G~~~~l~G~nGsGKSTll~~l~g~   48 (231)
T 4a74_A           22 IETQAITEVFGEFGSGKTQLAHTLAVM   48 (231)
T ss_dssp             EESSEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            344567999999999999999999874

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.39  E-value=0.013  Score=52.48  Aligned_cols=24  Identities=25%  Similarity=0.242  Sum_probs=21.1

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHh
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~   70 (289)
                      ...+.|+|.|.+||||||+.+.|.
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            344679999999999999999997

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=95.38  E-value=0.0089  Score=50.56  Aligned_cols=22  Identities=23%  Similarity=0.425  Sum_probs=19.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ++|+|+|++||||||+++.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            1 MNLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999999964

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=95.38  E-value=0.008  Score=50.27  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=20.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .-++|+|++|+|||||+++++..
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHh
Confidence            46899999999999999999864

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=95.38  E-value=0.01  Score=48.93  Aligned_cols=22  Identities=27%  Similarity=0.431  Sum_probs=19.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..|+|+|.+||||||+++.|..
T Consensus         6 ~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            6 ALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5699999999999999999864

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=95.37  E-value=0.01  Score=48.64  Aligned_cols=24  Identities=42%  Similarity=0.587  Sum_probs=20.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ....|+|+|.+|+||||+++.+..
T Consensus        10 ~~~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           10 LLPNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHH
Confidence            345699999999999999999863

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=95.36  E-value=0.0092  Score=48.94  Aligned_cols=21  Identities=29%  Similarity=0.449  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .|+|.|++||||||+++.|..
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999864

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.35  E-value=0.0098  Score=49.30  Aligned_cols=21  Identities=33%  Similarity=0.487  Sum_probs=19.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .|+|.|.+||||||+++.|..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISK   22 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHH
Confidence            589999999999999999875

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=95.35  E-value=0.0088  Score=48.76  Aligned_cols=23  Identities=39%  Similarity=0.472  Sum_probs=20.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .-|++.|++||||||+.+.|...
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~   26 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            35899999999999999999753

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.35  E-value=0.011  Score=51.81  Aligned_cols=24  Identities=33%  Similarity=0.393  Sum_probs=21.8

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHh
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~   70 (289)
                      .++..|+|+|++||||||+++.+.
T Consensus        25 ~~g~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           25 AIAPVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             TTSCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHH
Confidence            456789999999999999999997

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=95.35  E-value=0.0064  Score=56.29  Aligned_cols=32  Identities=19%  Similarity=0.306  Sum_probs=26.6

Q ss_pred             cccccCC--CceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           42 DRASLEK--RPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        42 ~~~~~~~--~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .+....+  +-+++|+|++|+|||||++.+.+.-
T Consensus       161 v~~~v~~~lg~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          161 IPKEARPFFAKTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             SCTTTGGGTCEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             CCHHHHHhhhCeEEEECCCCCCHHHHHHHHHHHh
Confidence            4555666  7799999999999999999998653

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=95.34  E-value=0.012  Score=49.09  Aligned_cols=24  Identities=21%  Similarity=0.227  Sum_probs=21.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcC
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      +..|+|+|.+||||||+++.|...
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHT
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            467999999999999999999754

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=95.28  E-value=0.0095  Score=49.85  Aligned_cols=22  Identities=23%  Similarity=0.286  Sum_probs=20.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .+|+|+|++||||||+++.|..
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            4799999999999999999976

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=95.25  E-value=0.011  Score=53.50  Aligned_cols=27  Identities=26%  Similarity=0.187  Sum_probs=23.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      .+-.++++|++|||||||++.+.+...
T Consensus       168 ~geiv~l~G~sG~GKSTll~~l~g~~~  194 (301)
T 1u0l_A          168 KGKISTMAGLSGVGKSSLLNAINPGLK  194 (301)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHSTTCC
T ss_pred             cCCeEEEECCCCCcHHHHHHHhccccc
Confidence            445689999999999999999987653

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.22  E-value=0.012  Score=49.14  Aligned_cols=23  Identities=22%  Similarity=0.122  Sum_probs=20.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +..|+|.|.+||||||+++.|..
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~   26 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKD   26 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHH
Confidence            45799999999999999999865

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=95.20  E-value=0.0098  Score=51.28  Aligned_cols=30  Identities=27%  Similarity=0.231  Sum_probs=24.7

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .....++.-|+|.|+.|||||||++.+.+.
T Consensus        14 ~~~~~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           14 YAEGTQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             BTTTCCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             cCCCCCceEEEEECCCCCCHHHHHHHHHhc
Confidence            334456678999999999999999998765

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=95.17  E-value=0.012  Score=48.29  Aligned_cols=22  Identities=32%  Similarity=0.475  Sum_probs=19.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..|+++|++||||||+.+.+..
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999864

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=95.05  E-value=0.013  Score=49.32  Aligned_cols=25  Identities=32%  Similarity=0.279  Sum_probs=21.6

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..+..|+|+|++|+|||||++.+..
T Consensus        20 ~~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           20 AGRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3456799999999999999999864

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=95.02  E-value=0.015  Score=49.44  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=20.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ...|+|+|.+||||||+.+.|..
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999864

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=95.01  E-value=0.012  Score=52.45  Aligned_cols=37  Identities=14%  Similarity=0.064  Sum_probs=30.2

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..++..+....++--++|+|++|+|||||+..+.+.-
T Consensus        23 ~~Ld~i~~~l~~G~~~~i~G~~G~GKTTl~~~ia~~~   59 (296)
T 1cr0_A           23 TGINDKTLGARGGEVIMVTSGSGMGKSTFVRQQALQW   59 (296)
T ss_dssp             TTHHHHHCSBCTTCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            3455666777788889999999999999999987643

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.00  E-value=0.013  Score=48.35  Aligned_cols=24  Identities=25%  Similarity=0.448  Sum_probs=20.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +...|+|+|.+||||||+.+.|..
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            446799999999999999999864

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=95.00  E-value=0.0083  Score=64.89  Aligned_cols=36  Identities=25%  Similarity=0.311  Sum_probs=33.0

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .++++.+++..++-||+|+|++|+|||||++.+.+-
T Consensus      1093 ~VL~~isl~I~~Ge~vaIVG~SGsGKSTL~~lL~rl 1128 (1321)
T 4f4c_A         1093 EILKGLSFSVEPGQTLALVGPSGCGKSTVVALLERF 1128 (1321)
T ss_dssp             CSEEEEEEEECTTCEEEEECSTTSSTTSHHHHHTTS
T ss_pred             ccccceeEEECCCCEEEEECCCCChHHHHHHHHhcC
Confidence            478899999999999999999999999999999753

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.00  E-value=0.0058  Score=50.95  Aligned_cols=22  Identities=32%  Similarity=0.724  Sum_probs=20.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .|+|+|++|+|||||++.+.+-
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999764

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=95.00  E-value=0.015  Score=50.72  Aligned_cols=24  Identities=21%  Similarity=0.243  Sum_probs=21.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ...+|+|+|++||||||++++|..
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999999964

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=94.94  E-value=0.017  Score=48.15  Aligned_cols=23  Identities=26%  Similarity=0.459  Sum_probs=20.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ...|+|.|.+||||||+++.|..
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35699999999999999999874

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=94.93  E-value=0.014  Score=48.92  Aligned_cols=22  Identities=23%  Similarity=0.194  Sum_probs=20.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +.|+|+|++||||||+++.|..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999976

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=94.93  E-value=0.014  Score=49.40  Aligned_cols=22  Identities=23%  Similarity=0.395  Sum_probs=19.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ++|+|+|++||||||+++.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            1 MRIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3699999999999999999864

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=94.92  E-value=0.015  Score=47.73  Aligned_cols=22  Identities=23%  Similarity=0.483  Sum_probs=19.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..|+|+|.+||||||+.+.|..
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5699999999999999998864

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=94.89  E-value=0.011  Score=56.89  Aligned_cols=31  Identities=32%  Similarity=0.423  Sum_probs=27.4

Q ss_pred             cccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           42 DRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        42 ~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .++....+-.++|+|++|||||||++.+.+-
T Consensus       131 vsl~i~~Ge~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          131 IRMSNFEGPRVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             HHHHSSSCCCEEEEESTTSSHHHHHHHHHHT
T ss_pred             CceEeCCCCEEEEECCCCCCHHHHHHHHhCc
Confidence            5667778889999999999999999998864

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=94.89  E-value=0.016  Score=47.59  Aligned_cols=29  Identities=24%  Similarity=0.241  Sum_probs=23.3

Q ss_pred             cccccCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           42 DRASLEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        42 ~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ......++ -.+|+|+.|+|||||+..+..
T Consensus        20 ~~~~~~~g-~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           20 VVIPFSKG-FTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             EEEECCSS-EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEecCCC-cEEEECCCCCCHHHHHHHHHH
Confidence            44555566 578999999999999999864

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=94.89  E-value=0.014  Score=47.12  Aligned_cols=23  Identities=30%  Similarity=0.475  Sum_probs=20.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -.++|.|++|+|||+|++.+...
T Consensus        44 ~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           44 NNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            45899999999999999988754

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=94.86  E-value=0.016  Score=49.54  Aligned_cols=22  Identities=32%  Similarity=0.514  Sum_probs=20.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..|+|+|++||||||+++.|..
T Consensus         8 ~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            8 LRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999864

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=94.84  E-value=0.016  Score=49.68  Aligned_cols=22  Identities=27%  Similarity=0.385  Sum_probs=19.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +.|+|+|+|||||+|.+.++..
T Consensus         1 M~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            1 MILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999999874

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=94.83  E-value=0.015  Score=52.58  Aligned_cols=26  Identities=35%  Similarity=0.248  Sum_probs=22.9

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..+..|+|+|++|+|||||++.+.+.
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~  103 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQAL  103 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            56678999999999999999998763

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=94.82  E-value=0.018  Score=49.89  Aligned_cols=25  Identities=20%  Similarity=0.268  Sum_probs=21.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .+.-|+|.|++||||||+++++...
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~   49 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHR   49 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            5677999999999999999998753

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=94.81  E-value=0.017  Score=49.12  Aligned_cols=22  Identities=23%  Similarity=0.299  Sum_probs=19.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..|+|+|++||||||+++.|..
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999864

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=94.80  E-value=0.017  Score=52.21  Aligned_cols=24  Identities=17%  Similarity=0.123  Sum_probs=20.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ....|+|+|++|||||||++.+..
T Consensus        30 ~~~ii~I~G~sGsGKSTla~~L~~   53 (290)
T 1odf_A           30 CPLFIFFSGPQGSGKSFTSIQIYN   53 (290)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998764

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=94.76  E-value=0.017  Score=47.25  Aligned_cols=21  Identities=33%  Similarity=0.458  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +|+|+|++||||||+.+.+..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            699999999999999999864

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=94.75  E-value=0.013  Score=47.92  Aligned_cols=23  Identities=35%  Similarity=0.361  Sum_probs=16.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ...|+|.|.+||||||+.+.|..
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999864

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=94.68  E-value=0.019  Score=55.81  Aligned_cols=31  Identities=26%  Similarity=0.313  Sum_probs=26.1

Q ss_pred             ccccccCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           41 TDRASLEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        41 ~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..++....+-.|+|+|++|||||||++.+.+
T Consensus       285 ~Isl~i~~GeVI~LVGpNGSGKTTLl~~LAg  315 (503)
T 2yhs_A          285 PLNVEGKAPFVILMVGVNGVGKTTTIGKLAR  315 (503)
T ss_dssp             CCCCCSCTTEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceeeccCCeEEEEECCCcccHHHHHHHHHH
Confidence            3556667777899999999999999999874

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=94.66  E-value=0.02  Score=46.15  Aligned_cols=21  Identities=38%  Similarity=0.349  Sum_probs=19.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +|+|.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999999865

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=94.64  E-value=0.023  Score=46.85  Aligned_cols=24  Identities=33%  Similarity=0.412  Sum_probs=20.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .+..|+|+|.+|+||||+++.+..
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~   35 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLAD   35 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            456799999999999999999864

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=94.59  E-value=0.018  Score=55.81  Aligned_cols=34  Identities=12%  Similarity=0.158  Sum_probs=28.9

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .+++..++...+ -.++|+|++|||||||++.+.+
T Consensus        18 ~~l~~vsl~i~~-e~~~liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           18 NGFFARTFDFDE-LVTTLSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             TTEEEEEEECCS-SEEEEECCTTSSHHHHHHHHHH
T ss_pred             ccccceEEEEcc-ceEEEECCCCCcHHHHHHHHhc
Confidence            445667788888 7899999999999999999875

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=94.58  E-value=0.022  Score=47.09  Aligned_cols=22  Identities=36%  Similarity=0.493  Sum_probs=20.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..|+|+|.+||||||+.+.|..
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999865

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=94.56  E-value=0.0077  Score=50.58  Aligned_cols=21  Identities=38%  Similarity=0.526  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      -|+|.|++||||||+++.|..
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~   22 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSG   22 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            489999999999999999864

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=94.55  E-value=0.023  Score=47.12  Aligned_cols=24  Identities=33%  Similarity=0.202  Sum_probs=21.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcC
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ...|+|.|.+||||||+.+.|...
T Consensus         8 ~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            8 PIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHC
Confidence            467999999999999999999765

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=94.54  E-value=0.018  Score=48.55  Aligned_cols=27  Identities=15%  Similarity=0.212  Sum_probs=22.2

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..++--++|+|++|+|||||+..+...
T Consensus        20 i~~G~~~~i~G~~GsGKTtl~~~l~~~   46 (235)
T 2w0m_A           20 IPQGFFIALTGEPGTGKTIFSLHFIAK   46 (235)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CcCCCEEEEEcCCCCCHHHHHHHHHHH
Confidence            344556999999999999999999843

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=94.53  E-value=0.021  Score=51.28  Aligned_cols=23  Identities=22%  Similarity=0.405  Sum_probs=20.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..-|+|+|++||||||+++++..
T Consensus        33 ~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           33 PTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35699999999999999999975

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=94.52  E-value=0.011  Score=62.08  Aligned_cols=42  Identities=17%  Similarity=0.173  Sum_probs=35.8

Q ss_pred             ecCC--cccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGR--QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~--~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+.  ..++++.++....+-.++|+|+.|+|||||++.+.+..
T Consensus       680 ~Y~g~~~~iL~dVSl~I~~GeivaIiGpNGSGKSTLLklLaGll  723 (986)
T 2iw3_A          680 QYPGTSKPQITDINFQCSLSSRIAVIGPNGAGKSTLINVLTGEL  723 (986)
T ss_dssp             CCTTCSSCSEEEEEEEEETTCEEEECSCCCHHHHHHHHHHTTSS
T ss_pred             EeCCCCceeeeccEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4543  35788889999999999999999999999999998764

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=94.50  E-value=0.025  Score=46.21  Aligned_cols=22  Identities=18%  Similarity=0.415  Sum_probs=19.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..|+|.|.+||||||+.+.|..
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999864

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=94.49  E-value=0.025  Score=48.66  Aligned_cols=25  Identities=24%  Similarity=0.369  Sum_probs=21.4

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .....|+|+|.+||||||+++.|..
T Consensus        14 ~~~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           14 PKGVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3446899999999999999999864

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=94.48  E-value=0.022  Score=51.80  Aligned_cols=24  Identities=33%  Similarity=0.544  Sum_probs=21.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ++-.|+|+|++||||||+++.+.+
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lag  124 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGR  124 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHH
Confidence            345799999999999999999874

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=94.48  E-value=0.025  Score=52.77  Aligned_cols=30  Identities=30%  Similarity=0.400  Sum_probs=24.9

Q ss_pred             cccccCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           42 DRASLEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        42 ~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .++...++-.|+|+|++||||||++..+.+
T Consensus       150 l~l~~~~g~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          150 LQLGFRKPAVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             CCCCSSSSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             cceecCCCeEEEEEcCCCChHHHHHHHHHh
Confidence            345556677899999999999999999875

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=94.43  E-value=0.023  Score=49.81  Aligned_cols=25  Identities=16%  Similarity=0.222  Sum_probs=20.8

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ...+.|+|.|++|+||||+.+.+..
T Consensus         7 ~~~~~i~i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A            7 SGSLVVAVDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             --CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999999863

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=94.42  E-value=0.0063  Score=55.64  Aligned_cols=23  Identities=26%  Similarity=0.430  Sum_probs=20.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -.++++|++|+|||||++.+.+.
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            35899999999999999999764

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=94.41  E-value=0.019  Score=61.88  Aligned_cols=36  Identities=14%  Similarity=0.254  Sum_probs=33.0

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .++++.+++..++-+++|+|++|+|||||++.+.+-
T Consensus       404 ~vL~~isl~i~~G~~~~ivG~sGsGKSTl~~ll~g~  439 (1284)
T 3g5u_A          404 QILKGLNLKVKSGQTVALVGNSGCGKSTTVQLMQRL  439 (1284)
T ss_dssp             CSEEEEEEEECTTCEEEEECCSSSSHHHHHHHTTTS
T ss_pred             cceecceEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            478899999999999999999999999999988754

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=94.40  E-value=0.024  Score=48.54  Aligned_cols=21  Identities=33%  Similarity=0.392  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .|+|.|++||||||+++.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999864

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=94.39  E-value=0.023  Score=48.35  Aligned_cols=22  Identities=23%  Similarity=0.379  Sum_probs=20.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..|+|+|.+||||||+++.|..
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999864

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=94.38  E-value=0.024  Score=46.49  Aligned_cols=21  Identities=29%  Similarity=0.278  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .|+|.|.+||||||+++.|..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYE   22 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999865

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=94.34  E-value=0.016  Score=46.89  Aligned_cols=25  Identities=20%  Similarity=0.314  Sum_probs=21.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .+--++|+|++|+|||+|++.+.+.
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~   59 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQ   59 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            3456999999999999999998764

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=94.32  E-value=0.026  Score=46.26  Aligned_cols=23  Identities=26%  Similarity=0.278  Sum_probs=20.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +..|+++|.+|+||||+++.|..
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999999865

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=94.30  E-value=0.023  Score=55.30  Aligned_cols=37  Identities=19%  Similarity=0.074  Sum_probs=31.8

Q ss_pred             cCCccccccccc-ccCCCceEEEEcCCCCCHHHHHHHH
Q 040295           33 FGRQEMDSTDRA-SLEKRPGILIIGSSNVGKRTILSRL   69 (289)
Q Consensus        33 ~g~~~~~~~~~~-~~~~~iKI~ilG~~gvGKSSLi~rl   69 (289)
                      .+...+++..+. ...++--++|+|++|||||||++.|
T Consensus        22 ~~g~~~Ld~i~~G~i~~Ge~~~l~G~nGsGKSTL~~~~   59 (525)
T 1tf7_A           22 RTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQF   59 (525)
T ss_dssp             CCCCTTHHHHTTSSEETTSEEEEEESTTSSHHHHHHHH
T ss_pred             cCCchhHHHhcCCCCCCCeEEEEEcCCCCCHHHHHHHH
Confidence            345667777887 8888889999999999999999995

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=94.29  E-value=0.023  Score=47.42  Aligned_cols=23  Identities=17%  Similarity=0.385  Sum_probs=20.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..++|+|++|+|||||+.++...
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~~   27 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVAA   27 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            45899999999999999998753

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=94.27  E-value=0.0081  Score=55.21  Aligned_cols=36  Identities=14%  Similarity=0.278  Sum_probs=28.7

Q ss_pred             cccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           38 MDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        38 ~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      +++..+....++-.++|+|++|+|||||++.+.+--
T Consensus       160 ~l~~l~~~i~~g~~v~i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          160 AISAIKDGIAIGKNVIVCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             HHHHHHHHHHHTCCEEEEESTTSCHHHHHHHGGGGS
T ss_pred             HHhhhhhhccCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            344455666667789999999999999999998654

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=94.27  E-value=0.027  Score=47.61  Aligned_cols=23  Identities=22%  Similarity=0.312  Sum_probs=20.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .+.|+|.|.+||||||+++.|..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999975

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=94.24  E-value=0.029  Score=46.99  Aligned_cols=26  Identities=15%  Similarity=0.047  Sum_probs=22.7

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..++--++|+|++|+|||||+..+..
T Consensus        17 i~~G~~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           17 FAPGVLTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             BCTTSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            44556799999999999999999987

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=94.23  E-value=0.024  Score=49.80  Aligned_cols=21  Identities=24%  Similarity=0.300  Sum_probs=18.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      -|+|+|++|+|||||.+.|..
T Consensus         3 li~I~G~~GSGKSTla~~La~   23 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999999864

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=94.22  E-value=0.027  Score=51.79  Aligned_cols=25  Identities=32%  Similarity=0.485  Sum_probs=22.0

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .++.-|+|+|++||||||+++.+.+
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag  151 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLAN  151 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4567799999999999999999875

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=94.22  E-value=0.027  Score=51.68  Aligned_cols=24  Identities=38%  Similarity=0.241  Sum_probs=20.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcC
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .+-|+|+|++|||||||++.+...
T Consensus        92 p~iigI~GpsGSGKSTl~~~L~~l  115 (321)
T 3tqc_A           92 PYIIGIAGSVAVGKSTTSRVLKAL  115 (321)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            356999999999999999988643

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=94.20  E-value=0.026  Score=46.25  Aligned_cols=22  Identities=36%  Similarity=0.558  Sum_probs=19.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..|+|+|.+||||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3599999999999999999864

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=94.16  E-value=0.034  Score=47.16  Aligned_cols=66  Identities=12%  Similarity=0.006  Sum_probs=46.2

Q ss_pred             eEEEEEEEcCCc-hhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCC
Q 040295           97 TADVSLWMAHLH-EEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLL  165 (289)
Q Consensus        97 ~~~l~I~Dt~G~-e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~  165 (289)
                      .+++.|.|+|+. ...  .....+..+|.+|++...+ ..++..+...+..++.....++.+|.|+.+..
T Consensus        67 ~yD~viiD~p~~~~~~--~~~~~l~~aD~viiv~~~~-~~~~~~~~~~~~~l~~~~~~~~~vv~N~~~~~  133 (209)
T 3cwq_A           67 KYQNIVIDTQARPEDE--DLEALADGCDLLVIPSTPD-ALALDALMLTIETLQKLGNNRFRILLTIIPPY  133 (209)
T ss_dssp             GCSEEEEEEECCCSSS--HHHHHHHTSSEEEEEECSS-HHHHHHHHHHHHHHHHTCSSSEEEEECSBCCT
T ss_pred             cCCEEEEeCCCCcCcH--HHHHHHHHCCEEEEEecCC-chhHHHHHHHHHHHHhccCCCEEEEEEecCCc
Confidence            356889999876 322  1223466799999998865 66777777777777664334577899999874

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=94.15  E-value=0.026  Score=45.55  Aligned_cols=21  Identities=24%  Similarity=0.428  Sum_probs=19.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .|+|.|.+||||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            599999999999999999864

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=94.13  E-value=0.029  Score=49.33  Aligned_cols=22  Identities=32%  Similarity=0.383  Sum_probs=19.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..|+|+|.+||||||+++.+..
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            4699999999999999999875

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=94.12  E-value=0.032  Score=60.13  Aligned_cols=37  Identities=22%  Similarity=0.258  Sum_probs=33.6

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .++++.+++..++-+++|+|++|+|||||++.+.+-.
T Consensus      1047 ~~l~~vsl~i~~Ge~v~ivG~sGsGKSTl~~~l~g~~ 1083 (1284)
T 3g5u_A         1047 PVLQGLSLEVKKGQTLALVGSSGCGKSTVVQLLERFY 1083 (1284)
T ss_dssp             CSBSSCCEEECSSSEEEEECSSSTTHHHHHHHHTTSS
T ss_pred             eeecceeEEEcCCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            4788899999999999999999999999999997643

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=94.12  E-value=0.019  Score=53.83  Aligned_cols=34  Identities=24%  Similarity=0.238  Sum_probs=27.6

Q ss_pred             cccccccccCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           38 MDSTDRASLEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        38 ~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +++..+....++-.++|+|++|+|||||++.+.+
T Consensus       158 ~l~~~~~~i~~~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          158 FLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             HHHHHHHCCTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHhcccccCCCCEEEEECCCCCCHHHHHHHHHh
Confidence            3444456677777899999999999999999875

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=94.12  E-value=0.023  Score=52.81  Aligned_cols=23  Identities=30%  Similarity=0.489  Sum_probs=20.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      =.|+|+|++|+|||||++.+++.
T Consensus       124 g~i~I~GptGSGKTTlL~~l~g~  146 (356)
T 3jvv_A          124 GLVLVTGPTGSGKSTTLAAMLDY  146 (356)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhc
Confidence            36999999999999999998753

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=94.11  E-value=0.019  Score=46.36  Aligned_cols=23  Identities=26%  Similarity=0.452  Sum_probs=20.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -.++|.|++|+|||+|++.+...
T Consensus        44 ~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           44 NNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             CEEEEESCGGGCHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999988754

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=94.10  E-value=0.025  Score=61.10  Aligned_cols=36  Identities=28%  Similarity=0.348  Sum_probs=32.8

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .++++.+++..++-+++|+|++|+|||||++.+.+.
T Consensus       432 ~vL~~isl~i~~G~~vaivG~sGsGKSTll~ll~~~  467 (1321)
T 4f4c_A          432 PILRGMNLRVNAGQTVALVGSSGCGKSTIISLLLRY  467 (1321)
T ss_dssp             CSEEEEEEEECTTCEEEEEECSSSCHHHHHHHHTTS
T ss_pred             ceeeceEEeecCCcEEEEEecCCCcHHHHHHHhccc
Confidence            578889999999999999999999999999998754

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=94.03  E-value=0.026  Score=47.60  Aligned_cols=24  Identities=13%  Similarity=0.267  Sum_probs=20.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcC
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .-.++|.|++|+|||+|++.+...
T Consensus        52 ~~~~ll~G~~G~GKT~la~~l~~~   75 (242)
T 3bos_A           52 VQAIYLWGPVKSGRTHLIHAACAR   75 (242)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            356999999999999999998753

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=93.96  E-value=0.037  Score=47.68  Aligned_cols=29  Identities=24%  Similarity=0.227  Sum_probs=22.5

Q ss_pred             ccccCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           43 RASLEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        43 ~~~~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ......+..|+|+|.+|+||||+.+.+..
T Consensus        10 ~~~~~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           10 DDDKMKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             ----CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             cccccCCcEEEEECCCCCCHHHHHHHHHH
Confidence            34566678899999999999999999874

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=93.96  E-value=0.02  Score=57.33  Aligned_cols=33  Identities=15%  Similarity=0.178  Sum_probs=29.2

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHH
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRL   69 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl   69 (289)
                      .++++.+++..++-.++|+|++|||||||++.+
T Consensus       336 ~~L~~vsl~I~~Ge~vaIiGpnGsGKSTLl~~i  368 (670)
T 3ux8_A          336 HNLKNVSVKIPLGTFVAVTGVSGSGKSTLVNEV  368 (670)
T ss_dssp             TTCCSEEEEEETTSEEEEECSTTSSHHHHHTTT
T ss_pred             cccccceeEecCCCEEEEEeeCCCCHHHHHHHH
Confidence            467788899999999999999999999999753

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=93.92  E-value=0.034  Score=46.99  Aligned_cols=25  Identities=28%  Similarity=0.335  Sum_probs=21.0

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..+.-|+|+|.+|+||||+++.+..
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHH
Confidence            3445799999999999999998864

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=93.90  E-value=0.025  Score=49.50  Aligned_cols=25  Identities=32%  Similarity=0.274  Sum_probs=21.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ....|+++|++||||||+.+.+...
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~   55 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKE   55 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            3467999999999999999998653

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=93.80  E-value=0.031  Score=48.67  Aligned_cols=26  Identities=23%  Similarity=0.245  Sum_probs=18.8

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +..+.-|+|.|++||||||+++++..
T Consensus        22 m~~g~~I~~eG~~GsGKsT~~~~l~~   47 (227)
T 3v9p_A           22 MARGKFITFEGIDGAGKTTHLQWFCD   47 (227)
T ss_dssp             -CCCCEEEEECCC---CHHHHHHHHH
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34567899999999999999999864

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=93.80  E-value=0.033  Score=51.93  Aligned_cols=27  Identities=26%  Similarity=0.404  Sum_probs=22.6

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..++-.|+|+|++|+|||||++.+.+.
T Consensus       133 ~~~g~~i~ivG~~GsGKTTll~~l~~~  159 (372)
T 2ewv_A          133 HRKMGLILVTGPTGSGKSTTIASMIDY  159 (372)
T ss_dssp             TSSSEEEEEECSSSSSHHHHHHHHHHH
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            345557999999999999999998763

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=93.79  E-value=0.034  Score=51.79  Aligned_cols=24  Identities=29%  Similarity=0.535  Sum_probs=21.0

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHh
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~   70 (289)
                      ....||+++|.+|+|||||++++.
T Consensus        31 ~~~~killlG~~~SGKST~~kq~~   54 (362)
T 1zcb_A           31 ARLVKILLLGAGESGKSTFLKQMR   54 (362)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHH
T ss_pred             cCccEEEEECCCCCcHHHHHHHHH
Confidence            446899999999999999999853

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=93.78  E-value=0.031  Score=48.50  Aligned_cols=22  Identities=23%  Similarity=0.555  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .|++.|++|+|||+|++.+.+.
T Consensus        47 ~vll~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           47 GVLMVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECcCCCCHHHHHHHHHHH
Confidence            4999999999999999999754

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=93.77  E-value=0.033  Score=47.40  Aligned_cols=27  Identities=22%  Similarity=0.240  Sum_probs=22.9

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..++--++|+|++|+|||||+..+...
T Consensus        21 i~~G~~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           21 IETGSITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             EETTSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            344567999999999999999999874

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=93.74  E-value=0.036  Score=47.97  Aligned_cols=23  Identities=26%  Similarity=0.543  Sum_probs=18.9

Q ss_pred             Cce-EEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPG-ILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iK-I~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..| |+|+|+|||||+|.+.+|..
T Consensus        28 k~kiI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           28 KAKVIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             SCEEEEEECCTTCCHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            345 56789999999999999874

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=93.74  E-value=0.033  Score=46.45  Aligned_cols=21  Identities=33%  Similarity=0.463  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      -++|.|++|+|||+|++.+..
T Consensus        47 ~~ll~G~~G~GKT~l~~~~~~   67 (250)
T 1njg_A           47 AYLFSGTRGVGKTSIARLLAK   67 (250)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999875

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=93.65  E-value=0.026  Score=51.36  Aligned_cols=24  Identities=29%  Similarity=0.426  Sum_probs=20.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .-++|+|+.|+|||||++.+.+..
T Consensus         5 ~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            5 AVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             cEEEEEecCCCCHHHHHHHHHhhc
Confidence            357899999999999999999653

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=93.65  E-value=0.038  Score=48.12  Aligned_cols=23  Identities=17%  Similarity=0.296  Sum_probs=20.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .+.|+|.|++||||||+.+.|..
T Consensus        22 ~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           22 PFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHH
Confidence            36799999999999999999865

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=93.60  E-value=0.035  Score=45.77  Aligned_cols=22  Identities=23%  Similarity=0.276  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .++|.|++|+|||+|++.+...
T Consensus        40 ~~ll~G~~G~GKT~l~~~l~~~   61 (226)
T 2chg_A           40 HLLFSGPPGTGKTATAIALARD   61 (226)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3999999999999999998753

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=93.55  E-value=0.036  Score=46.12  Aligned_cols=23  Identities=30%  Similarity=0.505  Sum_probs=20.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      --++|.|++|+|||+|+..+...
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~   77 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANE   77 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999988753

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=93.53  E-value=0.044  Score=54.54  Aligned_cols=35  Identities=26%  Similarity=0.375  Sum_probs=28.5

Q ss_pred             ccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           39 DSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        39 ~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ++..++...++-.++|+|+.|+|||||++.+.+..
T Consensus       372 l~~~~~~v~~Gei~~i~G~NGsGKSTLlk~l~Gl~  406 (607)
T 3bk7_A          372 LEVEPGEIRKGEVIGIVGPNGIGKTTFVKMLAGVE  406 (607)
T ss_dssp             EEECCEEEETTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEecccccCCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            33444556778889999999999999999998764

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=93.53  E-value=0.018  Score=56.16  Aligned_cols=32  Identities=19%  Similarity=0.346  Sum_probs=25.5

Q ss_pred             cccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           42 DRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        42 ~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .+.....+-.++|+|++|||||||++.+++--
T Consensus       253 l~~~v~~g~~i~I~GptGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          253 LWLAIEHKFSAIVVGETASGKTTTLNAIMMFI  284 (511)
T ss_dssp             HHHHHHTTCCEEEEESTTSSHHHHHHHHGGGS
T ss_pred             HHHHHhCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34444556679999999999999999998654

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=93.49  E-value=0.033  Score=55.77  Aligned_cols=32  Identities=16%  Similarity=0.214  Sum_probs=29.4

Q ss_pred             CcccccccccccCCCceEEEEcCCCCCHHHHH
Q 040295           35 RQEMDSTDRASLEKRPGILIIGSSNVGKRTIL   66 (289)
Q Consensus        35 ~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi   66 (289)
                      ...++++.+++..++-.++|+|++|||||||+
T Consensus        30 ~~~~L~~vsl~i~~Ge~~~liGpNGaGKSTLl   61 (670)
T 3ux8_A           30 RAHNLKNIDVEIPRGKLVVLTGLSGSGKSSLA   61 (670)
T ss_dssp             CSTTCCSEEEEEETTSEEEEECSTTSSHHHHH
T ss_pred             CccceeccEEEECCCCEEEEECCCCCCHHHHh
Confidence            45678899999999999999999999999996

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=93.25  E-value=0.042  Score=53.88  Aligned_cols=32  Identities=25%  Similarity=0.309  Sum_probs=27.2

Q ss_pred             cccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           42 DRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        42 ~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .++...++-.++|+|++|||||||++.+.+-.
T Consensus       287 ~~~~i~~Gei~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          287 DNGEAKEGEIIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             CCEEEETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             ccceECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34556778889999999999999999998754

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=93.17  E-value=0.047  Score=48.47  Aligned_cols=21  Identities=33%  Similarity=0.455  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .|+|+|.+||||||+.+++..
T Consensus         4 ~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            4 IILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999975

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=93.06  E-value=0.044  Score=52.05  Aligned_cols=25  Identities=32%  Similarity=0.311  Sum_probs=21.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ++=-|+|+|+.|+|||||++.+++.
T Consensus       166 ~ggii~I~GpnGSGKTTlL~allg~  190 (418)
T 1p9r_A          166 PHGIILVTGPTGSGKSTTLYAGLQE  190 (418)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHhh
Confidence            3345899999999999999998864

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=93.04  E-value=0.053  Score=43.76  Aligned_cols=22  Identities=23%  Similarity=0.341  Sum_probs=19.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      -.|+|.|.+||||||+.+.|..
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999999864

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=93.02  E-value=0.047  Score=48.32  Aligned_cols=23  Identities=22%  Similarity=0.457  Sum_probs=20.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      --+++.|++|+|||+|++.+...
T Consensus        55 ~~vll~Gp~GtGKT~la~~la~~   77 (297)
T 3b9p_A           55 KGLLLFGPPGNGKTLLARAVATE   77 (297)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            46999999999999999999764

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=93.01  E-value=0.049  Score=53.31  Aligned_cols=34  Identities=26%  Similarity=0.433  Sum_probs=27.9

Q ss_pred             cccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           40 STDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        40 ~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      +..++...++-.++|+|+.|+|||||++.+.+..
T Consensus       303 ~~~~~~i~~Ge~~~i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          303 EVEPGEIKKGEVIGIVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             EECCEEEETTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EeCccccCCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3344455778889999999999999999998864

>4aby_A DNA repair protein RECN; hydrolase, double strand break repair, ATPase, nucleotide binding domain; HET: DNA; 3.00A {Deinococcus radiodurans}

Probab=93.00  E-value=0.016  Score=54.01  Aligned_cols=33  Identities=18%  Similarity=0.099  Sum_probs=28.8

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHh
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~   70 (289)
                      ..++..+..+.++ .++|+|+.|+|||||++.+.
T Consensus        49 ~~l~~v~l~~~~G-~~~lvG~NGaGKStLl~aI~   81 (415)
T 4aby_A           49 ATITQLELELGGG-FCAFTGETGAGKSIIVDALG   81 (415)
T ss_dssp             TTEEEEEEECCSS-EEEEEESHHHHHHHHTHHHH
T ss_pred             cceeeEEEecCCC-cEEEECCCCCCHHHHHHHHH
Confidence            4567788899999 99999999999999998763

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=92.99  E-value=0.052  Score=46.16  Aligned_cols=26  Identities=23%  Similarity=0.414  Sum_probs=21.0

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..++--++|+|++|+|||||+.++..
T Consensus        20 l~~G~~~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           20 IPERNVVLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             EETTCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            33445689999999999999888764

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=92.98  E-value=0.049  Score=46.93  Aligned_cols=23  Identities=22%  Similarity=0.468  Sum_probs=20.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      --|++.|++|+|||+|++.+...
T Consensus        40 ~~vll~G~~GtGKT~la~~la~~   62 (262)
T 2qz4_A           40 KGALLLGPPGCGKTLLAKAVATE   62 (262)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            45899999999999999999753

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=92.81  E-value=0.051  Score=47.98  Aligned_cols=26  Identities=12%  Similarity=0.157  Sum_probs=22.2

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..++--++|+|++|+|||||+..+..
T Consensus        27 l~~G~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           27 MVAGTVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             ccCCCEEEEEcCCCCCHHHHHHHHHH
Confidence            34556799999999999999999885

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=92.80  E-value=0.068  Score=46.88  Aligned_cols=24  Identities=25%  Similarity=0.454  Sum_probs=20.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcC
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .-.++|.|++|+|||+|++.+...
T Consensus        51 ~~~~ll~G~~GtGKT~la~~la~~   74 (285)
T 3h4m_A           51 PKGILLYGPPGTGKTLLAKAVATE   74 (285)
T ss_dssp             CSEEEEESSSSSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            346999999999999999999754

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=92.72  E-value=0.053  Score=49.06  Aligned_cols=23  Identities=30%  Similarity=0.486  Sum_probs=20.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      --++|.|++|+|||||++.+...
T Consensus        46 ~~vli~G~~G~GKTtl~~~l~~~   68 (386)
T 2qby_A           46 NNIFIYGLTGTGKTAVVKFVLSK   68 (386)
T ss_dssp             CCEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999998763

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=92.68  E-value=0.051  Score=48.97  Aligned_cols=23  Identities=26%  Similarity=0.469  Sum_probs=20.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..+++.|++|+|||++++.+...
T Consensus        59 ~~~ll~G~~G~GKT~la~~la~~   81 (353)
T 1sxj_D           59 PHMLFYGPPGTGKTSTILALTKE   81 (353)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            34999999999999999998754

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=92.66  E-value=0.06  Score=52.33  Aligned_cols=35  Identities=20%  Similarity=0.284  Sum_probs=26.0

Q ss_pred             cccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           36 QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        36 ~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ...+...+.....+  |+|+|++|+|||+|++.+.+.
T Consensus        53 ~~~~~~lg~~ip~G--vLL~GppGtGKTtLaraIa~~   87 (499)
T 2dhr_A           53 PSRFHEMGARIPKG--VLLVGPPGVGKTHLARAVAGE   87 (499)
T ss_dssp             GGGTTTTSCCCCSE--EEEECSSSSSHHHHHHHHHHH
T ss_pred             hhhhhhccCCCCce--EEEECCCCCCHHHHHHHHHHH
Confidence            34444444455544  999999999999999999764

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=92.58  E-value=0.067  Score=42.48  Aligned_cols=24  Identities=17%  Similarity=0.225  Sum_probs=21.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .-|+|.|++|+|||++++.+....
T Consensus        25 ~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A           25 IAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             SCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CCEEEECCCCCCHHHHHHHHHHhC
Confidence            469999999999999999997654

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=92.53  E-value=0.058  Score=48.53  Aligned_cols=23  Identities=30%  Similarity=0.351  Sum_probs=20.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      --++|.|++|+|||+|++.+.+.
T Consensus        38 ~~lll~G~~GtGKT~la~~i~~~   60 (324)
T 1l8q_A           38 NPIFIYGSVGTGKTHLLQAAGNE   60 (324)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            35999999999999999998753

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=92.41  E-value=0.047  Score=49.09  Aligned_cols=23  Identities=30%  Similarity=0.398  Sum_probs=17.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .+.|+|.|++||||||+.+.|..
T Consensus         5 ~~iIgItG~sGSGKSTva~~L~~   27 (290)
T 1a7j_A            5 HPIISVTGSSGAGTSTVKHTFDQ   27 (290)
T ss_dssp             SCEEEEESCC---CCTHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999999864

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=92.36  E-value=0.033  Score=55.18  Aligned_cols=43  Identities=14%  Similarity=0.316  Sum_probs=34.6

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...+++........+-.++|+|++|+|||||++.+.+.-
T Consensus        42 ~i~G~~~~l~~l~~~i~~g~~vll~Gp~GtGKTtlar~ia~~l   84 (604)
T 3k1j_A           42 QVIGQEHAVEVIKTAANQKRHVLLIGEPGTGKSMLGQAMAELL   84 (604)
T ss_dssp             HCCSCHHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHTS
T ss_pred             eEECchhhHhhccccccCCCEEEEEeCCCCCHHHHHHHHhccC
Confidence            4567766766666666677789999999999999999998754

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=92.29  E-value=0.067  Score=47.86  Aligned_cols=23  Identities=17%  Similarity=0.056  Sum_probs=19.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .-+++.|++|+|||+|++.+...
T Consensus        37 ~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           37 LILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            34777799999999999998753

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=92.28  E-value=0.033  Score=50.62  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .+++.|++|+||||+++.+.+.
T Consensus        48 ~~ll~Gp~G~GKTtla~~la~~   69 (340)
T 1sxj_C           48 HLLFYGPPGTGKTSTIVALARE   69 (340)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999998764

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=92.27  E-value=0.069  Score=47.07  Aligned_cols=23  Identities=43%  Similarity=0.697  Sum_probs=20.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -.+++.|++|+|||++++.+...
T Consensus        51 ~~vll~G~~GtGKT~la~~la~~   73 (310)
T 1ofh_A           51 KNILMIGPTGVGKTEIARRLAKL   73 (310)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999998753

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=92.27  E-value=0.091  Score=46.52  Aligned_cols=23  Identities=17%  Similarity=0.317  Sum_probs=19.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ...++|.|++|+|||+|++.+..
T Consensus        67 ~~~vll~G~~GtGKT~la~~la~   89 (309)
T 3syl_A           67 TLHMSFTGNPGTGKTTVALKMAG   89 (309)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            34699999999999999986543

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=92.16  E-value=0.08  Score=43.87  Aligned_cols=21  Identities=29%  Similarity=0.392  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .|+|.|++|+||||+.+.|..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999999865

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=92.13  E-value=0.09  Score=45.18  Aligned_cols=25  Identities=36%  Similarity=0.498  Sum_probs=21.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      +..|+|+|++|+|||+|+..|...-
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhC
Confidence            4569999999999999999998654

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=92.13  E-value=0.071  Score=48.50  Aligned_cols=22  Identities=23%  Similarity=0.463  Sum_probs=20.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -++|.|++|+|||+|++.+...
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~   67 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWEL   67 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5999999999999999998764

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=92.13  E-value=0.091  Score=47.02  Aligned_cols=24  Identities=21%  Similarity=0.432  Sum_probs=20.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcC
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .--|++.|++|+|||+|++.+.+.
T Consensus        49 ~~~vLL~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           49 SKGVLFYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             CSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCcCHHHHHHHHHHH
Confidence            346999999999999999999764

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=92.08  E-value=0.084  Score=52.52  Aligned_cols=37  Identities=16%  Similarity=0.225  Sum_probs=28.1

Q ss_pred             cccccccccCCC-----ceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           38 MDSTDRASLEKR-----PGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        38 ~~~~~~~~~~~~-----iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      .++..++....+     -.++|+|++|+|||||++.+.+-..
T Consensus       362 ~l~~vsl~v~~G~~~~GEiv~iiG~NGsGKSTLlk~l~Gl~~  403 (608)
T 3j16_B          362 TQGDFVLNVEEGEFSDSEILVMMGENGTGKTTLIKLLAGALK  403 (608)
T ss_dssp             ECSSCEEEECCEECCTTCEEEEESCTTSSHHHHHHHHHTSSC
T ss_pred             ccCceEEEEecCccccceEEEEECCCCCcHHHHHHHHhcCCC
Confidence            344455555554     4589999999999999999987653

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=92.06  E-value=0.061  Score=48.69  Aligned_cols=21  Identities=33%  Similarity=0.526  Sum_probs=19.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .++|.|++|+||||+++.+.+
T Consensus        38 ~~ll~Gp~G~GKTtl~~~la~   58 (354)
T 1sxj_E           38 HLLLYGPNGTGKKTRCMALLE   58 (354)
T ss_dssp             CEEEECSTTSSHHHHHHTHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            499999999999999999876

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=92.04  E-value=0.075  Score=46.52  Aligned_cols=23  Identities=17%  Similarity=0.420  Sum_probs=20.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -.+++.|++|+|||+|++.+...
T Consensus        65 ~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           65 VSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHHH
Confidence            46999999999999999999764

>4ido_A Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HET: GDP; 2.09A {Homo sapiens} PDB: 4idn_A* 3q5d_A* 3q5e_A* 4idq_A* 4idp_A* 3qnu_A* 3qof_A*

Probab=91.96  E-value=0.25  Score=47.46  Aligned_cols=62  Identities=15%  Similarity=0.115  Sum_probs=37.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHh---c---------------CCCCC---CCCCCcceEEe--eEEee-cCcceEEEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLL---S---------------VNFED---ASDSSSELLVN--GWTIN-TKYYTADVSLW  103 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~---~---------------~~~~~---~~~~t~~~~~~--~~~i~-~~~~~~~l~I~  103 (289)
                      +..-|.|+|+.++|||+|+|.++   .               ..|..   ....|.|+-..  +..+. ..+....+.+.
T Consensus        66 ~v~vvsv~G~~~~gks~l~N~ll~~~~~~~~~~w~~~~~~~~~gF~~~~~~~~~TkGIWmw~~p~~~~~~~g~~~~vlll  145 (457)
T 4ido_A           66 EVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLM  145 (457)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHHHHHHCTTCTTTTCCTTCCCCSSCCCCSSSCCCCSEEEESSCEEEECTTSCEEEEEEE
T ss_pred             ceEEEEEECCCCCchhHHHHHHHHHhhcccccccccccccCCCCceeCCCCCCcCceEEEecCcccccCCCCCeeEEEEE
Confidence            34557799999999999999554   1               22321   12224443221  11121 25566789999


Q ss_pred             EcCCch
Q 040295          104 MAHLHE  109 (289)
Q Consensus       104 Dt~G~e  109 (289)
                      ||.|..
T Consensus       146 DTEG~~  151 (457)
T 4ido_A          146 DTQGTF  151 (457)
T ss_dssp             EECCBT
T ss_pred             eccCCC
Confidence            999864

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=91.88  E-value=0.079  Score=46.90  Aligned_cols=22  Identities=27%  Similarity=0.552  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -+++.|++|+|||++++.+...
T Consensus        49 ~~ll~G~~GtGKt~la~~la~~   70 (311)
T 4fcw_A           49 SFLFLGPTGVGKTELAKTLAAT   70 (311)
T ss_dssp             EEEEESCSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHHH
Confidence            5999999999999999998764

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=91.74  E-value=0.12  Score=48.77  Aligned_cols=24  Identities=21%  Similarity=0.332  Sum_probs=20.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcC
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..-|+|+|.+||||||+++++...
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~~  281 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLVS  281 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTGG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh
Confidence            345889999999999999999753

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=91.67  E-value=0.094  Score=46.80  Aligned_cols=22  Identities=32%  Similarity=0.531  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -++|.|+.|+|||||++.+...
T Consensus        33 ~v~i~G~~G~GKT~Ll~~~~~~   54 (350)
T 2qen_A           33 LTLLLGIRRVGKSSLLRAFLNE   54 (350)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCcCCHHHHHHHHHHH
Confidence            5899999999999999999754

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=91.65  E-value=0.11  Score=41.91  Aligned_cols=19  Identities=42%  Similarity=0.718  Sum_probs=17.4

Q ss_pred             EEEEcCCCCCHHHHHHHHh
Q 040295           52 ILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~   70 (289)
                      .+|+|+.|+|||||+..+.
T Consensus        26 ~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6889999999999999875

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=91.57  E-value=0.1  Score=43.95  Aligned_cols=25  Identities=24%  Similarity=0.208  Sum_probs=21.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .-..|+|.|.+||||||+.+.|...
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHh
Confidence            3467999999999999999999754

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=91.56  E-value=0.075  Score=48.13  Aligned_cols=23  Identities=22%  Similarity=0.375  Sum_probs=20.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      --++|.|++|+|||+|++.+...
T Consensus        45 ~~vll~G~~G~GKT~l~~~~~~~   67 (387)
T 2v1u_A           45 SNALLYGLTGTGKTAVARLVLRR   67 (387)
T ss_dssp             CCEEECBCTTSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999998753

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=91.54  E-value=0.066  Score=46.82  Aligned_cols=24  Identities=29%  Similarity=0.318  Sum_probs=20.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +...|+|.|..||||||+++.|..
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~   46 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQ   46 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999998864

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=91.52  E-value=0.089  Score=46.99  Aligned_cols=22  Identities=23%  Similarity=0.341  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -++|.|++|+|||+|++.+...
T Consensus        32 ~v~i~G~~G~GKT~L~~~~~~~   53 (357)
T 2fna_A           32 ITLVLGLRRTGKSSIIKIGINE   53 (357)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHh
Confidence            6899999999999999999754

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=91.49  E-value=0.097  Score=48.40  Aligned_cols=22  Identities=23%  Similarity=0.326  Sum_probs=19.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .-|+|+|++|||||||...+..
T Consensus         8 ~lI~I~GptgSGKTtla~~La~   29 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAK   29 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHH
Confidence            3589999999999999999875

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=91.44  E-value=0.12  Score=46.65  Aligned_cols=114  Identities=15%  Similarity=0.096  Sum_probs=59.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcC-----CCC------CCCCCCc-----------ceEEeeEE--------eecCcce
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSV-----NFE------DASDSSS-----------ELLVNGWT--------INTKYYT   97 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~-----~~~------~~~~~t~-----------~~~~~~~~--------i~~~~~~   97 (289)
                      .+-.|+|+|++||||||++..+...     ...      +.+..+.           +.......        +. .-..
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~~~~~l~~al~-~~~~  182 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTDTYRIAAVEQLKTYAELLQAPLEVCYTKEEFQQAKE-LFSE  182 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECCCSSTTHHHHHHHHHTTTTCCCCBCSSHHHHHHHHH-HGGG
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecCcccchHHHHHHHHHHhcCCCeEecCCHHHHHHHHH-HhcC
Confidence            3457999999999999999987631     100      0011110           00000000        00 0123


Q ss_pred             EEEEEEEcCCchhhhc-cc---ccccc--CccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295           98 ADVSLWMAHLHEEFSI-RS---LPISD--QLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        98 ~~l~I~Dt~G~e~~~~-~~---~~~~~--~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      +++.|.||+|...... ..   ...+.  ..+.+++|.|.+..  ...+..+...+...  ...-+|.||.|...
T Consensus       183 ~dlvIiDT~G~~~~~~~~~~el~~~l~~~~~~~~~lVl~at~~--~~~~~~~~~~~~~l--~~~giVltk~D~~~  253 (296)
T 2px0_A          183 YDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFLVLSATAK--YEDMKHIVKRFSSV--PVNQYIFTKIDETT  253 (296)
T ss_dssp             SSEEEEECCCCCTTSHHHHHHHHHHSCCCTTEEEEEEEETTBC--HHHHHHHTTTTSSS--CCCEEEEECTTTCS
T ss_pred             CCEEEEeCCCCChhhHHHHHHHHHHHhhcCCCeEEEEEECCCC--HHHHHHHHHHHhcC--CCCEEEEeCCCccc
Confidence            5689999998653321 11   01222  36788899987643  34444444444322  22334569999853

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=91.43  E-value=0.095  Score=48.34  Aligned_cols=30  Identities=17%  Similarity=0.233  Sum_probs=25.1

Q ss_pred             cccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           44 ASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        44 ~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .....+--+.|+|++|+|||||+..+...-
T Consensus       126 ggi~~G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          126 GGIETQAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             SSEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            445566679999999999999999998753

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=91.41  E-value=0.1  Score=48.34  Aligned_cols=28  Identities=11%  Similarity=0.271  Sum_probs=22.6

Q ss_pred             cccccCCCceEEEEcCCCCCHHHHHHHHh
Q 040295           42 DRASLEKRPGILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        42 ~~~~~~~~iKI~ilG~~gvGKSSLi~rl~   70 (289)
                      .+.....++ ++|+|+.|+|||||++.+.
T Consensus        17 ~~i~~~~g~-~~i~G~NGaGKTTll~ai~   44 (365)
T 3qf7_A           17 VDIEFQSGI-TVVEGPNGAGKSSLFEAIS   44 (365)
T ss_dssp             EEEECCSEE-EEEECCTTSSHHHHHHHHH
T ss_pred             eEEecCCCe-EEEECCCCCCHHHHHHHHH
Confidence            345556675 6699999999999999976

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=91.40  E-value=0.094  Score=47.60  Aligned_cols=23  Identities=26%  Similarity=0.498  Sum_probs=20.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      --|++.|++|+|||+|++.+...
T Consensus        46 ~~iLL~GppGtGKT~la~ala~~   68 (322)
T 1xwi_A           46 RGILLFGPPGTGKSYLAKAVATE   68 (322)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHH
Confidence            46999999999999999999764

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=91.39  E-value=0.075  Score=45.90  Aligned_cols=21  Identities=19%  Similarity=0.346  Sum_probs=18.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .++|.||+|+|||+++..+..
T Consensus        60 ~ili~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           60 CLVFCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             EEEEESCGGGCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            599999999999999888764

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=91.38  E-value=0.093  Score=47.71  Aligned_cols=23  Identities=26%  Similarity=0.436  Sum_probs=20.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      --++|.|++|+|||+|++.+...
T Consensus        71 ~~vLl~GppGtGKT~la~~la~~   93 (368)
T 3uk6_A           71 RAVLIAGQPGTGKTAIAMGMAQA   93 (368)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            36999999999999999998754

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=91.35  E-value=0.1  Score=48.46  Aligned_cols=22  Identities=27%  Similarity=0.552  Sum_probs=20.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHh
Q 040295           49 RPGILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~   70 (289)
                      .+||+++|.+++|||||++++.
T Consensus         9 ~~k~lllG~~~sGKsT~~kq~~   30 (354)
T 2xtz_A            9 IRKLLLLGAGESGKSTIFKQIK   30 (354)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHH
T ss_pred             ceeEEEECCCCCcHHHHHHHHH
Confidence            4799999999999999999865

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=91.35  E-value=0.11  Score=47.77  Aligned_cols=21  Identities=24%  Similarity=0.518  Sum_probs=19.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .|+|+|++|||||||...+..
T Consensus         7 ~i~i~GptGsGKTtla~~La~   27 (323)
T 3crm_A            7 AIFLMGPTAAGKTDLAMALAD   27 (323)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999875

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=91.32  E-value=0.13  Score=46.74  Aligned_cols=25  Identities=28%  Similarity=0.397  Sum_probs=20.7

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ...--|+|+|++|+||||++..+..
T Consensus       102 ~~~~vi~ivG~~GsGKTTl~~~LA~  126 (306)
T 1vma_A          102 EPPFVIMVVGVNGTGKTTSCGKLAK  126 (306)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHH
Confidence            3444689999999999999998874

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=91.32  E-value=0.12  Score=44.40  Aligned_cols=23  Identities=30%  Similarity=0.356  Sum_probs=20.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..|+|.|..||||||+++.+...
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~   25 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            46999999999999999998753

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=91.28  E-value=0.12  Score=43.37  Aligned_cols=22  Identities=36%  Similarity=0.456  Sum_probs=19.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +.|+|.|++|+||||+.+.+..
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~   25 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVAS   25 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998865

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=91.25  E-value=0.1  Score=47.17  Aligned_cols=23  Identities=26%  Similarity=0.492  Sum_probs=20.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -.|++.|++|+|||+|++.+...
T Consensus        52 ~~vLl~GppGtGKT~la~aia~~   74 (322)
T 3eie_A           52 SGILLYGPPGTGKSYLAKAVATE   74 (322)
T ss_dssp             CEEEEECSSSSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            46999999999999999999754

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=91.19  E-value=0.064  Score=42.55  Aligned_cols=23  Identities=9%  Similarity=0.137  Sum_probs=19.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..|+|.|++|+|||++++.+...
T Consensus        28 ~~vll~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A           28 SPVFLTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             SCEEEEEETTCCHHHHHGGGCCT
T ss_pred             CcEEEECCCCccHHHHHHHHHHh
Confidence            45999999999999999988644

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=91.11  E-value=0.16  Score=43.77  Aligned_cols=25  Identities=32%  Similarity=0.280  Sum_probs=21.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .+.-|+|.|.+|+||||+++.+...
T Consensus         4 ~g~~i~~eG~~g~GKst~~~~l~~~   28 (216)
T 3tmk_A            4 RGKLILIEGLDRTGKTTQCNILYKK   28 (216)
T ss_dssp             CCCEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4567999999999999999998653

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=91.10  E-value=0.05  Score=47.38  Aligned_cols=21  Identities=19%  Similarity=0.466  Sum_probs=19.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040295           52 ILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~~   72 (289)
                      +++.|++|+|||+|++.+...
T Consensus        47 vll~G~~GtGKT~la~~la~~   67 (268)
T 2r62_A           47 VLLVGPPGTGKTLLAKAVAGE   67 (268)
T ss_dssp             CCCBCSSCSSHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            889999999999999998763

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=91.09  E-value=0.12  Score=47.46  Aligned_cols=22  Identities=27%  Similarity=0.326  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -|+|+||+|||||+|...+...
T Consensus         5 ~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEECCCcCCHHHHHHHHHHh
Confidence            4889999999999999999754

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=91.05  E-value=0.11  Score=46.82  Aligned_cols=23  Identities=26%  Similarity=0.356  Sum_probs=20.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..|+|.|++|+|||+|++.+...
T Consensus        56 ~~vll~G~~GtGKT~la~~ia~~   78 (338)
T 3pfi_A           56 DHILFSGPAGLGKTTLANIISYE   78 (338)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            35999999999999999999654

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=91.02  E-value=0.11  Score=47.35  Aligned_cols=22  Identities=18%  Similarity=0.339  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -++|.|++|+|||+|++.+...
T Consensus        47 ~vll~G~~G~GKT~la~~l~~~   68 (384)
T 2qby_B           47 SNLFLGLTGTGKTFVSKYIFNE   68 (384)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999998753

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=91.02  E-value=0.11  Score=48.98  Aligned_cols=25  Identities=20%  Similarity=0.247  Sum_probs=21.1

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHh
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~   70 (289)
                      +.++--++|+|++|+|||||+..+.
T Consensus       175 I~~Gei~~I~G~sGsGKTTLl~~la  199 (400)
T 3lda_A          175 VETGSITELFGEFRTGKSQLCHTLA  199 (400)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHH
T ss_pred             cCCCcEEEEEcCCCCChHHHHHHHH
Confidence            3445569999999999999999875

>2o5v_A DNA replication and repair protein RECF; ABC ATPase, walker A motif, P-loop, signature motif, replication/recombination complex; HET: DNA; 1.61A {Deinococcus radiodurans}

Probab=90.95  E-value=0.11  Score=48.16  Aligned_cols=32  Identities=16%  Similarity=0.157  Sum_probs=26.1

Q ss_pred             ccccccccCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           39 DSTDRASLEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        39 ~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .+..+....++ -++|+|+.|+|||||++.+..
T Consensus        17 ~~~~~~~~~~g-~~~i~G~nG~GKttll~ai~~   48 (359)
T 2o5v_A           17 LAPGTLNFPEG-VTGIYGENGAGKTNLLEAAYL   48 (359)
T ss_dssp             CCSEEEECCSE-EEEEECCTTSSHHHHHHHHHH
T ss_pred             eeeeEEEEcCC-eEEEECCCCCChhHHHHHHHH
Confidence            34456677777 689999999999999999874

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=90.95  E-value=0.13  Score=47.60  Aligned_cols=22  Identities=18%  Similarity=0.380  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -|+|+|++|||||+|...|...
T Consensus        42 lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           42 LLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999753

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=90.93  E-value=0.076  Score=52.25  Aligned_cols=27  Identities=22%  Similarity=0.257  Sum_probs=23.0

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..++..|+|+|++|||||||++.+.+.
T Consensus       366 ~~~G~iI~LiG~sGSGKSTLar~La~~  392 (552)
T 3cr8_A          366 ERQGFTVFFTGLSGAGKSTLARALAAR  392 (552)
T ss_dssp             GGSCEEEEEEESSCHHHHHHHHHHHHH
T ss_pred             cccceEEEEECCCCChHHHHHHHHHHh
Confidence            445677999999999999999998754

---

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	289
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	1e-07
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	4e-07
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	9e-07
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	1e-06
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	2e-06
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	3e-06
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	5e-06
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	5e-06
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	5e-06
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	7e-06
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	9e-06
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	1e-05
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	2e-05
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	3e-05
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	4e-05
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	5e-05
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	6e-05
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	2e-04
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	2e-04
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	3e-04
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	4e-04
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	8e-04
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	9e-04
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	0.001
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	0.001
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	0.001
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	0.002
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	0.002
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	0.002
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	0.002
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	0.002
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	0.002
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	0.003
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	0.003
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	0.003
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	0.003
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	0.003
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	0.004

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]} Length = 175

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]

 Score = 48.7 bits (115), Expect = 1e-07
 Identities = 25/124 (20%), Positives = 50/124 (40%), Gaps = 2/124 (1%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           +++IG S VGK  +LSR     F   S S+  +     +I     T    +W     E +
Sbjct: 7   VVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERY 66

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHP 169
              +          ++V+++    T + ++ W+  +        +++ +GNK DL     
Sbjct: 67  RRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRA 126

Query: 170 VHAE 173
           V  +
Sbjct: 127 VPTD 130

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]} Length = 164

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]

 Score = 46.9 bits (110), Expect = 4e-07
 Identities = 32/142 (22%), Positives = 60/142 (42%), Gaps = 7/142 (4%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++ +G  +VGK ++++R +  +F++   ++  +     T+  +  T  + LW     E F
Sbjct: 3   LVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERF 62

Query: 112 -SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCI-GNKVDLLPGHP 169
            S+    I D   A+V+    N  S     K        +  ++++ + GNK DL     
Sbjct: 63  RSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQ 122

Query: 170 VHAEYRRRLLKRE-----ESSA 186
           V  E   R  K       E+SA
Sbjct: 123 VSIEEGERKAKELNVMFIETSA 144

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]} Length = 173

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]

 Score = 45.9 bits (108), Expect = 9e-07
 Identities = 20/97 (20%), Positives = 42/97 (43%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           +L+IG S VGK  +L R     F     S+  +     TI        + +W     E F
Sbjct: 9   LLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERF 68

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSID 148
              +         +++V+++ +  + D +++W+ +I+
Sbjct: 69  RTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIE 105

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]} Length = 207

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]

 Score = 46.2 bits (108), Expect = 1e-06
 Identities = 33/216 (15%), Positives = 73/216 (33%), Gaps = 19/216 (8%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           +L +G  + GK  +  RLL+  + D   S ++        N +  +  +     H    F
Sbjct: 3   VLFVGLCDSGKTLLFVRLLTGQYRDTQTSITDSSAIYKVNNNRGNSLTLIDLPGHESLRF 62

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI-----DLQKFEILLCIGNKVDLLP 166
            +     S     + +V +      +  +  ++  +      L+    LL   NK D+  
Sbjct: 63  QLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAM 122

Query: 167 GHPVHAEYRRRLLKRE---ESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTE 223
                 +  ++ L++E             +  S +   + LG +   +E           
Sbjct: 123 AKSA--KLIQQQLEKELNTLRVTRSAAPSTLDSSSTAPAQLGKKGKEFEFS------QLP 174

Query: 224 HRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALS 259
            ++E++E  A     D       D Q +E+    ++
Sbjct: 175 LKVEFLECSAKGGRGDT---GSADIQDLEKWLAKIA 207

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

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]

 Score = 44.8 bits (105), Expect = 2e-06
 Identities = 21/93 (22%), Positives = 41/93 (44%), Gaps = 2/93 (2%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           IL+IG S VGK  +L R +   F  +  ++  +     T++       + +W     E F
Sbjct: 5   ILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERF 64

Query: 112 -SIRSLPISDQLTALVMVFNLNDLSTLDALKHW 143
            +I +         +++V+++ D  T   +K W
Sbjct: 65  RTITTAYYRGA-MGIILVYDITDERTFTNIKQW 96

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

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]

 Score = 44.1 bits (103), Expect = 3e-06
 Identities = 19/92 (20%), Positives = 39/92 (42%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
            L+IG++  GK  +L + +   F+D S+ +  +      IN       + +W     E F
Sbjct: 8   FLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERF 67

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHW 143
              +          ++V+++    T +AL +W
Sbjct: 68  RSVTRSYYRGAAGALLVYDITSRETYNALTNW 99

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 194

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]

 Score = 44.1 bits (103), Expect = 5e-06
 Identities = 32/169 (18%), Positives = 61/169 (36%), Gaps = 9/169 (5%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           +L+IG+S VGK  +L R     + +   S+  +     T+     T  + +W     E F
Sbjct: 9   LLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERF 68

Query: 112 -SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPV 170
            +I S         +++V+++ D  + + +K W+  ID      +L +            
Sbjct: 69  RTITSSYYRGS-HGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKR 127

Query: 171 HAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLE 219
             EY       + +    D  +    ET        E+    + R   E
Sbjct: 128 VVEY-------DVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKE 169

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]} Length = 177

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]

 Score = 43.7 bits (102), Expect = 5e-06
 Identities = 22/92 (23%), Positives = 40/92 (43%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ILIIG S VGK ++L R     F+    ++  +     TI+     A +++W     E F
Sbjct: 10  ILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERF 69

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHW 143
              +         +++V+++    T   L +W
Sbjct: 70  RTLTPSYYRGAQGVILVYDVTRRDTFVKLDNW 101

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 170

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]

 Score = 43.5 bits (101), Expect = 5e-06
 Identities = 16/92 (17%), Positives = 40/92 (43%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++++G + VGK +I+ R +S +F +  + +         +    +T    +W     E F
Sbjct: 6   LVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERF 65

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHW 143
           +  +        A ++V+++    +    +HW
Sbjct: 66  ASLAPMYYRNAQAALVVYDVTKPQSFIKARHW 97

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]} Length = 166

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]

 Score = 42.9 bits (100), Expect = 7e-06
 Identities = 29/142 (20%), Positives = 50/142 (35%), Gaps = 7/142 (4%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
            +IIG   VGK  +L +     F      +  +      I        + +W     E F
Sbjct: 7   YIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERF 66

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSI--DLQKFEILLCIGNKVDLLPGHP 169
              +          +MV+++   ST + L  W+           +++ IGNK DL     
Sbjct: 67  RAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRD 126

Query: 170 VHAEYRRRLLKRE-----ESSA 186
           V  E  ++  +       E+SA
Sbjct: 127 VTYEEAKQFAEENGLLFLEASA 148

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]} Length = 179

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]

 Score = 43.1 bits (100), Expect = 9e-06
 Identities = 21/137 (15%), Positives = 45/137 (32%), Gaps = 6/137 (4%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           I+++G S  GK  +L       F +    +                       +      
Sbjct: 5   IVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYD 64

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQ--KFEILLCIGNKVDLLPGHP 169
           ++R L   D    L+  F+++   TLD++         +      +L +G K DL     
Sbjct: 65  NVRPLSYPDSDAVLIC-FDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVS 123

Query: 170 V---HAEYRRRLLKREE 183
                + +R+  +  ++
Sbjct: 124 TLVELSNHRQTPVSYDQ 140

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]} Length = 167

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]

 Score = 42.6 bits (99), Expect = 1e-05
 Identities = 31/142 (21%), Positives = 59/142 (41%), Gaps = 7/142 (4%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++++GS  VGK  +  + ++  F +  D + E             +    L  A   +  
Sbjct: 6   VVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFA 65

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHP 169
           S+R L I +    +++   +N  S  D        I ++++E   ++ +GNKVDL     
Sbjct: 66  SMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESERE 125

Query: 170 VHAEYRRRLLKRE-----ESSA 186
           V +   R L +       E+SA
Sbjct: 126 VSSSEGRALAEEWGCPFMETSA 147

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]} Length = 183

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]

 Score = 42.3 bits (98), Expect = 2e-05
 Identities = 16/125 (12%), Positives = 40/125 (32%), Gaps = 3/125 (2%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
            +++G   VGK  +L    +  F      +         +       ++ LW     E++
Sbjct: 8   CVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQEDY 66

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHP 169
                    Q    ++ F+L   ++ + ++               ++ +G K+DL     
Sbjct: 67  DRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKD 126

Query: 170 VHAEY 174
              + 
Sbjct: 127 TIEKL 131

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]} Length = 191

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]

 Score = 41.9 bits (97), Expect = 3e-05
 Identities = 16/115 (13%), Positives = 37/115 (32%), Gaps = 3/115 (2%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
            +++G   VGK  +L    +  F      +         +        + L+     E++
Sbjct: 6   CVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPY-TLGLFDTAGQEDY 64

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDL 164
                    Q    ++ F++   S+ + +K                L +G ++DL
Sbjct: 65  DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDL 119

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]} Length = 167

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]

 Score = 41.1 bits (95), Expect = 4e-05
 Identities = 24/142 (16%), Positives = 52/142 (36%), Gaps = 7/142 (4%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++++G   VGK +++ R     F D   ++         +N      ++++W     E F
Sbjct: 6   VVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERF 65

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCI--GNKVDLLPGHP 169
                         ++V+++ D  +   +K+WV  +       +     GNK+DL     
Sbjct: 66  HALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERH 125

Query: 170 VHAEYRRRLLKRE-----ESSA 186
           V  +      +        +SA
Sbjct: 126 VSIQEAESYAESVGAKHYHTSA 147

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]} Length = 166

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]

 Score = 40.7 bits (94), Expect = 5e-05
 Identities = 22/115 (19%), Positives = 46/115 (40%), Gaps = 4/115 (3%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++++G+  VGK  +  +L+  +F D  D + E       +          L  A   E  
Sbjct: 6   LVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYS 65

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFE---ILLCIGNKVD 163
           ++R   +       + VF +N+  + + +  +   I   K      ++ +GNK D
Sbjct: 66  AMRDQYMRTG-EGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD 119

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]} Length = 165

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]

 Score = 40.4 bits (93), Expect = 6e-05
 Identities = 29/155 (18%), Positives = 60/155 (38%), Gaps = 9/155 (5%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           I++IG SNVGK  +  R  +  F D ++++  +      ++       + LW     E F
Sbjct: 5   IIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERF 64

Query: 112 SIRSLPIS-DQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFE---ILLCIGNKVDLLPG 167
               +      + A+V V+++ ++++  +L  W+              + +GNK DL   
Sbjct: 65  RKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSA 124

Query: 168 HPVHAEYRRRLLKRE-----ESSADPDFCQSGISE 197
             V  +  ++          E+SA        +  
Sbjct: 125 IQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEA 159

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

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]

 Score = 39.2 bits (90), Expect = 2e-04
 Identities = 23/162 (14%), Positives = 58/162 (35%), Gaps = 9/162 (5%)

Query: 45  SLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWM 104
           S++++  ++++G   VGK  +  + +   F    D + E       +          L  
Sbjct: 1   SMQEKYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDT 60

Query: 105 AHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDL 164
           A   E  ++R   +      L++    +  S  +  K     + ++  +    I      
Sbjct: 61  AGQEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMI------ 114

Query: 165 LPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD 206
           L G+    +++R++ + E         Q  ++  E S+ +  
Sbjct: 115 LIGNKADLDHQRQVTQEEG---QQLARQLKVTYMEASAKIRM 153

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

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]

 Score = 39.0 bits (90), Expect = 2e-04
 Identities = 15/93 (16%), Positives = 31/93 (33%), Gaps = 1/93 (1%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           I++IG++ VGK  ++ R     F     ++  +     T+        + +W     E F
Sbjct: 8   IVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERF 67

Query: 112 -SIRSLPISDQLTALVMVFNLNDLSTLDALKHW 143
            SI           ++      + S     +  
Sbjct: 68  RSITQSYYRSANALILTYDITCEESFRCLPEWL 100

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

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]

 Score = 38.3 bits (88), Expect = 3e-04
 Identities = 20/78 (25%), Positives = 34/78 (43%), Gaps = 1/78 (1%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ILIIG+S+VGK + L R    +F  A  S+  +     TI        + +W     E +
Sbjct: 8   ILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERY 67

Query: 112 -SIRSLPISDQLTALVMV 128
            +I +      +  ++M 
Sbjct: 68  RTITTAYYRGAMGFILMY 85

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

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]

 Score = 38.4 bits (88), Expect = 4e-04
 Identities = 23/198 (11%), Positives = 58/198 (29%), Gaps = 28/198 (14%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLH--- 108
           +L++G+   GK T + ++  ++                T     Y  D+   +  +    
Sbjct: 5   LLLLGTGESGKSTFIKQMRIIHGSGVP-----------TTGIIEYPFDLQSVIFRMVDVG 53

Query: 109 --EEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP 166
                  + +   + +T+++ +  L++   +         ++  K      I        
Sbjct: 54  GQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNS 113

Query: 167 GHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSC---LEWCTE 223
              +    +  L ++   S   D+               D + + E        L   ++
Sbjct: 114 SVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQR------DAQAAREFILKMFVDLNPDSD 167

Query: 224 HRIEYIEACA---SNVDF 238
             I     CA    N+ F
Sbjct: 168 KIIYSHFTCATDTENIRF 185

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]} Length = 168

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]

 Score = 37.2 bits (85), Expect = 8e-04
 Identities = 23/145 (15%), Positives = 55/145 (37%), Gaps = 13/145 (8%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++++GS  VGK  +  + +   F +  + +     + +         +V + +     + 
Sbjct: 7   VIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA---DSYRKKVVLDGEEVQIDILDTAGQE 63

Query: 112 SIRSLPISDQLTA--LVMVFNLNDLSTLDALKHWVPSIDLQKFE---ILLCIGNKVDLLP 166
              ++  +   +    + VF++ ++ +  A   +   I   K +     L +GNK DL  
Sbjct: 64  DYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLED 123

Query: 167 GHPVHAEYRRRLLKRE-----ESSA 186
              V  E  +    +      E+SA
Sbjct: 124 KRQVSVEEAKNRADQWNVNYVETSA 148

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]} Length = 170

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]

 Score = 36.9 bits (84), Expect = 9e-04
 Identities = 23/139 (16%), Positives = 55/139 (39%), Gaps = 4/139 (2%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLH-EE 110
           ++++G    GK T + R L+  FE    ++  + V+    +T       ++W      + 
Sbjct: 6   LVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKF 65

Query: 111 FSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDL---LPG 167
             +R         A++M    + ++  +        + + +   ++  GNKVD+      
Sbjct: 66  GGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRKVK 125

Query: 168 HPVHAEYRRRLLKREESSA 186
                 +R++ L+  + SA
Sbjct: 126 AKSIVFHRKKNLQYYDISA 144

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]} Length = 173

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]

 Score = 36.8 bits (84), Expect = 0.001
 Identities = 26/126 (20%), Positives = 46/126 (36%), Gaps = 4/126 (3%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWM-AHLHEE 110
            +IIG + VGK  +L +     F+   D +  +      +N       + +W  A     
Sbjct: 6   YIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESF 65

Query: 111 FSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGH 168
            SI            ++V+++    T + L  W+           +++ IGNK DL    
Sbjct: 66  RSITRSYYRGAA-GALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRR 124

Query: 169 PVHAEY 174
            V  E 
Sbjct: 125 DVKREE 130

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

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]

 Score = 36.9 bits (84), Expect = 0.001
 Identities = 19/131 (14%), Positives = 48/131 (36%), Gaps = 6/131 (4%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++++G   VGK ++++R ++  F+     +  +      +    +   + +W     E F
Sbjct: 9   VILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERF 68

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFE------ILLCIGNKVDLL 165
                P        ++ F+++D  +   L +W                  + +GNK+D+ 
Sbjct: 69  RSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS 128

Query: 166 PGHPVHAEYRR 176
                  E + 
Sbjct: 129 ERQVSTEEAQA 139

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]} Length = 170

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]

 Score = 36.4 bits (83), Expect = 0.001
 Identities = 16/93 (17%), Positives = 39/93 (41%), Gaps = 1/93 (1%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNF-EDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEE 110
           ++++G S VGK  +L R     F      S+  +      ++       + +W     E 
Sbjct: 9   VMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQER 68

Query: 111 FSIRSLPISDQLTALVMVFNLNDLSTLDALKHW 143
           F   +        AL++++++ + ++ D ++ W
Sbjct: 69  FRSVTHAYYRDAHALLLLYDVTNKASFDNIQAW 101

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]} 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: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.5 bits (83), Expect = 0.002
 Identities = 15/115 (13%), Positives = 39/115 (33%), Gaps = 3/115 (2%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
            +++G   VGK  +L    +  F +     +       ++        + L+     E++
Sbjct: 12  CVVVGDGAVGKTCLLMSYANDAFPE-EYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDY 70

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDL 164
                         ++ F++ + ++   +K        +       L IG ++DL
Sbjct: 71  DRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDL 125

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]} Length = 170

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]

 Score = 36.2 bits (82), Expect = 0.002
 Identities = 22/142 (15%), Positives = 47/142 (33%), Gaps = 7/142 (4%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++++G S VGK +++ R +   F +  +S+        T+     T    +W     E +
Sbjct: 9   LVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERY 68

Query: 112 S-IRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPV 170
             +  +       A+V+    N+ S   A              I++ +      L     
Sbjct: 69  HSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRA 128

Query: 171 HAEYRRRLLKRE------ESSA 186
                 +    +      E+SA
Sbjct: 129 VDFQEAQSYADDNSLLFMETSA 150

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]} Length = 169

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]

 Score = 36.2 bits (82), Expect = 0.002
 Identities = 24/142 (16%), Positives = 50/142 (35%), Gaps = 7/142 (4%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++++G   VGK  +  +     F    D + E      T     +     L  A   E  
Sbjct: 7   LVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFS 66

Query: 112 SIRSL--PISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHP 169
           ++R       D    +  V +      +D     +  +  ++   ++ + NKVDL+    
Sbjct: 67  AMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRK 126

Query: 170 VHAEYRRRLLKRE-----ESSA 186
           V  +  + +  +      E+SA
Sbjct: 127 VTRDQGKEMATKYNIPYIETSA 148

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]} Length = 167

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]

 Score = 35.7 bits (81), Expect = 0.002
 Identities = 30/144 (20%), Positives = 56/144 (38%), Gaps = 10/144 (6%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++++GS  VGK  +  + +   F +  D + E                  L  A   +  
Sbjct: 6   LVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFT 65

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFE---ILLCIGNKVDLLPGH 168
           ++R L + +      +V+++   ST + L+     I   K      ++ +GNK DL    
Sbjct: 66  AMRDLYMKNG-QGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDER 124

Query: 169 PVHAEYRRRLLKRE------ESSA 186
            V  E  + L ++       ESSA
Sbjct: 125 VVGKEQGQNLARQWCNCAFLESSA 148

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

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]

 Score = 35.8 bits (81), Expect = 0.002
 Identities = 25/177 (14%), Positives = 54/177 (30%), Gaps = 17/177 (9%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           +L +G  N GK T+L  L +        +           N K+ T     +    H + 
Sbjct: 3   LLFLGLDNAGKTTLLHMLKNDRLATLQPTWHPTSEELAIGNIKFTT-----FDLGGHIQA 57

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHP 169
                    ++  +V + +  D    D  +  + ++       ++   I       P   
Sbjct: 58  RRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAV 117

Query: 170 VHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD--EEPSWEIRRSCLEWCTEH 224
             AE R  L     + +     Q  +     S ++ +   E          +W +++
Sbjct: 118 SEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLE--------AFQWLSQY 166

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]} 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: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 35.8 bits (81), Expect = 0.002
 Identities = 25/146 (17%), Positives = 53/146 (36%), Gaps = 11/146 (7%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++I+G S VGK +++++ ++  F +   ++         +        + +W     E F
Sbjct: 5   VIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERF 64

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFE------ILLCIGNKVDLL 165
               +         V+VF++   +T   L  W     +Q           + +GNK+DL 
Sbjct: 65  QSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLE 124

Query: 166 PGHPVHAEYRRRLLKRE-----ESSA 186
                    +     +      E+SA
Sbjct: 125 NRQVATKRAQAWCYSKNNIPYFETSA 150

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]} Length = 164

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]

 Score = 35.8 bits (81), Expect = 0.003
 Identities = 20/106 (18%), Positives = 40/106 (37%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++++G+  VGK +++ R     F      +  +      I        + LW     EEF
Sbjct: 5   MVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEF 64

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLC 157
              +        A V+VF+  D  + +A+  W   +  +  +I   
Sbjct: 65  DAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPTA 110

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]} Length = 167

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]

 Score = 35.8 bits (81), Expect = 0.003
 Identities = 18/142 (12%), Positives = 44/142 (30%), Gaps = 7/142 (4%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEE- 110
           + ++G + VGK +I+ R +  +F+   + +        T+  +       +W     E  
Sbjct: 7   VCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERF 66

Query: 111 FSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPV 170
            ++  +       A+++     + +                  I++ I      L     
Sbjct: 67  RALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVRE 126

Query: 171 HAEYRRRLLKRE------ESSA 186
             E   +           E+SA
Sbjct: 127 VMERDAKDYADSIHAIFVETSA 148

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]} Length = 177

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]

 Score = 35.8 bits (81), Expect = 0.003
 Identities = 26/174 (14%), Positives = 54/174 (31%), Gaps = 7/174 (4%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           ++I+G    GK  +L       F +    +         I       +++LW     E++
Sbjct: 5   LVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLEDY 63

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHP 169
                        ++M F+++   +L+ +                ++ +GNK DL     
Sbjct: 64  DRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEH 123

Query: 170 VHAEYRRRLLKREESSADPDFCQS--GISETEGSSLLGD--EEPSWEIRRSCLE 219
              E  +   +  +     D           E S+   D   E      R+ L+
Sbjct: 124 TRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 177

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

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]

 Score = 35.3 bits (80), Expect = 0.003
 Identities = 18/146 (12%), Positives = 47/146 (32%), Gaps = 14/146 (9%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           + + G+  VGK +++ R +   F ++   +   + + +        +  +L +       
Sbjct: 5   VAVFGAGGVGKSSLVLRFVKGTFRESYIPT---VEDTYRQVISCDKSICTLQITDTTGSH 61

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKF------EILLCIGNKVDLL 165
              ++           +   +  S     +       + +         ++ +GNK D  
Sbjct: 62  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES 121

Query: 166 PGHPVHAEYRRRLLKRE-----ESSA 186
           P   V +     L +       E+SA
Sbjct: 122 PSREVQSSEAEALARTWKCAFMETSA 147

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 175

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]

 Score = 35.4 bits (80), Expect = 0.003
 Identities = 19/149 (12%), Positives = 46/149 (30%), Gaps = 14/149 (9%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTK--YYTADVSLWMAHLHE 109
           ++I+G S VGK +++ R ++  +     ++         +               A    
Sbjct: 5   VIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQER 64

Query: 110 EFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDL-----QKFEILLCIGNKVDL 164
             S+           +++    N  S  +        +        +    + +GNK+D 
Sbjct: 65  FQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDA 124

Query: 165 LPGHPVHAEYRRRLLKRE-------ESSA 186
                + +E   + L +         +SA
Sbjct: 125 EESKKIVSEKSAQELAKSLGDIPLFLTSA 153

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]} Length = 168

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]

 Score = 35.0 bits (79), Expect = 0.004
 Identities = 14/92 (15%), Positives = 29/92 (31%), Gaps = 1/92 (1%)

Query: 52  ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF 111
           + I G + VGK  ++ R L+  F    D + E                + +      E+ 
Sbjct: 5   LAIFGRAGVGKSALVVRFLTKRFIWEYDPTLE-STYRHQATIDDEVVSMEILDTAGQEDT 63

Query: 112 SIRSLPISDQLTALVMVFNLNDLSTLDALKHW 143
             R   +      +++    +  S  + L   
Sbjct: 64  IQREGHMRWGEGFVLVYDITDRGSFEEVLPLK 95

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	289
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	100.0
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	100.0
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.98
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.98
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.98
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.98
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.98
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.98
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.98
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.97
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.97
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.97
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.97
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.97
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.97
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.97
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.97
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.97
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.97
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.96
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.96
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.95
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.95
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.94
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.94
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.94
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.93
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.88
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.88
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.88
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.88
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.88
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.85
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.85
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.83
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.83
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.79
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.77
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.77
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.76
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.74
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.74
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.72
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.72
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.68
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.68
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.64
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.61
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.59
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.58
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.58
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.56
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.47
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.46
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.39
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.28
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.22
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.21
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.2
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.09
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.08
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.03
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	98.94
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	98.88
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	98.63
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	98.6
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	98.43
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	98.3
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	98.29
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	98.08
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	97.94
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	97.91
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.72
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	97.52
d2awna2	232	Maltose transport protein MalK, N-terminal domain	97.5
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	97.46
d1g2912	240	Maltose transport protein MalK, N-terminal domain	97.4
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	97.36
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	97.31
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	97.29
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.28
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	97.25
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	97.23
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	97.23
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	97.23
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	97.22
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	97.18
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	97.11
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.1
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.09
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	97.08
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.01
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	97.0
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.99
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.97
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.96
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.96
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	96.92
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	96.89
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.85
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.75
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.55
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	96.53
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.51
d1okkd2	207	GTPase domain of the signal recognition particle r	96.49
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.49
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.41
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.38
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.38
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.36
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.36
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.34
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.26
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.21
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.19
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.17
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.11
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.09
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.06
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.06
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.04
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.03
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.92
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	95.91
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.9
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	95.89
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	95.88
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	95.88
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	95.85
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	95.84
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	95.76
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	95.73
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	95.71
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	95.66
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	95.65
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	95.42
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	95.39
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	95.24
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	95.12
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.12
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	95.09
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	95.08
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	95.05
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	94.77
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	94.73
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.67
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	94.51
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	94.5
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.48
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	94.41
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	94.33
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	94.29
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	94.22
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.21
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	94.03
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	93.96
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	93.67
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	93.67
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	93.66
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	93.49
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	93.43
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	93.43
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	93.24
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	93.08
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	92.97
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	92.93
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.79
d1vmaa2	213	GTPase domain of the signal recognition particle r	92.65
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	92.62
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	92.54
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	92.52
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	92.52
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	92.46
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	92.36
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	92.2
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	92.13
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	91.96
d1j8yf2	211	GTPase domain of the signal sequence recognition p	91.89
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	91.86
d2qy9a2	211	GTPase domain of the signal recognition particle r	91.76
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	91.67
d1ls1a2	207	GTPase domain of the signal sequence recognition p	91.52
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	91.49
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	91.46
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	91.38
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	91.33
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	91.1
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	91.05
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	90.9
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	90.86
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	90.74
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	90.65
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	90.61
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	90.57
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	90.45
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	90.07
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	89.67
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	89.58
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	89.55
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	89.47
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	89.21
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	89.09
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	88.55
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	88.41
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	88.32
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	88.27
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	88.0
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	87.81
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	87.69
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	87.16
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	86.19
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	86.0
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	85.68
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	85.63
d1tuea_	205	Replication protein E1 helicase domain {Human papi	85.4
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	85.18
d1xpua3	289	Transcription termination factor Rho, ATPase domai	84.97
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	84.5
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	83.31
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	83.0
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	82.92
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	82.85
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	81.58

>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=100.00  E-value=8.3e-34  Score=236.35  Aligned_cols=162  Identities=18%  Similarity=0.285  Sum_probs=137.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+|+|++|||||||++||.++.|.+.+.+|.+..+....+..++..+.+.+||++|++.+..++..+++++|++|+|
T Consensus         3 ~fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~v   82 (167)
T d1z08a1           3 SFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILV   82 (167)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeeccCCccceeeeeccCCcceecccchhhccCCceeEEE
Confidence            58999999999999999999999999999999999998888888888899999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      ||+++++||+.+..|+..+....  ..|+++||||+|+..        .|.+                          +.
T Consensus        83 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~--------~~~v--------------------------~~  128 (167)
T d1z08a1          83 YDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEK--------ERHV--------------------------SI  128 (167)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGG--------GCCS--------------------------CH
T ss_pred             EeCCchhHHHhhhhhhhhcccccccccceeeecccccccc--------cccc--------------------------ch
Confidence            99999999999999998876543  338899999999953        2223                          22


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                              ++++.+++.++++|+||||++|            .||+++|..|++.++.
T Consensus       129 --------~e~~~~a~~~~~~~~e~Sak~~------------~~v~e~F~~l~~~i~~  166 (167)
T d1z08a1         129 --------QEAESYAESVGAKHYHTSAKQN------------KGIEELFLDLCKRMIE  166 (167)
T ss_dssp             --------HHHHHHHHHTTCEEEEEBTTTT------------BSHHHHHHHHHHHHHC
T ss_pred             --------HHHHHHHHHcCCeEEEEecCCC------------cCHHHHHHHHHHHHhh
Confidence                    2278999999999999999999            9999999999998764

>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=100.00  E-value=6.7e-34  Score=236.24  Aligned_cols=160  Identities=16%  Similarity=0.244  Sum_probs=143.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||++||.++.|...+.+|.+.++........+..+.+.+|||+|++.+..+...+++.++++++||
T Consensus         3 iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~   82 (164)
T d1z2aa1           3 IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVF   82 (164)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCceeeeeeeccCCccchhhhhhhhhccCceEEEEE
Confidence            79999999999999999999999999899999998888888888888999999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDEE  208 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  208 (289)
                      |++++.||+.+..|++.+.... ..|+++||||+|+..        .|.+                          +.  
T Consensus        83 d~~~~~s~~~~~~~~~~i~~~~~~~~iilVgnK~Dl~~--------~~~v--------------------------~~--  126 (164)
T d1z2aa1          83 STTDRESFEAISSWREKVVAEVGDIPTALVQNKIDLLD--------DSCI--------------------------KN--  126 (164)
T ss_dssp             ETTCHHHHHTHHHHHHHHHHHHCSCCEEEEEECGGGGG--------GCSS--------------------------CH--
T ss_pred             eccchhhhhhcccccccccccCCCceEEEeeccCCccc--------ceee--------------------------ee--
Confidence            9999999999999999997663 448999999999953        2222                          11  


Q ss_pred             CcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          209 PSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       209 ~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                            ..++.+++.++++|+||||++|            .||+++|+.|++.++
T Consensus       127 ------~~~~~~~~~~~~~~~e~Sak~g------------~~v~e~f~~l~~~~l  163 (164)
T d1z2aa1         127 ------EEAEGLAKRLKLRFYRTSVKED------------LNVSEVFKYLAEKHL  163 (164)
T ss_dssp             ------HHHHHHHHHHTCEEEECBTTTT------------BSSHHHHHHHHHHHH
T ss_pred             ------hhhHHHHHHcCCEEEEeccCCC------------cCHHHHHHHHHHHHh
Confidence                  2278899999999999999999            999999999998875

>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=100.00  E-value=1.1e-32  Score=230.12  Aligned_cols=164  Identities=20%  Similarity=0.310  Sum_probs=143.0

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      .+.+||+++|++|||||||+++|.++.|...+.++.+.+.....+...+..+.+.+|||||++.|..++..+++++|++|
T Consensus         3 ~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~i   82 (169)
T d3raba_           3 DYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFI   82 (169)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTTTCCEEE
T ss_pred             CeEEEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCchhhHHHHHHHHhcCCEEE
Confidence            34589999999999999999999999998889999998888888888888899999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      +|||+++++++..+..|+..+.....  .|+++||||+|+...        +.+                          
T Consensus        83 lv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~--------~~v--------------------------  128 (169)
T d3raba_          83 LMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDE--------RVV--------------------------  128 (169)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGG--------CCS--------------------------
T ss_pred             EEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeecccccc--------ccc--------------------------
Confidence            99999999999999999988766543  389999999998432        112                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                      +.        ..+..+++.++++|+||||++|            .||+++|++|++.++.
T Consensus       129 ~~--------~~~~~~~~~~~~~~~e~Sak~g------------~gv~e~f~~l~~~i~e  168 (169)
T d3raba_         129 SS--------ERGRQLADHLGFEFFEASAKDN------------INVKQTFERLVDVICE  168 (169)
T ss_dssp             CH--------HHHHHHHHHHTCEEEECBTTTT------------BSHHHHHHHHHHHHHT
T ss_pred             ch--------hhhHHHHHHcCCEEEEecCCCC------------cCHHHHHHHHHHHHhh
Confidence            11        1267889999999999999999            9999999999987754

>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=100.00  E-value=2.2e-33  Score=235.02  Aligned_cols=161  Identities=16%  Similarity=0.232  Sum_probs=139.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||+++|+++.|...+.+|.+.++....+..++..+.+.+|||+|++.+..++..++++++++++|
T Consensus         3 ~~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   82 (170)
T d1i2ma_           3 QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIM   82 (170)
T ss_dssp             EEEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBTTCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeccccccccccccccccccccccccccccceecchhcccccchhhc
Confidence            37999999999999999999999999999999999999888888888899999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      ||+++++||+.+..|+..+.... ..|+++||||+|+....                                    ..+
T Consensus        83 ~d~~~~~Sf~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~------------------------------------~~~  126 (170)
T d1i2ma_          83 FDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRK------------------------------------VKA  126 (170)
T ss_dssp             EETTSGGGGTTHHHHHHHHHHHHCSCCEEEEEECCCCSCSC------------------------------------CTT
T ss_pred             cccccccccchhHHHHHHHhhccCCCceeeecchhhhhhhh------------------------------------hhh
Confidence            99999999999999999886654 44999999999995421                                    111


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                      +        +..++..++++|+||||++|            .||+++|..|++.++.+
T Consensus       127 ~--------~~~~~~~~~~~~~e~Sak~~------------~~v~e~f~~l~~~l~~~  164 (170)
T d1i2ma_         127 K--------SIVFHRKKNLQYYDISAKSN------------YNFEKPFLWLARKLIGD  164 (170)
T ss_dssp             T--------SHHHHSSCSSEEEEEBTTTT------------BTTTHHHHHHHHHHHTC
T ss_pred             H--------HHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHHccC
Confidence            2        56888999999999999999            99999999999988654

>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=100.00  E-value=2e-32  Score=226.76  Aligned_cols=160  Identities=18%  Similarity=0.326  Sum_probs=141.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+|+|++|||||||++||.+++|...+.++.+..........++..+.+.+||++|++.+...+..++++++++++||
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~   80 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVY   80 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEE
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecccCCcchhccchHHHhhccceEEEee
Confidence            69999999999999999999999999999999998888888888888999999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcC--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQK--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |++++.+|+.+..|+..+....  ..|+++||||+|+.....        +                          .  
T Consensus        81 d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~--------~--------------------------~--  124 (164)
T d1yzqa1          81 DITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQ--------V--------------------------S--  124 (164)
T ss_dssp             ETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCC--------S--------------------------C--
T ss_pred             ccccccchhhhHhhHHHHHHhcCCCceEEEEecccchhhhhh--------h--------------------------h--
Confidence            9999999999999999887653  349999999999953221        1                          1  


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                            .+.+..+++.++++|+||||++|            .||+++|++|++.+.
T Consensus       125 ------~~~~~~~~~~~~~~~~e~SAk~g------------~~v~e~f~~i~~~l~  162 (164)
T d1yzqa1         125 ------IEEGERKAKELNVMFIETSAKAG------------YNVKQLFRRVAAALP  162 (164)
T ss_dssp             ------HHHHHHHHHHTTCEEEECCTTTC------------TTHHHHHHHHHHHSC
T ss_pred             ------HHHHHHHHHHcCCEEEEecCCCC------------cCHHHHHHHHHHhhC
Confidence                  12378999999999999999999            999999999998653

>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=100.00  E-value=1.3e-32  Score=229.78  Aligned_cols=165  Identities=19%  Similarity=0.323  Sum_probs=144.4

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      +..+||+|+|++|||||||+++|..+.|...+.++.+..+....+...+..+++.+|||+|++.|..++..++++++++|
T Consensus         3 ~~~~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~i   82 (171)
T d2ew1a1           3 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALI   82 (171)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEE
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhccceEE
Confidence            34589999999999999999999999998888899998888888888888899999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      +|||++++.+|+.+..|+..+.....  .|+++||||+|+....        .+                          
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~--------~v--------------------------  128 (171)
T d2ew1a1          83 LTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERR--------EV--------------------------  128 (171)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC--------SS--------------------------
T ss_pred             EeeecccchhhhhhhhhhhhhcccccccccEEEEEeeccccccc--------ch--------------------------
Confidence            99999999999999999998866543  3899999999984321        11                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                      +        .+.++++++.++++|++|||++|            +||+++|..|++.++..
T Consensus       129 ~--------~~~~~~~~~~~~~~~~~~SAktg------------~gV~e~f~~l~~~l~~~  169 (171)
T d2ew1a1         129 S--------QQRAEEFSEAQDMYYLETSAKES------------DNVEKLFLDLACRLISE  169 (171)
T ss_dssp             C--------HHHHHHHHHHHTCCEEECCTTTC------------TTHHHHHHHHHHHHHHH
T ss_pred             h--------hhHHHHHHHhCCCEEEEEccCCC------------CCHHHHHHHHHHHHHHh
Confidence            1        12378899999999999999999            99999999999887643

>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=100.00  E-value=7.6e-33  Score=230.22  Aligned_cols=159  Identities=17%  Similarity=0.209  Sum_probs=137.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+|+|++|||||||+++|+++.|...+.+|.+..+. ..+..++..+.+.+||++|++.|..+...++++++++|+|
T Consensus         4 ~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~ilv   82 (167)
T d1xtqa1           4 SRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFT-KLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILV   82 (167)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEEE-EEEEETTEEEEEEEEECCCCCTTCCCCGGGTSSCCEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCcccCcceecccc-eEEecCcEEEEeeecccccccccccccchhhhhhhhhhhh
Confidence            479999999999999999999999998888999888753 4556677889999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcC-C--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQK-F--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~-~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      ||+++++||+.+..|+..+.... .  .|+++||||+|+..        .|.+                          +
T Consensus        83 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~--------~r~v--------------------------~  128 (167)
T d1xtqa1          83 YSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHM--------ERVI--------------------------S  128 (167)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCGG--------GCCS--------------------------C
T ss_pred             cccchhhhhhhhhhhhhhhhhcccccccceeeecccccccc--------ccch--------------------------h
Confidence            99999999999999999886542 2  38999999999943        2222                          1


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                      .        +.++.|+++++++|+||||++|            .||+++|+.|++.+
T Consensus       129 ~--------~~~~~~a~~~~~~~~e~Sak~~------------~~v~~~f~~li~~~  165 (167)
T d1xtqa1         129 Y--------EEGKALAESWNAAFLESSAKEN------------QTAVDVFRRIILEA  165 (167)
T ss_dssp             H--------HHHHHHHHHHTCEEEECCTTCH------------HHHHHHHHHHHHHH
T ss_pred             H--------HHHHHHHHHcCCEEEEEecCCC------------CCHHHHHHHHHHHh
Confidence            1        2278999999999999999999            99999999998765

>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=100.00  E-value=1.7e-32  Score=228.09  Aligned_cols=162  Identities=19%  Similarity=0.293  Sum_probs=142.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..+||+|+|++|||||||+++|++++|...+.++.+..+....+..++..+.+.+||++|++.+..++..+++++|++|+
T Consensus         3 y~~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~il   82 (166)
T d1z0fa1           3 YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM   82 (166)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEE
T ss_pred             EEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcCCcEEEE
Confidence            45899999999999999999999999998888888888888888888888999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcCCC--eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~~~--~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      |||+++.+||+.+..|+..+.....+  |+++||||+|+.....        +                          .
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~--------~--------------------------~  128 (166)
T d1z0fa1          83 VYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRD--------V--------------------------T  128 (166)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCC--------S--------------------------C
T ss_pred             EeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccchhhcc--------c--------------------------H
Confidence            99999999999999999988765443  9999999999943211        1                          1


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                              .+.+..+++.++++|+||||++|            .||+++|..|++.++
T Consensus       129 --------~~~~~~~~~~~~~~~~e~Saktg------------~~v~e~f~~i~~~i~  166 (166)
T d1z0fa1         129 --------YEEAKQFAEENGLLFLEASAKTG------------ENVEDAFLEAAKKIY  166 (166)
T ss_dssp             --------HHHHHHHHHHTTCEEEECCTTTC------------TTHHHHHHHHHHHHC
T ss_pred             --------HHHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHhC
Confidence                    12378899999999999999999            999999999998763

>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=100.00  E-value=1.7e-32  Score=228.31  Aligned_cols=160  Identities=19%  Similarity=0.321  Sum_probs=142.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+|+|++|||||||++||..++|.+.+.+|.+..+.............+.+||++|++.+..++..+++.++++|+|
T Consensus         4 ~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v   83 (167)
T d1z0ja1           4 ELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIV   83 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEE
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccccccccccccceeeeecCCchhhhHHHHHHHhhccceEEE
Confidence            48999999999999999999999999999999999988888888888888999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcCCC--eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~~~--~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      ||++++++|+.+..|+..+.....+  |+++||||+|+..        .|.+                          ..
T Consensus        84 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~--------~~~v--------------------------~~  129 (167)
T d1z0ja1          84 YDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTD--------VREV--------------------------ME  129 (167)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGG--------GCCS--------------------------CH
T ss_pred             eeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhcc--------ccch--------------------------hH
Confidence            9999999999999999887665443  9999999999943        2222                          11


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                              ..+++++..++++|+||||++|            .||+++|..|++.+
T Consensus       130 --------~~~~~~~~~~~~~~~e~SAk~~------------~nV~e~f~~l~~~i  165 (167)
T d1z0ja1         130 --------RDAKDYADSIHAIFVETSAKNA------------ININELFIEISRRI  165 (167)
T ss_dssp             --------HHHHHHHHHTTCEEEECBTTTT------------BSHHHHHHHHHHHC
T ss_pred             --------HHHHHHHHHcCCEEEEEecCCC------------CCHHHHHHHHHHhC
Confidence                    2378999999999999999999            99999999999876

>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=100.00  E-value=2.2e-32  Score=228.68  Aligned_cols=162  Identities=19%  Similarity=0.200  Sum_probs=139.2

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +.+||+++|++|||||||+++|.++.|.+.+.+|.+..+ ...+..++..+.+.+||++|++.+..+...++++++++++
T Consensus         3 pt~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ll   81 (169)
T d1x1ra1           3 PTYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLI   81 (169)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEE
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeecc-ccccccccccccccccccccccccccchhhhhhhccEEEE
Confidence            358999999999999999999999999888888888665 3455667778999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |||+++++||+.+..|+..+.+..   ..|+++||||+|+.....        +                          
T Consensus        82 v~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~--------v--------------------------  127 (169)
T d1x1ra1          82 VYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRK--------V--------------------------  127 (169)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCC--------S--------------------------
T ss_pred             ecccccchhhhccchhhHHHHhhccccCccEEEEecccchhhhce--------e--------------------------
Confidence            999999999999999999986552   338999999999964322        2                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCch-hHHHHHHHHHHhccc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQ-GVERLYGALSAHMWP  264 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~-~i~~l~~~L~~~~~~  264 (289)
                      +.        +++.+|++.++++|+|||||++            . ||+++|..|++.++.
T Consensus       128 ~~--------e~~~~~~~~~~~~~~e~Sak~~------------~~nV~~~F~~l~~~i~~  168 (169)
T d1x1ra1         128 TR--------DQGKEMATKYNIPYIETSAKDP------------PLNVDKTFHDLVRVIRQ  168 (169)
T ss_dssp             CH--------HHHHHHHHHHTCCEEEEBCSSS------------CBSHHHHHHHHHHHHHH
T ss_pred             eh--------hhHHHHHHHcCCEEEEEcCCCC------------CcCHHHHHHHHHHHHHh
Confidence            11        2288999999999999999987            5 999999999987753

>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=100.00  E-value=1.5e-32  Score=229.28  Aligned_cols=160  Identities=14%  Similarity=0.155  Sum_probs=122.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+++|++|||||||+++|.+..+.. +.++.+..+ ...+..++..+.+.+|||+|++.|..++..+++++|++|+||
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~~~-~~~~~~~~~-~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~   79 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVEDGP-EAEAAGHTY-DRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVY   79 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC----------CEEE-EEEEEETTEEEEEEEEECC-------CHHHHHTSCSEEEEEE
T ss_pred             eEEEEECCCCcCHHHHHHHHhCCccCC-cCCeeeeee-cceeeccccccceeeeecccccccceecccchhhhhhhceec
Confidence            799999999999999999999887643 334444443 445666777899999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcCC---CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQKF---EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~~---~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      |++++.||+.+..|+..+.....   .|+++||||+|+...        +++                          +.
T Consensus        80 d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~--------~~v--------------------------~~  125 (168)
T d2gjsa1          80 SVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRS--------REV--------------------------SV  125 (168)
T ss_dssp             ETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCGGG--------CCS--------------------------CH
T ss_pred             cccccccccccccccchhhcccccccceEEEeecccchhhh--------cch--------------------------hH
Confidence            99999999999999999866533   289999999999532        222                          11


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                              ..+++++..++++|+||||++|            .||+++|+.|++.+...
T Consensus       126 --------~~~~~~~~~~~~~~~e~Sak~~------------~~v~~~f~~l~~~i~~~  164 (168)
T d2gjsa1         126 --------DEGRACAVVFDCKFIETSAALH------------HNVQALFEGVVRQIRLR  164 (168)
T ss_dssp             --------HHHHHHHHHHTSEEEECBTTTT------------BSHHHHHHHHHHHHHHH
T ss_pred             --------HHHHHHHHhcCCEEEEEeCCCC------------cCHHHHHHHHHHHHHHH
Confidence                    2278899999999999999999            99999999999877544

>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=99.98  E-value=2.8e-32  Score=228.24  Aligned_cols=169  Identities=17%  Similarity=0.288  Sum_probs=147.3

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      ++..+||+++|++|||||||+++|..++|...+.++.+.......+..++....+.+|||+|+++|..++..+++.++++
T Consensus         2 ~~~~~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~   81 (174)
T d2bmea1           2 YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGA   81 (174)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEE
T ss_pred             ccEEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhhCCEE
Confidence            34568999999999999999999999999988999999888888888888889999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      |+|||.+++++|+.+..|+..+.....  .|+++||||+|+.....        +                         
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~~~--------~-------------------------  128 (174)
T d2bmea1          82 LLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADRE--------V-------------------------  128 (174)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCC--------S-------------------------
T ss_pred             EEEEecccchhHHHHhhhhcccccccCCceEEEEEEecccccchhc--------h-------------------------
Confidence            999999999999999999998866543  39999999999843221        1                         


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCccc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVL  268 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~  268 (289)
                       .        ...+..++..++++|+||||++|            .||+++|..|++.++.+++.
T Consensus       129 -~--------~~~~~~~~~~~~~~~~e~Sak~~------------~gi~e~f~~l~~~i~~~~~~  172 (174)
T d2bmea1         129 -T--------FLEASRFAQENELMFLETSALTG------------ENVEEAFVQCARKILNKIES  172 (174)
T ss_dssp             -C--------HHHHHHHHHHTTCEEEECCTTTC------------TTHHHHHHHHHHHHHHHHHS
T ss_pred             -h--------hhHHHHHHHhCCCEEEEeeCCCC------------cCHHHHHHHHHHHHHHHHhc
Confidence             0        11267888999999999999999            99999999999998876543

>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=99.98  E-value=2.9e-32  Score=227.57  Aligned_cols=163  Identities=17%  Similarity=0.317  Sum_probs=144.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+|+|++|||||||+++|..+.|.+.+.++.+..+....+...+..+.+.+||++|++.|..++..++++++++|+|
T Consensus         6 ~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv   85 (170)
T d1r2qa_           6 QFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVV   85 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceEEEE
Confidence            37999999999999999999999999999999999998888888888899999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcCCC--eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~~~--~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      ||++++++|+.+..|...+.....+  |+++||||+|+..        .+.+                          +.
T Consensus        86 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~--------~~~v--------------------------~~  131 (170)
T d1r2qa_          86 YDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLAN--------KRAV--------------------------DF  131 (170)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGG--------GCCS--------------------------CH
T ss_pred             eccchhhHHHHHHHHhhhhhhccCCCceEEeecccccccc--------cccc--------------------------cH
Confidence            9999999999999999988655433  9999999999943        2222                          11


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                              +.++.++..++++|+||||++|            .||+++|+.|++.+..+
T Consensus       132 --------e~~~~~~~~~~~~~~e~SAk~g------------~~V~e~f~~l~~~i~~n  170 (170)
T d1r2qa_         132 --------QEAQSYADDNSLLFMETSAKTS------------MNVNEIFMAIAKKLPKN  170 (170)
T ss_dssp             --------HHHHHHHHHTTCEEEECCTTTC------------TTHHHHHHHHHHTSCCC
T ss_pred             --------HHHHHHHHhcCCEEEEeeCCCC------------CCHHHHHHHHHHHHhhC
Confidence                    2278999999999999999999            99999999999987653

>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=99.98  E-value=8.1e-33  Score=232.01  Aligned_cols=165  Identities=18%  Similarity=0.217  Sum_probs=140.6

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      +.+.+||+|+|++|||||||++||+.+.|...+.+|.... ....+..++..+.+.+||++|++.|...+..++++++++
T Consensus         3 ~~~~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~-~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~~   81 (173)
T d2fn4a1           3 PSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDS-YTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGF   81 (173)
T ss_dssp             SSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEE-EEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEE
T ss_pred             CCCeEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccc-eeeEeccCCeeeeeeccccccccccccccchhhccceee
Confidence            4556899999999999999999999999988888776544 345667778889999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      |+|||++++.||+.+..|+..+...   ...|+++||||+|+...        +.+                        
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~--------~~~------------------------  129 (173)
T d2fn4a1          82 LLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQ--------RQV------------------------  129 (173)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGG--------CCS------------------------
T ss_pred             eeecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechhhc--------ccc------------------------
Confidence            9999999999999999999987553   23389999999999432        211                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                        +.        ..+..++..++++|+||||++|            .||+++|+.|++.+...
T Consensus       130 --~~--------~~~~~~~~~~~~~~~e~Sak~g------------~gv~e~f~~l~~~i~k~  170 (173)
T d2fn4a1         130 --PR--------SEASAFGASHHVAYFEASAKLR------------LNVDEAFEQLVRAVRKY  170 (173)
T ss_dssp             --CH--------HHHHHHHHHTTCEEEECBTTTT------------BSHHHHHHHHHHHHHHH
T ss_pred             --ch--------hhhhHHHHhcCCEEEEEeCCCC------------cCHHHHHHHHHHHHHHH
Confidence              11        2388999999999999999999            99999999999987554

>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=99.98  E-value=5.1e-32  Score=227.47  Aligned_cols=172  Identities=17%  Similarity=0.193  Sum_probs=135.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      +.||+|+|++|||||||+++|..+.|.+.+.+|.+..+ ...+..++..+.+.+||++|++.|..++..+++++|++|+|
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMC   80 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeeec-cccccccccceeeeccccCccchhcccchhhcccchhhhhh
Confidence            36999999999999999999999999988888887543 34455567788999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHH-HHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          129 FNLNDLSTLDALKHWV-PSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~-~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      ||+++++||+.+..|. ..+..... .|++|||||+|+......    .+.+..                  ..      
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~----~~~~~~------------------~~------  132 (177)
T d1kmqa_          81 FSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHT----RRELAK------------------MK------  132 (177)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCHHH----HHHHHH------------------TT------
T ss_pred             cccchhHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchhhH----HHHHHH------------------hh------
Confidence            9999999999988654 44554443 399999999999653211    111100                  00      


Q ss_pred             CCCcHHHHHHHHHHHHHcCC-eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          207 EEPSWEIRRSCLEWCTEHRI-EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~-~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                        .......++..+++.++. +|+||||++|            .||+++|+.|++.++
T Consensus       133 --~~~v~~~e~~~~a~~~~~~~~~E~SAkt~------------~gi~e~F~~i~~~~l  176 (177)
T d1kmqa_         133 --QEPVKPEEGRDMANRIGAFGYMECSAKTK------------DGVREVFEMATRAAL  176 (177)
T ss_dssp             --CCCCCHHHHHHHHHHTTCSEEEECCTTTC------------TTHHHHHHHHHHHHH
T ss_pred             --cccccHHHHHHHHHHcCCcEEEEecCCCC------------cCHHHHHHHHHHHHh
Confidence              000112338899999984 8999999999            999999999998765

>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=99.98  E-value=9e-32  Score=228.10  Aligned_cols=173  Identities=15%  Similarity=0.188  Sum_probs=137.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+|+|++|||||||++||+.+.|...+.+|.+.. ....+...+..+.+.+||++|++.|..++..+++++|++|+|
T Consensus         9 ~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~~~-~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~a~~~ilv   87 (185)
T d2atxa1           9 MLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDH-YAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLIC   87 (185)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCC-EEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEE
T ss_pred             EEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCceeee-eeEEEeeCCceEEeecccccccchhhhhhhhcccccceeeec
Confidence            4899999999999999999999999998888888754 445666777889999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHH-HHHHhhhcCCC-eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          129 FNLNDLSTLDALKH-WVPSIDLQKFE-ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~-~~~~i~~~~~~-~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      ||+++++||+.+.. |...++..... |+++||||+|+.+....    ....                          ..
T Consensus        88 ~d~t~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~~----~~~~--------------------------~~  137 (185)
T d2atxa1          88 FSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKT----LARL--------------------------ND  137 (185)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHHH----HHHH--------------------------TT
T ss_pred             cccchHHHHHHHHHHHHHHHHhcCCCCCeeEeeeccccccchhh----hhhh--------------------------hh
Confidence            99999999998764 55555555443 89999999999753211    1111                          00


Q ss_pred             CCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          207 EEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                      ........+++.++++.++ +.|+||||++|            .||+++|+.|++.++.
T Consensus       138 ~~~r~v~~~~~~~~a~~~~~~~~~E~SAk~~------------~gv~e~F~~li~~il~  184 (185)
T d2atxa1         138 MKEKPICVEQGQKLAKEIGACCYVECSALTQ------------KGLKTVFDEAIIAILT  184 (185)
T ss_dssp             TTCCCCCHHHHHHHHHHHTCSCEEECCTTTC------------TTHHHHHHHHHHHHHC
T ss_pred             cccccccHHHHHHHHHHcCCCEEEEecCCCC------------cCHHHHHHHHHHHHcC
Confidence            0001111234889999988 68999999999            9999999999987753

>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=99.98  E-value=1.5e-32  Score=229.11  Aligned_cols=162  Identities=16%  Similarity=0.202  Sum_probs=137.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||++||+++.|...+.+|.+..+.. ....++..+.+.+||++|++.|......+++.++++|+|
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~~~~-~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv   80 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQ-VISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILV   80 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEEE-EEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCCccCcceeecccc-ceeeccccceeccccccccccccccccccccceeEEEEE
Confidence            4899999999999999999999999988889999876543 445567788999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhc----CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQ----KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~----~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      ||++++++|+.+..|+..+...    ...|+++||||+|+..        .|++                          
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~--------~~~v--------------------------  126 (171)
T d2erxa1          81 YSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESP--------SREV--------------------------  126 (171)
T ss_dssp             EETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGG--------GCCS--------------------------
T ss_pred             eecccccchhcccchhhhhhhhhccCCCCcEEEEeecccccc--------cccc--------------------------
Confidence            9999999999999999887543    2238999999999943        2223                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                      +.        ++++++++.++++|+||||++|            .||+++|+.|++.+..+
T Consensus       127 ~~--------~e~~~~~~~~~~~~~e~Sak~~------------~~v~e~f~~l~~~~~~~  167 (171)
T d2erxa1         127 QS--------SEAEALARTWKCAFMETSAKLN------------HNVKELFQELLNLEKRR  167 (171)
T ss_dssp             CH--------HHHHHHHHHHTCEEEECBTTTT------------BSHHHHHHHHHHTCCSS
T ss_pred             cH--------HHHHHHHHHcCCeEEEEcCCCC------------cCHHHHHHHHHHHHHHh
Confidence            11        2278999999999999999999            99999999999866443

>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=99.98  E-value=1.5e-32  Score=229.44  Aligned_cols=162  Identities=14%  Similarity=0.225  Sum_probs=136.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +.+||+|+|++|||||||+++|+.+.|...+.+|.+..+. ..+..++..+.+.+||++|++.+..+...++++++++|+
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~~-~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~il   81 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLC   81 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccCCccccccc-cccccccccccccccccccccchhhhhhhcccccceeEE
Confidence            4579999999999999999999999999889999987764 455667788999999999999999888899999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |||++++.+|+.+..|+..+...   ...|+++||||+|+..        .+++                          
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~~--------~~~v--------------------------  127 (168)
T d1u8za_          82 VFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLED--------KRQV--------------------------  127 (168)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGG--------GCCS--------------------------
T ss_pred             EeeccchhhhhhHHHHHHHHHHhhCCCCCcEEEEeccccccc--------cccc--------------------------
Confidence            99999999999999999998654   2338999999999843        2223                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                      +.        +.+..+++.++++|+||||++|            .||+++|+.|++.+..
T Consensus       128 ~~--------~~~~~~~~~~~~~~~e~Sak~g------------~gv~e~f~~l~~~i~~  167 (168)
T d1u8za_         128 SV--------EEAKNRADQWNVNYVETSAKTR------------ANVDKVFFDLMREIRA  167 (168)
T ss_dssp             CH--------HHHHHHHHHHTCEEEECCTTTC------------TTHHHHHHHHHHHHHT
T ss_pred             cH--------HHHHHHHHHcCCeEEEEcCCCC------------cCHHHHHHHHHHHHHC
Confidence            22        2278999999999999999999            9999999999987643

>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=99.97  E-value=1e-31  Score=229.37  Aligned_cols=171  Identities=20%  Similarity=0.322  Sum_probs=148.4

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      .+..+||+|+|++|||||||+++|.++.+...+.+|.+..+....+...+..+.+.+|||+|+++|..++..++++++++
T Consensus         3 ~~~~~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~~   82 (194)
T d2bcgy1           3 YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGI   82 (194)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEE
T ss_pred             CCEEEEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHHHHhccCCEE
Confidence            34568999999999999999999999999989999999888877887788889999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcCCC--eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~~~--~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      |+|||++++++|..+..|...+......  |+++||||+|+.....+..                               
T Consensus        83 i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~-------------------------------  131 (194)
T d2bcgy1          83 IIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEY-------------------------------  131 (194)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCH-------------------------------
T ss_pred             EEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEeccccccccchhH-------------------------------
Confidence            9999999999999999998888655433  9999999999965432211                               


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCccccc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLKS  270 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~~  270 (289)
                                 +.+..++...++.|+||||++|            .||+++|+.|++.+......+.
T Consensus       132 -----------~~~~~~~~~~~~~~~e~SAk~g------------~gi~e~f~~l~~~i~~~~~~~~  175 (194)
T d2bcgy1         132 -----------DVAKEFADANKMPFLETSALDS------------TNVEDAFLTMARQIKESMSQQN  175 (194)
T ss_dssp             -----------HHHHHHHHHTTCCEEECCTTTC------------TTHHHHHHHHHHHHHHHCCHHH
T ss_pred             -----------HHHhhhhhccCcceEEEecCcC------------ccHHHHHHHHHHHHHHHhhhcc
Confidence                       1267888999999999999999            9999999999998876654433

>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=99.97  E-value=1.5e-31  Score=224.46  Aligned_cols=164  Identities=18%  Similarity=0.307  Sum_probs=140.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..+||+|+|++|||||||+++|+++.+...+.++.+.......+..++..+.+.+||++|++.|...+..++++++++|+
T Consensus         3 ~~~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i~   82 (175)
T d2f9la1           3 YLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALL   82 (175)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEE
T ss_pred             EEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCcHHHHHHHHHHhhccCeEEE
Confidence            45899999999999999999999999988888888888877888888889999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcCCC--eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~~~--~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      |||++++.||+.+..|+..+.....+  |++|||||+|+.......                                  
T Consensus        83 v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~~~~~~~----------------------------------  128 (175)
T d2f9la1          83 VYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVP----------------------------------  128 (175)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSC----------------------------------
T ss_pred             EEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEeeecccccccch----------------------------------
Confidence            99999999999999999998776544  999999999995321111                                  


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                              ...+..++..++++|+||||++|            .||+++|+.|+..+...
T Consensus       129 --------~~~~~~~~~~~~~~~~e~Sa~~g------------~~i~e~f~~l~~~i~~~  168 (175)
T d2f9la1         129 --------TDEARAFAEKNNLSFIETSALDS------------TNVEEAFKNILTEIYRI  168 (175)
T ss_dssp             --------HHHHHHHHHHTTCEEEECCTTTC------------TTHHHHHHHHHHHHHHH
T ss_pred             --------HHHHHHhhcccCceEEEEecCCC------------cCHHHHHHHHHHHHHHH
Confidence                    11256778888999999999999            99999999999887543

>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=99.97  E-value=9.6e-32  Score=224.54  Aligned_cols=163  Identities=17%  Similarity=0.223  Sum_probs=134.9

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      +...+||+|+|++|||||||+++|+++.|...+.+|.+.. ....+..++..+.+.+||++|++.+......+++.+|++
T Consensus         2 m~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~-~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~   80 (171)
T d2erya1           2 MQEKYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDS-YTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGF   80 (171)
T ss_dssp             CCCEEEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCCEE-EEEEEEETTEEEEEEEEECC----CCHHHHHHHHHCSEE
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCcccCcccccc-eeeeeeecccccccccccccccccccccccccccccceE
Confidence            3456899999999999999999999999988888887754 445666677889999999999999999888999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      ++|||+++++||+.+..|+..+...   ...|+|+||||+|+.....        +                        
T Consensus        81 ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~--------v------------------------  128 (171)
T d2erya1          81 LLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQ--------V------------------------  128 (171)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTSCS--------S------------------------
T ss_pred             EEeeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhhcc--------c------------------------
Confidence            9999999999999999999876543   2348999999999954221        1                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          203 LLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                        +.        ..+.++++.++++|+||||++|            .||+++|..|++.+.
T Consensus       129 --~~--------~~~~~~~~~~~~~~~e~Sak~~------------~~i~e~f~~l~~~i~  167 (171)
T d2erya1         129 --TQ--------EEGQQLARQLKVTYMEASAKIR------------MNVDQAFHELVRVIR  167 (171)
T ss_dssp             --CH--------HHHHHHHHHTTCEEEECBTTTT------------BSHHHHHHHHHHHHH
T ss_pred             --hH--------HHHHHHHHHcCCEEEEEcCCCC------------cCHHHHHHHHHHHHH
Confidence              11        2378999999999999999999            999999999998764

>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=99.97  E-value=9.8e-32  Score=223.43  Aligned_cols=160  Identities=18%  Similarity=0.240  Sum_probs=137.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +.+||+++|++|||||||++||+++.|...+.++.+.. +...+..++..+.+.+||++|++.+......++++++++++
T Consensus         2 k~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~-~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~il   80 (167)
T d1kaoa_           2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDF-YRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIL   80 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEE-EEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccCCceeee-eeeeeecCcceEeeccccCCCccccccchHHHhhcccceee
Confidence            45899999999999999999999999988888888754 44555667778999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |||++++.+|+.+..|+..+....   ..|++|||||+|+....        .+                          
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~--------~~--------------------------  126 (167)
T d1kaoa_          81 VYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESER--------EV--------------------------  126 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGC--------CS--------------------------
T ss_pred             eeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhcc--------cc--------------------------
Confidence            999999999999999998886542   23899999999995321        11                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                      .        ...+..+++.++++|+||||++|            .||+++|..|++.|
T Consensus       127 ~--------~~~~~~~~~~~~~~~~e~Sak~g------------~~i~e~f~~i~~~i  164 (167)
T d1kaoa_         127 S--------SSEGRALAEEWGCPFMETSAKSK------------TMVDELFAEIVRQM  164 (167)
T ss_dssp             C--------HHHHHHHHHHHTSCEEEECTTCH------------HHHHHHHHHHHHHH
T ss_pred             h--------HHHHHHHHHHcCCeEEEECCCCC------------cCHHHHHHHHHHHH
Confidence            1        12378999999999999999999            99999999999865

>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=99.97  E-value=1e-31  Score=227.02  Aligned_cols=174  Identities=14%  Similarity=0.209  Sum_probs=139.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +.+||+|+|++|||||||+++|+.+.|...+.+|++..+ ...+..++..+.+.+||++|++.|..++..++++++++|+
T Consensus         4 ~~iKivviG~~~vGKTsli~~~~~~~f~~~~~~ti~~~~-~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   82 (183)
T d1mh1a_           4 QAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLI   82 (183)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEE
T ss_pred             eeEEEEEECCCCCCHHHHHHHHHhCCCCcccccceeece-eeeeeccCcceEEEeecccccccchhhhhhcccccceeee
Confidence            458999999999999999999999999988888887544 4555667788999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHH-HHHHhhhcCCC-eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          128 VFNLNDLSTLDALKH-WVPSIDLQKFE-ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~-~~~~i~~~~~~-~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      |||+++++||+.+.. |...++..... |++|||||+|+.....+........                           
T Consensus        83 v~d~~~~~sf~~i~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~---------------------------  135 (183)
T d1mh1a_          83 CFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKK---------------------------  135 (183)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHTCHHHHHHHHHTT---------------------------
T ss_pred             eeccchHHHHHHHHHHHHHHHHHhCCCCcEEEEeecccchhhhhhhhhhhhcc---------------------------
Confidence            999999999999986 55556555443 9999999999864321111111100                           


Q ss_pred             CCCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          206 DEEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                         ........+..++++++ ++|+||||++|            .||+++|..|++.++.
T Consensus       136 ---~~~~~~~~~~~~a~~~~~~~~~E~SAk~~------------~~V~e~F~~l~~~il~  180 (183)
T d1mh1a_         136 ---LTPITYPQGLAMAKEIGAVKYLECSALTQ------------RGLKTVFDEAIRAVLC  180 (183)
T ss_dssp             ---CCCCCHHHHHHHHHHTTCSEEEECCTTTC------------TTHHHHHHHHHHHHSC
T ss_pred             ---ccchhhHHHHHHHHHcCCceEEEcCCCCC------------cCHHHHHHHHHHHHcC
Confidence               11122334788999888 79999999999            9999999999998764

>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=99.97  E-value=2.4e-31  Score=221.65  Aligned_cols=163  Identities=18%  Similarity=0.332  Sum_probs=141.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+|+|++|||||||+++|+++.|.+.+.+|.+..+....+...+..+.+.+||++|++.+..++..+++++|++|+||
T Consensus         4 iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~   83 (170)
T d1ek0a_           4 IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYRNAQAALVVY   83 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeeccccccccccccccccccCCchhHHHHHHHHHhccceEEEEE
Confidence            79999999999999999999999999999999999888888888888999999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      |++++.||+.+..|+..+.....  .|+++||||+|+.....     .+.+                             
T Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~-----~~~v-----------------------------  129 (170)
T d1ek0a_          84 DVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGG-----ERKV-----------------------------  129 (170)
T ss_dssp             ETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSC-----CCCS-----------------------------
T ss_pred             eCCcccchhhhhhhhhhhccccccccceeeeecccccccccc-----hhhh-----------------------------
Confidence            99999999999999887655433  38999999999853211     1111                             


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                           ....+.+++++++++|+||||++|            .||+++|..|++.|.
T Consensus       130 -----~~~~~~~~~~~~~~~~~e~Sak~g------------~gV~e~F~~i~~~i~  168 (170)
T d1ek0a_         130 -----AREEGEKLAEEKGLLFFETSAKTG------------ENVNDVFLGIGEKIP  168 (170)
T ss_dssp             -----CHHHHHHHHHHHTCEEEECCTTTC------------TTHHHHHHHHHTTSC
T ss_pred             -----hHHHHHHHHHHcCCEEEEecCCCC------------cCHHHHHHHHHHHhc
Confidence                 122378999999999999999999            999999999988764

>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=99.97  E-value=1.7e-31  Score=227.32  Aligned_cols=175  Identities=14%  Similarity=0.175  Sum_probs=137.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||++||+.+.|...+.+|.+..+ .......+..+.+.+||++|+++|..++..+++++|++|+|
T Consensus         3 ~iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   81 (191)
T d2ngra_           3 TIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVC   81 (191)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeeec-ceeEeeCCceeeeeccccccchhhhhhhhhcccccceeecc
Confidence            48999999999999999999999999988989988654 33444566678999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHH-HHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          129 FNLNDLSTLDALKHW-VPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~-~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      ||+++++||+.+..| ...+..... .|+++||||+|+.......    ...                          ..
T Consensus        82 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~~~~~~----~~~--------------------------~~  131 (191)
T d2ngra_          82 FSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTI----EKL--------------------------AK  131 (191)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGGCHHHH----HHH--------------------------HT
T ss_pred             cccchHHHHHHHHHHHHHHHhhcCCCCceEEEeccccccccchhh----hhh--------------------------hh
Confidence            999999999999864 455555443 3899999999996432111    111                          00


Q ss_pred             CCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          207 EEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                      ........+.+.+|+.+++ ++|+||||++|            .||+++|+.|++.++...
T Consensus       132 ~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~------------~~V~e~f~~l~~~~~~~~  180 (191)
T d2ngra_         132 NKQKPITPETAEKLARDLKAVKYVECSALTQ------------KGLKNVFDEAILAALEPP  180 (191)
T ss_dssp             TTCCCCCHHHHHHHHHHTTCSCEEECCTTTC------------TTHHHHHHHHHHHHTSCC
T ss_pred             cccccccHHHHHHHHHHcCCCeEEEEeCCCC------------cCHHHHHHHHHHHHhcCc
Confidence            0001111233889998864 79999999999            999999999998876654

>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=99.97  E-value=1.9e-31  Score=223.42  Aligned_cols=164  Identities=18%  Similarity=0.321  Sum_probs=138.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+|+|++|||||||+++|+++.+.+.+.++.............+..+.+.+||++|++.+..++..+++.+|++|+|
T Consensus         3 ~~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~ilv   82 (173)
T d2a5ja1           3 LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLV   82 (173)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccCccchhhHHHHHhhccCEEEEE
Confidence            47999999999999999999999999888888887777766666777789999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      ||++++.+|+.+..|+..+.....  .|++|||||+|+....        .+                          . 
T Consensus        83 ~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~~~~--------~~--------------------------~-  127 (173)
T d2a5ja1          83 YDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRR--------DV--------------------------K-  127 (173)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC--------CS--------------------------C-
T ss_pred             EeecChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchhhhh--------hh--------------------------H-
Confidence            999999999999999998877643  3999999999984321        11                          1 


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                             ...+..+++.++++|+||||++|            .||+++|..|++.++.++
T Consensus       128 -------~~~~~~~a~~~~~~~~e~Sa~tg------------~~V~e~f~~i~~~i~~~~  168 (173)
T d2a5ja1         128 -------REEGEAFAREHGLIFMETSAKTA------------CNVEEAFINTAKEIYRKI  168 (173)
T ss_dssp             -------HHHHHHHHHHHTCEEEEECTTTC------------TTHHHHHHHHHHHHHHHH
T ss_pred             -------HHHHHHHHHHcCCEEEEecCCCC------------CCHHHHHHHHHHHHHHHH
Confidence                   12378899999999999999999            999999999999887654

>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=99.97  E-value=9.6e-32  Score=225.18  Aligned_cols=166  Identities=19%  Similarity=0.299  Sum_probs=115.6

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      ...+||+|+|++|||||||+++|+++.+...+.+|.+.++....+..++..+.+.+|||+|++.|..++..++++++++|
T Consensus         4 ~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~i   83 (173)
T d2fu5c1           4 DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIM   83 (173)
T ss_dssp             SEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEE
T ss_pred             cEEEEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccCCCEEE
Confidence            44589999999999999999999999998888889988888888888888899999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhcCCC--eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~~~~--~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      +|||++++.||+.+..|...+......  |+++||||.|+.......                                 
T Consensus        84 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~~~~---------------------------------  130 (173)
T d2fu5c1          84 LVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVS---------------------------------  130 (173)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSC---------------------------------
T ss_pred             EEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccchhhcccH---------------------------------
Confidence            999999999999999999988655433  999999999996532211                                 


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                               ...+..++...+++|+||||++|            .||+++|.+|++.+...+
T Consensus       131 ---------~~~~~~~~~~~~~~~~e~Sa~~g------------~gv~e~f~~l~~~i~~k~  171 (173)
T d2fu5c1         131 ---------KERGEKLALDYGIKFMETSAKAN------------INVENAFFTLARDIKAKM  171 (173)
T ss_dssp             ---------HHHHHHHHHHHTCEEEECCC---------------CCHHHHHHHHHHHHHHHH
T ss_pred             ---------HHHHHHHHHhcCCEEEEEeCCCC------------CCHHHHHHHHHHHHHHhc
Confidence                     11267888899999999999999            999999999999875543

>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=99.97  E-value=3.3e-31  Score=220.43  Aligned_cols=161  Identities=16%  Similarity=0.209  Sum_probs=136.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +.+||+++|++|||||||++||..+.|.+.+.++.+..+ ...+..++..+.+.+||++|++.+..++..+++++|++|+
T Consensus         2 r~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   80 (167)
T d1c1ya_           2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFAL   80 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCccCCcccccc-ceeEEeeeeEEEeccccccCcccccccccccccccceeEE
Confidence            458999999999999999999999999988989988665 4455677788999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhc-C--CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQ-K--FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~-~--~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |||++++.||+.+..|+..+.+. .  ..|++|||||+|+.....        +                          
T Consensus        81 v~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~--------~--------------------------  126 (167)
T d1c1ya_          81 VYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERV--------V--------------------------  126 (167)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCC--------S--------------------------
T ss_pred             eeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcccccc--------c--------------------------
Confidence            99999999999999999888553 2  238999999999953221        1                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHc-CCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          205 GDEEPSWEIRRSCLEWCTEH-RIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~-~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                      +.        ..+..+++.+ +++|+||||++|            .||+++|+.|++.+.
T Consensus       127 ~~--------~~~~~~~~~~~~~~~~e~Sak~g------------~gv~e~F~~l~~~i~  166 (167)
T d1c1ya_         127 GK--------EQGQNLARQWCNCAFLESSAKSK------------INVNEIFYDLVRQIN  166 (167)
T ss_dssp             CH--------HHHHHHHHHTTSCEEEECBTTTT------------BSHHHHHHHHHHHHT
T ss_pred             ch--------hHHHHHHHHhCCCEEEEEcCCCC------------cCHHHHHHHHHHHhc
Confidence            11        1266777764 689999999999            999999999998764

>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=99.97  E-value=3.8e-32  Score=229.75  Aligned_cols=166  Identities=22%  Similarity=0.336  Sum_probs=139.6

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeec----------CcceEEEEEEEcCCchhhhcccc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINT----------KYYTADVSLWMAHLHEEFSIRSL  116 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~----------~~~~~~l~I~Dt~G~e~~~~~~~  116 (289)
                      ...+||+|+|++|||||||+++|+++.|...+.++.+..+....+..          ....+.+.+|||+|++.|..++.
T Consensus         3 d~~~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~~~~~~~   82 (186)
T d2f7sa1           3 DYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTT   82 (186)
T ss_dssp             SEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHH
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcchhhHHHHH
Confidence            34589999999999999999999999998888888777765554432          23457899999999999999999


Q ss_pred             ccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCC
Q 040295          117 PISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQS  193 (289)
Q Consensus       117 ~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~  193 (289)
                      .++++++++|+|||++++.+|+.+..|+..+....   .+|+++||||+|+..        .+.+               
T Consensus        83 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~--------~~~v---------------  139 (186)
T d2f7sa1          83 AFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPD--------QREV---------------  139 (186)
T ss_dssp             HHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGG--------GCCS---------------
T ss_pred             HHHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchh--------hhcc---------------
Confidence            99999999999999999999999999999886553   238999999999943        2222               


Q ss_pred             CCCcccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          194 GISETEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                                 +.        +++.+++++++++|+||||++|            +||+++|++|++.+..++
T Consensus       140 -----------~~--------~e~~~~~~~~~~~~~e~Sak~~------------~~i~e~f~~l~~~i~~k~  181 (186)
T d2f7sa1         140 -----------NE--------RQARELADKYGIPYFETSAATG------------QNVEKAVETLLDLIMKRM  181 (186)
T ss_dssp             -----------CH--------HHHHHHHHHTTCCEEEEBTTTT------------BTHHHHHHHHHHHHHHHH
T ss_pred             -----------hH--------HHHHHHHHHcCCEEEEEeCCCC------------CCHHHHHHHHHHHHHHHH
Confidence                       11        2378999999999999999999            999999999999887554

>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=99.97  E-value=9.2e-31  Score=218.32  Aligned_cols=163  Identities=18%  Similarity=0.308  Sum_probs=132.6

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCC-CCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDA-SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTAL  125 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~-~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~v  125 (289)
                      +..+||+|+|++|||||||+++|++++|... +.++.+.++....+...+..+.+.+|||+|++.+..++..+++++|++
T Consensus         4 d~~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~~   83 (170)
T d2g6ba1           4 DVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHAL   83 (170)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSEE
T ss_pred             ceEEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCchhhHHHHHHhhcCCcee
Confidence            3458999999999999999999999998644 566677888888888888899999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHhhhcCC--CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          126 VMVFNLNDLSTLDALKHWVPSIDLQKF--EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       126 IlV~Dv~~~~S~~~l~~~~~~i~~~~~--~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      ++|||++++++|+.+..|...+.....  .|+++||||+|+.....+.                                
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~~v~--------------------------------  131 (170)
T d2g6ba1          84 LLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVK--------------------------------  131 (170)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSC--------------------------------
T ss_pred             EEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechhhccccc--------------------------------
Confidence            999999999999999999887755543  3899999999996533221                                


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                .+.+..+++.++++|+||||++|            .||+++|++|++.+.
T Consensus       132 ----------~~~~~~~~~~~~~~~~e~Sak~g------------~gi~e~f~~l~~~i~  169 (170)
T d2g6ba1         132 ----------REDGEKLAKEYGLPFMETSAKTG------------LNVDLAFTAIAKELK  169 (170)
T ss_dssp             ----------HHHHHHHHHHHTCCEEECCTTTC------------TTHHHHHHHHHHHHH
T ss_pred             ----------HHHHHHHHHHcCCEEEEEeCCCC------------cCHHHHHHHHHHHcC
Confidence                      12278889999999999999999            999999999998764

>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=99.97  E-value=9e-32  Score=224.54  Aligned_cols=160  Identities=19%  Similarity=0.219  Sum_probs=132.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||++||+++.|.+.+.+|.+..+.... ..++..+.+.+||++|++.+.. ...++++++++++|
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~~~~~-~~~~~~~~l~i~D~~g~~~~~~-~~~~~~~~~~~ilv   79 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQA-TIDDEVVSMEILDTAGQEDTIQ-REGHMRWGEGFVLV   79 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEE-EETTEEEEEEEEECCCCCCCHH-HHHHHHHCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeccccccc-cccccceEEEEeeccccccccc-chhhhcccccceee
Confidence            389999999999999999999999999999999988775443 4466789999999999988754 44688899999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      ||++++++|+.+..|+..+...   ...|+++||||+|+..        .|.+                          +
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~--------~r~V--------------------------~  125 (168)
T d2atva1          80 YDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDH--------SRQV--------------------------S  125 (168)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGG--------GCCS--------------------------C
T ss_pred             cccCCccchhhhhhhcccccccccccCcceeeeccchhhhh--------hccC--------------------------c
Confidence            9999999999999887655332   3349999999999943        2333                          2


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchh-HHHHHHHHHHhccc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQG-VERLYGALSAHMWP  264 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~-i~~l~~~L~~~~~~  264 (289)
                      .+        ++.++++.++++|+||||++|            .| |+++|..|++.+..
T Consensus       126 ~~--------e~~~~a~~~~~~~~e~Saktg------------~gnV~e~F~~l~~~i~~  165 (168)
T d2atva1         126 TE--------EGEKLATELACAFYECSACTG------------EGNITEIFYELCREVRR  165 (168)
T ss_dssp             HH--------HHHHHHHHHTSEEEECCTTTC------------TTCHHHHHHHHHHHHHH
T ss_pred             HH--------HHHHHHHHhCCeEEEEccccC------------CcCHHHHHHHHHHHHHH
Confidence            22        288999999999999999999            84 99999999987643

>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=99.97  E-value=6.4e-31  Score=218.27  Aligned_cols=162  Identities=21%  Similarity=0.322  Sum_probs=137.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||+++|+.+++...+.+|.+.++....+...+..+.+.+|||||++.|..++..++++++++|+|
T Consensus         2 ~~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v   81 (166)
T d1g16a_           2 IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILV   81 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEE
Confidence            48999999999999999999999999989999999999888888899999999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcCCC--eEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQKFE--ILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~~~--~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      ||.++++||+.+..|+..+......  |+++++||.|+.+....                                    
T Consensus        82 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~~~~~------------------------------------  125 (166)
T d1g16a_          82 YDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRVVT------------------------------------  125 (166)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTCCSC------------------------------------
T ss_pred             EECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhhhhhhh------------------------------------
Confidence            9999999999999998887666544  88999999998543211                                    


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                             .+.+..++..++++|+||||++|            +||+++|++|++.+..+
T Consensus       126 -------~~~~~~~~~~~~~~~~~~Sa~~~------------~~v~e~f~~l~~~i~~k  165 (166)
T d1g16a_         126 -------ADQGEALAKELGIPFIESSAKND------------DNVNEIFFTLAKLIQEK  165 (166)
T ss_dssp             -------HHHHHHHHHHHTCCEEECBTTTT------------BSHHHHHHHHHHHHHHT
T ss_pred             -------HHHHHHHHHhcCCeEEEECCCCC------------CCHHHHHHHHHHHHHhc
Confidence                   12278889999999999999999            99999999999877543

>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=99.97  E-value=6.1e-31  Score=218.60  Aligned_cols=160  Identities=21%  Similarity=0.280  Sum_probs=138.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||+++|+++.|...+.++.+..+.. .+...+..+.+.+||++|++.+......+++.++++++|
T Consensus         3 e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~iiv   81 (166)
T d1ctqa_           3 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRK-QVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   81 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEE-EEEETTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeecc-ceeeeceeeeeeeeeccCccccccchhhhhhccccccee
Confidence            4899999999999999999999999998888898877654 345566789999999999999999899999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      ||++++.+|+.+..|+..+....   ..|+++||||+|+....         +                           
T Consensus        82 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~---------~---------------------------  125 (166)
T d1ctqa_          82 FAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAART---------V---------------------------  125 (166)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCSCCC---------S---------------------------
T ss_pred             ecccccccHHHHHHHHHHHHHhcCCCCCeEEEEeccccccccc---------c---------------------------
Confidence            99999999999999999987653   23899999999995321         0                           


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                             ..+.+..|++.++++|+||||++|            .||+++|..|++.+..
T Consensus       126 -------~~~~~~~~~~~~~~~~~e~Sak~g------------~gi~e~f~~i~~~i~~  165 (166)
T d1ctqa_         126 -------ESRQAQDLARSYGIPYIETSAKTR------------QGVEDAFYTLVREIRQ  165 (166)
T ss_dssp             -------CHHHHHHHHHHHTCCEEECCTTTC------------TTHHHHHHHHHHHHHT
T ss_pred             -------cHHHHHHHHHHhCCeEEEEcCCCC------------cCHHHHHHHHHHHHHh
Confidence                   112378999999999999999999            9999999999987754

>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=99.97  E-value=4.2e-30  Score=215.83  Aligned_cols=167  Identities=22%  Similarity=0.342  Sum_probs=146.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +.+||+++|++|||||||+++|.++.|...+.++.+..+....+..++..+.+.+|||+|++.+..++..++++++++|+
T Consensus         6 ~~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~   85 (177)
T d1x3sa1           6 TTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVIL   85 (177)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHHHHHhcCCEEEE
Confidence            34899999999999999999999999998888888888877777788888999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcCC---CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQKF---EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~~---~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |||++++.+|+.+..|+..+.+...   .|+++++||.|.....         +                          
T Consensus        86 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~~~~---------v--------------------------  130 (177)
T d1x3sa1          86 VYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENRE---------V--------------------------  130 (177)
T ss_dssp             EEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSCC---------S--------------------------
T ss_pred             EEECCCccccccchhhhhhhcccccccceeeEEEeecccccccc---------c--------------------------
Confidence            9999999999999999999876532   3889999999985321         1                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcccc
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMVLK  269 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~~~  269 (289)
                      +        ...+.++++.++++|++|||++|            .||+++|++|++.++....|-
T Consensus       131 ~--------~~~~~~~~~~~~~~~~e~Sa~tg------------~gv~e~f~~l~~~l~~~p~l~  175 (177)
T d1x3sa1         131 D--------RNEGLKFARKHSMLFIEASAKTC------------DGVQCAFEELVEKIIQTPGLW  175 (177)
T ss_dssp             C--------HHHHHHHHHHTTCEEEECCTTTC------------TTHHHHHHHHHHHHHTSGGGT
T ss_pred             c--------HHHHHHHHHHCCCEEEEEeCCCC------------CCHHHHHHHHHHHHccCcccc
Confidence            1        12277899999999999999999            999999999999998776543

>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=99.97  E-value=2.3e-30  Score=218.57  Aligned_cols=173  Identities=16%  Similarity=0.130  Sum_probs=134.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      +.||+++|++|||||||++||+.+.|...+.+|.+..+ ...+..++..+.+.+||++|++.+...+..+++++|++|+|
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLIC   80 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCccCCceeecc-cccccccceEEeeccccccccccccccccchhhhhhhhhee
Confidence            36999999999999999999999999988888887544 34455677889999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHH-HHhhhcC-CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          129 FNLNDLSTLDALKHWV-PSIDLQK-FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~-~~i~~~~-~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      ||+++++||+.+..|. ..+.... ..|+++||||+|+.......    ....                  ...      
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~----~~~~------------------~~~------  132 (179)
T d1m7ba_          81 FDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTL----VELS------------------NHR------  132 (179)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHH----HHHH------------------TTT------
T ss_pred             eecccCCCHHHHHHHHHHHHhccCCcceEEEEEecccccccchhh----HHHh------------------hhh------
Confidence            9999999999998655 4454443 34999999999985432111    0010                  000      


Q ss_pred             CCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchh-HHHHHHHHHHhccc
Q 040295          207 EEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQG-VERLYGALSAHMWP  264 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~-i~~l~~~L~~~~~~  264 (289)
                        .......++..++++++ ++|+||||++|            ++ |+++|+.+++.++.
T Consensus       133 --~~~V~~~e~~~~a~~~~~~~y~E~SAk~~------------~n~i~~~F~~~~~~~l~  178 (179)
T d1m7ba_         133 --QTPVSYDQGANMAKQIGAATYIECSALQS------------ENSVRDIFHVATLACVN  178 (179)
T ss_dssp             --CCCCCHHHHHHHHHHHTCSEEEECBTTTB------------HHHHHHHHHHHHHHHHT
T ss_pred             --cCcchHHHHHHHHHHhCCCeEEEEeCCCC------------CcCHHHHHHHHHHHHhc
Confidence              00111233788999887 58999999999            95 99999999987753

>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=99.97  E-value=7.6e-31  Score=219.13  Aligned_cols=164  Identities=16%  Similarity=0.288  Sum_probs=123.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEee-cCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTIN-TKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~-~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      .+||+++|++|||||||+++|.+++|.+.+.++.+......... .......+.+|||+|++.+...+..+++.++++++
T Consensus         2 ~~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   81 (175)
T d1ky3a_           2 ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVL   81 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchhhhhHHHHHhhccceEEE
Confidence            48999999999999999999999999888888877665544443 44456778999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhc------CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQ------KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~------~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      |||++++.||+.+..|+..+...      ...|+++||||+|+...       ++.+                       
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~-------~~~v-----------------------  131 (175)
T d1ky3a_          82 VYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEES-------KKIV-----------------------  131 (175)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGG-------GCCS-----------------------
T ss_pred             EeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhh-------hcch-----------------------
Confidence            99999999999999999988543      12289999999999531       1111                       


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                         +.        ..+++++..++ ++|+||||++|            .||+++|++|++.++.+
T Consensus       132 ---~~--------~~~~~~~~~~~~~~~~e~SA~~g------------~gv~e~f~~l~~~~l~~  173 (175)
T d1ky3a_         132 ---SE--------KSAQELAKSLGDIPLFLTSAKNA------------INVDTAFEEIARSALQQ  173 (175)
T ss_dssp             ---CH--------HHHHHHHHHTTSCCEEEEBTTTT------------BSHHHHHHHHHHHHHHH
T ss_pred             ---hH--------HHHHHHHHHcCCCeEEEEeCCCC------------cCHHHHHHHHHHHHHhc
Confidence               11        22788999886 78999999999            99999999999888654

>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=99.97  E-value=1.7e-30  Score=214.99  Aligned_cols=160  Identities=21%  Similarity=0.349  Sum_probs=134.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc-cccccccCccEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI-RSLPISDQLTALVM  127 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~-~~~~~~~~ad~vIl  127 (289)
                      .+||+++|++|||||||+++|++++|...+.++.+..+.............+.+||++|.+.+.. .+..+++++|++|+
T Consensus         2 ~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~il   81 (165)
T d1z06a1           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVF   81 (165)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEeccCchhhccccceeeecCCCceEE
Confidence            48999999999999999999999999988888988888777777777888999999999887755 45678999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLL  204 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (289)
                      |||+++++||+.+..|+..+....   ..|++|||||+|+...        +++                          
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~--------~~v--------------------------  127 (165)
T d1z06a1          82 VYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSA--------IQV--------------------------  127 (165)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGG--------CCS--------------------------
T ss_pred             EEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhc--------cch--------------------------
Confidence            999999999999999999986653   2399999999999532        222                          


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHH
Q 040295          205 GDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALS  259 (289)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~  259 (289)
                      +.        +.++.+|+.++++|+||||+++         .+.+||+++|++|+
T Consensus       128 ~~--------~~~~~~~~~~~~~~~e~SAkt~---------~~~~~V~e~F~~lA  165 (165)
T d1z06a1         128 PT--------DLAQKFADTHSMPLFETSAKNP---------NDNDHVEAIFMTLA  165 (165)
T ss_dssp             CH--------HHHHHHHHHTTCCEEECCSSSG---------GGGSCHHHHHHHHC
T ss_pred             hH--------HHHHHHHHHCCCEEEEEecccC---------CcCcCHHHHHHHhC
Confidence            12        2278999999999999999985         11269999999873

>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=99.97  E-value=2.6e-30  Score=216.30  Aligned_cols=162  Identities=15%  Similarity=0.327  Sum_probs=136.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +.+||+|+|++|||||||+++|.++.|.+.+.+|.+..+....+...+..+.+.+||++|+..+...+..++..++++++
T Consensus         5 ~~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~   84 (174)
T d1wmsa_           5 SLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLL   84 (174)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCcceehhhhhhhhhccceEEE
Confidence            34899999999999999999999999999999999988877777778888999999999999998888899999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhc------CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQ------KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~------~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      |||++++.||+.+..|+..+...      ...|+++||||+|+...         .+                       
T Consensus        85 ~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~~---------~v-----------------------  132 (174)
T d1wmsa_          85 TFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISER---------QV-----------------------  132 (174)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSSC---------SS-----------------------
T ss_pred             EEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchhhc---------cC-----------------------
Confidence            99999999999999999887543      12389999999999431         11                       


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                         +.        +++++|+++++ ++|+||||++|            +||+++|+.|++.++.
T Consensus       133 ---~~--------~~~~~~~~~~~~~~~~e~Sak~~------------~gI~e~f~~l~~~il~  173 (174)
T d1wmsa_         133 ---ST--------EEAQAWCRDNGDYPYFETSAKDA------------TNVAAAFEEAVRRVLA  173 (174)
T ss_dssp             ---CH--------HHHHHHHHHTTCCCEEECCTTTC------------TTHHHHHHHHHHHHHT
T ss_pred             ---cH--------HHHHHHHHHcCCCeEEEEcCCCC------------cCHHHHHHHHHHHHhc
Confidence               11        22788998875 79999999999            9999999999988753

>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=99.97  E-value=1.5e-30  Score=217.98  Aligned_cols=160  Identities=16%  Similarity=0.150  Sum_probs=129.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCcceEEeeEEeecCcceEEEEEEEcC---CchhhhccccccccCccE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFED-ASDSSSELLVNGWTINTKYYTADVSLWMAH---LHEEFSIRSLPISDQLTA  124 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~---G~e~~~~~~~~~~~~ad~  124 (289)
                      -+||+++|++|||||||+++|.+..+.. ...++.+.+++...+..++..+.+.+||++   |+++|  +...+++++|+
T Consensus         3 ~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~e~~--~~~~~~~~~~~   80 (172)
T d2g3ya1           3 YYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDA   80 (172)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHH--HHHCCCCCCSE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeeccccccccccc--cccccccccce
Confidence            3899999999999999999999887653 344566666666777777778888899865   67766  45678999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHhhhcC---CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          125 LVMVFNLNDLSTLDALKHWVPSIDLQK---FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       125 vIlV~Dv~~~~S~~~l~~~~~~i~~~~---~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      +|+|||++++.||+.+..|+..+....   ..|+++||||+|+..        .|++                       
T Consensus        81 ~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~--------~~~v-----------------------  129 (172)
T d2g3ya1          81 YLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVR--------CREV-----------------------  129 (172)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGG--------GCCS-----------------------
T ss_pred             eeeeecccccchhhhhhhhhhhhhhccccCCceEEEEeccccccc--------cccc-----------------------
Confidence            999999999999999999998886542   349999999999943        2223                       


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                         +.+        .+++++..++++|+||||++|            .||+++|+.|++.+..
T Consensus       130 ---~~~--------~~~~~a~~~~~~~~e~Sak~g------------~~i~~~f~~l~~~i~~  169 (172)
T d2g3ya1         130 ---SVS--------EGRACAVVFDCKFIETSAAVQ------------HNVKELFEGIVRQVRL  169 (172)
T ss_dssp             ---CHH--------HHHHHHHHHTCEEEECBTTTT------------BSHHHHHHHHHHHHHH
T ss_pred             ---cHH--------HHHHHHHHcCCeEEEEeCCCC------------cCHHHHHHHHHHHHHH
Confidence               222        278899999999999999999            9999999999987754

>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=99.96  E-value=5.2e-29  Score=210.16  Aligned_cols=163  Identities=18%  Similarity=0.345  Sum_probs=140.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+|+|++|||||||+++|+++.|...+.+|.+.++........+..+.+.+||++|++.+...+..++..++++++||
T Consensus         3 ~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~   82 (184)
T d1vg8a_           3 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVF   82 (184)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCceEEEEeeecCCcccccccccccccCccEEEEee
Confidence            79999999999999999999999999999999999888888888888899999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhcC------CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQK------FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~~------~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      |.+++.+|+.+..|+..+....      ..|+++||||+|+.....                                  
T Consensus        83 d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~~~~----------------------------------  128 (184)
T d1vg8a_          83 DVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQV----------------------------------  128 (184)
T ss_dssp             ETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCCS----------------------------------
T ss_pred             cccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeecccccch----------------------------------
Confidence            9999999999999998885542      228999999999853211                                  


Q ss_pred             CCCCCCcHHHHHHHHHHHHH-cCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCcc
Q 040295          204 LGDEEPSWEIRRSCLEWCTE-HRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGMV  267 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~-~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~~  267 (289)
                               ....+..++.. ++++|+||||++|            .||.++|++|++.++.+..
T Consensus       129 ---------~~~~~~~~~~~~~~~~~~e~Sak~~------------~gI~e~f~~l~~~i~~~~~  172 (184)
T d1vg8a_         129 ---------ATKRAQAWCYSKNNIPYFETSAKEA------------INVEQAFQTIARNALKQET  172 (184)
T ss_dssp             ---------CHHHHHHHHHHTTSCCEEECBTTTT------------BSHHHHHHHHHHHHHHHHH
T ss_pred             ---------hHHHHHHHHHHhcCCeEEEEcCCCC------------cCHHHHHHHHHHHHHhccc
Confidence                     01124566654 5789999999999            9999999999998876643

>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=99.96  E-value=2e-28  Score=206.41  Aligned_cols=160  Identities=18%  Similarity=0.266  Sum_probs=127.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      +.+||+++|++|||||||+++|+++.|.. +.++.+..+ ...+..++..+.+.+|||+|++.+     .|++++|++|+
T Consensus         4 p~~ki~vlG~~~vGKTsLi~~~~~~~f~~-~~~t~~~~~-~~~i~v~~~~~~l~i~Dt~g~~~~-----~~~~~ad~~il   76 (175)
T d2bmja1           4 PELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQY-KKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVIF   76 (175)
T ss_dssp             CEEEEEEECCTTTTHHHHHHHHHHSCCCC-CCCSSCEEE-EEEEEETTEEEEEEEEECSSCCCH-----HHHHHCSEEEE
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHhCCCCC-cCCccceeE-EEEeecCceEEEEEEeeccccccc-----ccccccceeEE
Confidence            45999999999999999999999999864 445555544 455566778899999999999876     37889999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHhhhcC-----CCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCC
Q 040295          128 VFNLNDLSTLDALKHWVPSIDLQK-----FEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSS  202 (289)
Q Consensus       128 V~Dv~~~~S~~~l~~~~~~i~~~~-----~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (289)
                      |||+++++||+.+..|+..+...+     ..|+++||||.|+.....      +.+                        
T Consensus        77 Vfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~------~~v------------------------  126 (175)
T d2bmja1          77 VFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSP------RVV------------------------  126 (175)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSC------CCS------------------------
T ss_pred             EeecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhh------cch------------------------
Confidence            999999999999999998885442     228999999999853211      111                        


Q ss_pred             CCCCCCCcHHHHHHHHHHHHH-cCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccCc
Q 040295          203 LLGDEEPSWEIRRSCLEWCTE-HRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPGM  266 (289)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~-~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~~  266 (289)
                        +.        ..+..|+.. ++++|+||||++|            .||+++|..|++.++...
T Consensus       127 --~~--------~~~~~~~~~~~~~~~~e~SAk~~------------~~v~~~F~~l~~~i~~~~  169 (175)
T d2bmja1         127 --GD--------ARARALCADMKRCSYYETCATYG------------LNVDRVFQEVAQKVVTLR  169 (175)
T ss_dssp             --CH--------HHHHHHHHTSTTEEEEEEBTTTT------------BTHHHHHHHHHHHHHHHH
T ss_pred             --hH--------HHHHHHHHHhCCCeEEEeCCCCC------------cCHHHHHHHHHHHHHHhh
Confidence              11        226788654 5789999999999            999999999999886543

>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=99.95  E-value=4.6e-28  Score=200.65  Aligned_cols=159  Identities=17%  Similarity=0.183  Sum_probs=128.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+|+|++|||||||+++|..+++.+.+.+|.+..+.....  .  .+.+.+||++|++.+...+..+++.++++++|
T Consensus         2 e~ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~~~~~~~~--~--~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v   77 (164)
T d1zd9a1           2 EMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRKITK--G--NVTIKLWDIGGQPRFRSMWERYCRGVSAIVYM   77 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEE--T--TEEEEEEEECCSHHHHTTHHHHHTTCSEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCCCCCcccccceeeeeeeee--e--eEEEEEeeccccccccccccccccccchhhcc
Confidence            3799999999999999999999999988888999877654432  2  46899999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      ||++++.+|+.+..|+..+...   ...|+++||||.|+.....     .+.+                           
T Consensus        78 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~~~-----~~~i---------------------------  125 (164)
T d1zd9a1          78 VDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALD-----EKEL---------------------------  125 (164)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCC-----HHHH---------------------------
T ss_pred             cccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccchhhh-----HHHH---------------------------
Confidence            9999999999999888877443   2349999999999854321     1212                           


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                             .......++...+++++|+||++|            .||+++|++|++++
T Consensus       126 -------~~~~~~~~~~~~~~~~~e~Sa~~g------------~gv~e~~~~l~~~~  163 (164)
T d1zd9a1         126 -------IEKMNLSAIQDREICCYSISCKEK------------DNIDITLQWLIQHS  163 (164)
T ss_dssp             -------HHHTTGGGCCSSCEEEEECCTTTC------------TTHHHHHHHHHHTC
T ss_pred             -------HHHHHHHHHHhCCCEEEEEeCcCC------------cCHHHHHHHHHHcc
Confidence                   000022334455778999999999            99999999999865

>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=99.95  E-value=9e-28  Score=200.18  Aligned_cols=165  Identities=16%  Similarity=0.218  Sum_probs=125.4

Q ss_pred             cccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccC
Q 040295           42 DRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQ  121 (289)
Q Consensus        42 ~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~  121 (289)
                      ......+.+||+++|++|||||||+++|.++++.. ..++.+..+..  +...  .+.+.+||++|++.++..+..+++.
T Consensus         9 ~~~~~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~-~~~~~~~~~~~--i~~~--~~~~~i~d~~g~~~~~~~~~~~~~~   83 (176)
T d1fzqa_           9 LKSAPDQEVRILLLGLDNAGKTTLLKQLASEDISH-ITPTQGFNIKS--VQSQ--GFKLNVWDIGGQRKIRPYWRSYFEN   83 (176)
T ss_dssp             CSSCCSSCEEEEEEESTTSSHHHHHHHHCCSCCEE-EEEETTEEEEE--EEET--TEEEEEEECSSCGGGHHHHHHHHTT
T ss_pred             hhCCCCCEEEEEEECCCCCCHHHHHHHHhcCCCCc-ceeeeeeeEEE--eccC--CeeEeEeeccccccchhHHHHHhhc
Confidence            34455667999999999999999999999998753 33445544433  3223  4679999999999999999999999


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcc
Q 040295          122 LTALVMVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISET  198 (289)
Q Consensus       122 ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~  198 (289)
                      ++++|+|||++++.+|..+..|+..+...   ...|+++||||+|+....... +..+.+                    
T Consensus        84 ~~~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~~~~-~~~~~~--------------------  142 (176)
T d1fzqa_          84 TDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPAS-EIAEGL--------------------  142 (176)
T ss_dssp             CSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCCHH-HHHHHT--------------------
T ss_pred             cceeEEeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEeccccccccHH-HHHHHH--------------------
Confidence            99999999999999999999888776443   234999999999996532210 111111                    


Q ss_pred             cCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          199 EGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                        ...++...++++++|||++|            +||+++|++|++++
T Consensus       143 ------------------~~~~~~~~~~~~~~~SA~tg------------~gv~e~~~~l~~~i  176 (176)
T d1fzqa_         143 ------------------NLHTIRDRVWQIQSCSALTG------------EGVQDGMNWVCKNV  176 (176)
T ss_dssp             ------------------TGGGCCSSCEEEEECCTTTC------------TTHHHHHHHHHHTC
T ss_pred             ------------------HHHHHHhcCCEEEEEeCCCC------------CCHHHHHHHHHhcC
Confidence                              11233345678999999999            99999999999864

>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=99.94  E-value=1.1e-26  Score=191.76  Aligned_cols=159  Identities=16%  Similarity=0.171  Sum_probs=121.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+|+|++|||||||+++|.+..+ ..+.+|.+.....  +...  .+.+.+||++|++.++..+..+++.++++++|
T Consensus         2 ~~ki~ivG~~~~GKTsLi~~l~~~~~-~~~~~t~~~~~~~--~~~~--~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v   76 (165)
T d1ksha_           2 ELRLLMLGLDNAGKTTILKKFNGEDV-DTISPTLGFNIKT--LEHR--GFKLNIWDVGGQKSLRSYWRNYFESTDGLIWV   76 (165)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCCC-SSCCCCSSEEEEE--EEET--TEEEEEEEECCSHHHHTTGGGGCTTCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHcCCCC-CcccceEeeeeee--cccc--ccceeeeecCcchhhhhHHHhhhhhhhcceee
Confidence            48999999999999999999998876 4566777765543  3333  46799999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhh-c--CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDL-Q--KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~-~--~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      ||+++..++..+..|+..... .  ...|+++||||+|+....... +....+                           
T Consensus        77 ~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~-~~~~~~---------------------------  128 (165)
T d1ksha_          77 VDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCN-AIQEAL---------------------------  128 (165)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHH-HHHHHT---------------------------
T ss_pred             eecccchhHHHHHHhhhhhhhhcccCCCceEEEEeccccccccCHH-HHHHHH---------------------------
Confidence            999999999988866655432 2  344999999999995433211 111111                           


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                 ........++++++|||++|            +||+++|++|+.++.
T Consensus       129 -----------~~~~~~~~~~~~~~~Sa~~g------------~gv~e~~~~l~~~i~  163 (165)
T d1ksha_         129 -----------ELDSIRSHHWRIQGCSAVTG------------EDLLPGIDWLLDDIS  163 (165)
T ss_dssp             -----------TGGGCCSSCEEEEECCTTTC------------TTHHHHHHHHHHHHH
T ss_pred             -----------HhhhhhcCCCEEEEEECCCC------------CCHHHHHHHHHHHHH
Confidence                       01112234568999999999            999999999998764

>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=99.94  E-value=7.2e-27  Score=195.00  Aligned_cols=158  Identities=19%  Similarity=0.200  Sum_probs=120.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||++||..+.+.. ..+|.+..+...    ....+.+.+||++|++.++..+..+++.++++|+|
T Consensus        12 ~~kIvlvG~~~vGKTSli~rl~~~~~~~-~~~t~~~~~~~~----~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v   86 (173)
T d1e0sa_          12 EMRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVGFNVETV----TYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFV   86 (173)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTTCCCCEE-EEEETTEEEEEE----EETTEEEEEEEESCCGGGHHHHGGGTTTCCEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCC-ccceeeeeEEEe----eccceeeEEecCCCcchhhhHHHhhhcccceEEEE
Confidence            4899999999999999999999888643 334555443322    23347899999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      ||+++..++..+..|+..+...   ...|+++||||+|+..... ..+...+.                           
T Consensus        87 ~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~~~-~~~i~~~~---------------------------  138 (173)
T d1e0sa_          87 VDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMK-PHEIQEKL---------------------------  138 (173)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCC-HHHHHHHT---------------------------
T ss_pred             EecccchhHHHHHHHHHHHhhhcccccceeeeeeeccccccccc-HHHHHHHH---------------------------
Confidence            9999999999999888765432   3459999999999954321 11111111                           


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                 +...+...++.+++|||++|            +||+++|++|..++
T Consensus       139 -----------~~~~~~~~~~~~~e~SA~tg------------~gv~e~~~~l~~~~  172 (173)
T d1e0sa_         139 -----------GLTRIRDRNWYVQPSCATSG------------DGLYEGLTWLTSNY  172 (173)
T ss_dssp             -----------TGGGCCSSCEEEEECBTTTT------------BTHHHHHHHHHHHC
T ss_pred             -----------HHHHHHhCCCEEEEeeCCCC------------cCHHHHHHHHHHhc
Confidence                       12233445678999999999            99999999998875

>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=99.94  E-value=8e-27  Score=196.04  Aligned_cols=162  Identities=16%  Similarity=0.123  Sum_probs=119.4

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      .+.+||+++|++|||||||+++|.++.+. ...+|.+.......  .  ..+.+.+||++|++.++..+..+++.+++++
T Consensus        15 ~k~~KI~lvG~~~vGKTsLi~~l~~~~~~-~~~~t~~~~~~~~~--~--~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii   89 (182)
T d1moza_          15 NKELRILILGLDGAGKTTILYRLQIGEVV-TTKPTIGFNVETLS--Y--KNLKLNVWDLGGQTSIRPYWRCYYADTAAVI   89 (182)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEEE-EECSSTTCCEEEEE--E--TTEEEEEEEEC----CCTTGGGTTTTEEEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCC-ccccccceEEEEEe--e--CCEEEEEEecccccccchhHHhhhccceeEE
Confidence            34589999999999999999999888764 34466665544332  2  2478999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      +|||++++.++..+..|+..+...   ...|+++||||+|+.....     .+++.                        
T Consensus        90 ~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~~~-----~~~i~------------------------  140 (182)
T d1moza_          90 FVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGALS-----ASEVS------------------------  140 (182)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCCC-----HHHHH------------------------
T ss_pred             EEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeeccccccC-----HHHHH------------------------
Confidence            999999999999999887665332   2349999999999954221     12220                        


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                .......+...+++|++|||++|            +||+++|++|++.+..
T Consensus       141 ----------~~~~~~~~~~~~~~~~e~SA~~g------------~gv~e~~~~l~~~i~~  179 (182)
T d1moza_         141 ----------KELNLVELKDRSWSIVASSAIKG------------EGITEGLDWLIDVIKE  179 (182)
T ss_dssp             ----------HHTTTTTCCSSCEEEEEEBGGGT------------BTHHHHHHHHHHHHHH
T ss_pred             ----------HHHHHHHHhhCCCEEEEEECCCC------------CCHHHHHHHHHHHHHH
Confidence                      00011223345678999999999            9999999999987643

>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=99.93  E-value=1.2e-25  Score=182.60  Aligned_cols=157  Identities=18%  Similarity=0.191  Sum_probs=122.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVF  129 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~  129 (289)
                      +||+|+|++|||||||+++|.++++...+..+....   ...  +...+.+.+||++|.+.+......+++.++++++||
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~---~~~--~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~   75 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNV---ETV--EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCSSCCE---EEE--ECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccccceeeEE---EEE--eeeeEEEEEecCCCcccchhhhhhhhccceeEEEEE
Confidence            599999999999999999999998865544333221   122  334578999999999999888889999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCC
Q 040295          130 NLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGD  206 (289)
Q Consensus       130 Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (289)
                      |++++.++..+..|+..+...   ...|+++++||.|+.....     .+++                            
T Consensus        76 d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~~-----~~~i----------------------------  122 (160)
T d1r8sa_          76 DSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMN-----AAEI----------------------------  122 (160)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC-----HHHH----------------------------
T ss_pred             EecChHHHHHHHHHHHHHHHhhcccCceEEEEeeccccccccc-----HHHH----------------------------
Confidence            999999999999888777443   3449999999999964321     1222                            


Q ss_pred             CCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          207 EEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                            .......+++..+++|++|||++|            +||+++|++|++++
T Consensus       123 ------~~~~~~~~~~~~~~~~~~~SAktg------------~gi~e~~~~l~~~l  160 (160)
T d1r8sa_         123 ------TDKLGLHSLRHRNWYIQATCATSG------------DGLYEGLDWLSNQL  160 (160)
T ss_dssp             ------HHHTTGGGCSSCCEEEEECBTTTT------------BTHHHHHHHHHHHC
T ss_pred             ------HHHHHHHHHhhCCCEEEEeECCCC------------CCHHHHHHHHHhcC
Confidence                  011123455556788999999999            99999999998764

>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=99.88  E-value=3.8e-22  Score=162.50  Aligned_cols=161  Identities=17%  Similarity=0.154  Sum_probs=122.2

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEE
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALV  126 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vI  126 (289)
                      .+.+||+|+|++|||||||+++|.++++.. ..++.+.......    ...+.+.+||.+|.+.+......++..+++++
T Consensus         3 ~ke~kI~ivG~~~vGKSSLi~~~~~~~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (169)
T d1upta_           3 TREMRILILGLDGAGKTTILYRLQVGEVVT-TIPTIGFNVETVT----YKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVI   77 (169)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHSSCCC-CCCCSSEEEEEEE----ETTEEEEEEEECCCGGGGGGGGGGCTTCSEEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhCCCCcc-eecccceeeeeec----cCceEEEEeeccccccccccchhhhhhhhhhh
Confidence            455899999999999999999999999864 3345554333222    22467899999999999988888999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHhhh---cCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          127 MVFNLNDLSTLDALKHWVPSIDL---QKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       127 lV~Dv~~~~S~~~l~~~~~~i~~---~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      +++|+++..++.....+......   ....|+++|+||.|+.....     .+++                         
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~~-----~~~i-------------------------  127 (169)
T d1upta_          78 YVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMT-----SSEM-------------------------  127 (169)
T ss_dssp             EEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC-----HHHH-------------------------
T ss_pred             hhhhhhhcchhhhccchhhhhhhhhccccceEEEEEeecccccccc-----HHHH-------------------------
Confidence            99999999999888876554432   23458999999999965322     1111                         


Q ss_pred             CCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          204 LGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                               ....+..++...+++|++|||++|            +||+++|++|.+.+.
T Consensus       128 ---------~~~~~~~~~~~~~~~~~~~SA~~g------------~gv~e~~~~l~~~l~  166 (169)
T d1upta_         128 ---------ANSLGLPALKDRKWQIFKTSATKG------------TGLDEAMEWLVETLK  166 (169)
T ss_dssp             ---------HHHHTGGGCTTSCEEEEECCTTTC------------TTHHHHHHHHHHHHH
T ss_pred             ---------HHHHHHHHHhcCCCEEEEEeCCCC------------CCHHHHHHHHHHHHH
Confidence                     111133455667789999999999            999999999998764

>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=99.88  E-value=2.2e-23  Score=174.64  Aligned_cols=108  Identities=14%  Similarity=0.222  Sum_probs=84.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|+.|||||||++||..++++     |.+....  .+  ....+.+++|||+|++.|+.++..|++.++++++|
T Consensus         2 e~KivllG~~~vGKTsl~~r~~~~~~~-----t~~~~~~--~~--~~~~~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~v   72 (195)
T d1svsa1           2 EVKLLLLGAGESGKSTIVKQMKIIHEA-----GTGIVET--HF--TFKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIFC   72 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHSC-----CCSEEEE--EE--EETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCCCC-----CccEEEE--EE--EeeeeeeeeeccccccccccchhhcccCCceeeeE
Confidence            479999999999999999999987764     3443222  22  23356899999999999999999999999999999


Q ss_pred             EeCCCHhhHH-----------HHHHHHHHhhhc--CCCeEEEEeeCCCCC
Q 040295          129 FNLNDLSTLD-----------ALKHWVPSIDLQ--KFEILLCIGNKVDLL  165 (289)
Q Consensus       129 ~Dv~~~~S~~-----------~l~~~~~~i~~~--~~~~iivvgnK~Dl~  165 (289)
                      ||+++..+|.           ....|..-+...  ...|++++|||+|+.
T Consensus        73 ~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~  122 (195)
T d1svsa1          73 VALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLF  122 (195)
T ss_dssp             EEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHH
T ss_pred             EeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhh
Confidence            9999888773           333454444332  334999999999984

>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=99.88  E-value=1.2e-22  Score=168.29  Aligned_cols=158  Identities=17%  Similarity=0.170  Sum_probs=112.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+|+|.+|||||||++|+.++++... .++.+.......  .  ....+.+||+++++........++..++++++|
T Consensus        15 ~~kI~vvG~~~~GKSsLi~rl~~~~~~~~-~~~~~~~~~~~~--~--~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~i~v   89 (177)
T d1zj6a1          15 EHKVIIVGLDNAGKTTILYQFSMNEVVHT-SPTIGSNVEEIV--I--NNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVV   89 (177)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTTSCEEE-ECCSCSSCEEEE--E--TTEEEEEEECCC----CGGGHHHHTTCCEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCcc-ccccceeEEEEe--e--cceEEEEeccccccccccchhhhhccceeeeee
Confidence            48999999999999999999999887533 233332222222  1  236799999999999988888899999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      +|.++..+++....+.......   ...|+++||||+|+...... .+.....                           
T Consensus        90 ~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~-~~i~~~~---------------------------  141 (177)
T d1zj6a1          90 VDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTV-AEISQFL---------------------------  141 (177)
T ss_dssp             EETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCH-HHHHHHH---------------------------
T ss_pred             cccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccCcH-HHHHHHH---------------------------
Confidence            9999999999887655544322   44599999999998543221 1111111                           


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                 ....+...+++|++|||++|            +||+++|++|++++
T Consensus       142 -----------~~~~~~~~~~~~~~~Sa~tg------------~Gi~e~~~~L~~~l  175 (177)
T d1zj6a1         142 -----------KLTSIKDHQWHIQACCALTG------------EGLCQGLEWMMSRL  175 (177)
T ss_dssp             -----------TGGGCCSSCEEEEECBTTTT------------BTHHHHHHHHHHHH
T ss_pred             -----------HHHhhHhcCCEEEEEeCCCC------------CCHHHHHHHHHHHh
Confidence                       11122334678999999999            99999999999865

>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=99.88  E-value=6.8e-23  Score=172.22  Aligned_cols=111  Identities=12%  Similarity=0.168  Sum_probs=93.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||++||..+.|.  +.+|+|..+....  .  ..+.+++||++|++.++..+..+++.++++++|
T Consensus         2 e~Kiv~lG~~~vGKTsll~r~~~~~~~--~~pTiG~~~~~~~--~--~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~   75 (200)
T d2bcjq2           2 ELKLLLLGTGESGKSTFIKQMRIIHGS--GVPTTGIIEYPFD--L--QSVIFRMVDVGGQRSERRKWIHCFENVTSIMFL   75 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHTSS--CCCCCSCEEEEEE--C--SSCEEEEEECCCSTTGGGGGGGGCSSCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCCC--CCceeeEEEEEEe--c--cceeeeeccccccccccccccccccccceeeEe
Confidence            479999999999999999999988874  6689998765443  2  346799999999999999999999999999999


Q ss_pred             EeCCCHh-----------hHHHHHHHHHHhhhc--CCCeEEEEeeCCCCC
Q 040295          129 FNLNDLS-----------TLDALKHWVPSIDLQ--KFEILLCIGNKVDLL  165 (289)
Q Consensus       129 ~Dv~~~~-----------S~~~l~~~~~~i~~~--~~~~iivvgnK~Dl~  165 (289)
                      ||.++..           .++.+..|...+...  ...|++++|||.|+.
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~  125 (200)
T d2bcjq2          76 VALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLL  125 (200)
T ss_dssp             EEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHH
T ss_pred             eeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhh
Confidence            9988654           566777888877554  344999999999995

>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=99.88  E-value=9e-22  Score=158.96  Aligned_cols=161  Identities=16%  Similarity=0.106  Sum_probs=118.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEEEe
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFN  130 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~D  130 (289)
                      ||+++|++|||||||+++|.++++. .+.+|.+.......    .....+.+||++|...+......+++.+++++++||
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~-~~~~t~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d   76 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPTSEELA----IGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVD   76 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCC-CCCCCCSCEEEEEC----CTTCCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC-eeeceeeEeEEEec----cCCeeEEEEeeccchhhhhhHhhhhhheeeeeeecc
Confidence            8999999999999999999999875 45666665554332    223568999999999999999999999999999999


Q ss_pred             CCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCCCC
Q 040295          131 LNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLGDE  207 (289)
Q Consensus       131 v~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (289)
                      .++..++.....|.......   ...|+++++||.|+...... .+....+.               ..        ...
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~~~~-~~i~~~~~---------------~~--------~~~  132 (166)
T d2qtvb1          77 AADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAVSE-AELRSALG---------------LL--------NTT  132 (166)
T ss_dssp             TTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSCCCH-HHHHHHHT---------------CS--------SCC
T ss_pred             ccchhhhhhhhHHHHhhhhhhccCCceEEEEeccccccccCCH-HHHHHHhh---------------hh--------hhh
Confidence            99999999988877766443   23389999999999653321 12222220               00        011


Q ss_pred             CCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          208 EPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                      +        ...+.....++|++|||++|            +||+++|++|++
T Consensus       133 ~--------~~~~~~~~~~~~~~~SA~tg------------~Gv~e~~~~l~~  165 (166)
T d2qtvb1         133 G--------SQRIEGQRPVEVFMCSVVMR------------NGYLEAFQWLSQ  165 (166)
T ss_dssp             C-----------CCSSCCEEEEEEBTTTT------------BSHHHHHHHHTT
T ss_pred             H--------HHhhcccCCCEEEEeeCCCC------------CCHHHHHHHHhC
Confidence            1        12222334568999999999            999999999975

>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=99.85  E-value=5.3e-21  Score=159.64  Aligned_cols=152  Identities=19%  Similarity=0.140  Sum_probs=102.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCC--CCCCcceEEeeEEeecCcceEEEEEEEcCCchhhh--------cccccccc
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDA--SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFS--------IRSLPISD  120 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~--~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~--------~~~~~~~~  120 (289)
                      +|+|+|.+|||||||+++|++.+....  ...+....... .....  ...+.+|||||.....        .....+++
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~-~~~~~--~~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~~   83 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRG-ILTEG--RRQIVFVDTPGLHKPMDALGEFMDQEVYEALA   83 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEE-EEEET--TEEEEEEECCCCCCCCSHHHHHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeecccCCcccccccc-eeeee--eeeeeecccccccccccccchhcccccccccc
Confidence            699999999999999999998864322  11111111111 12222  3578999999974332        22234467


Q ss_pred             CccEEEEEEeCCCHhhHHHHHHHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCccc
Q 040295          121 QLTALVMVFNLNDLSTLDALKHWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETE  199 (289)
Q Consensus       121 ~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~  199 (289)
                      .+|++|+|+|++++.+... ..|...++.... .|+++|+||+|+...       ....                     
T Consensus        84 ~ad~il~v~D~~~~~~~~~-~~i~~~l~~~~~~~piilv~NK~Dl~~~-------~~~~---------------------  134 (178)
T d1wf3a1          84 DVNAVVWVVDLRHPPTPED-ELVARALKPLVGKVPILLVGNKLDAAKY-------PEEA---------------------  134 (178)
T ss_dssp             SCSEEEEEEETTSCCCHHH-HHHHHHHGGGTTTSCEEEEEECGGGCSS-------HHHH---------------------
T ss_pred             cccceeeeechhhhhcccc-cchhhheeccccchhhhhhhcccccccC-------HHHH---------------------
Confidence            8999999999987655433 345555555433 489999999999642       1111                     


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          200 GSSLLGDEEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                       ...+....+ .+++++||++|            .|++++++.|++.+.
T Consensus       135 -----------------~~~~~~~~~~~~~~~iSA~~~------------~gi~~L~~~i~~~lp  170 (178)
T d1wf3a1         135 -----------------MKAYHELLPEAEPRMLSALDE------------RQVAELKADLLALMP  170 (178)
T ss_dssp             -----------------HHHHHHTSTTSEEEECCTTCH------------HHHHHHHHHHHTTCC
T ss_pred             -----------------HHHHHhhcccCceEEEecCCC------------CCHHHHHHHHHHhCC
Confidence                             344555455 46899999999            999999999998664

>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=99.85  E-value=9.3e-22  Score=165.87  Aligned_cols=110  Identities=17%  Similarity=0.193  Sum_probs=80.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      .+||+++|++|||||||++||.   +...+.+|+|.......+    ....+.+||++|++.++..+..+++.++++++|
T Consensus         2 ~iKivllG~~~vGKTsll~r~~---f~~~~~pTiG~~~~~~~~----~~~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~~   74 (200)
T d1zcba2           2 LVKILLLGAGESGKSTFLKQMR---IIHGQDPTKGIHEYDFEI----KNVPFKMVDVGGQRSERKRWFECFDSVTSILFL   74 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH---HHHSCCCCSSEEEEEEEE----TTEEEEEEEECC-------CTTSCTTCCEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHh---cCCCCCCeeeeEEEEEee----eeeeeeeecccceeeecccccccccccceeEEE
Confidence            4899999999999999999993   555677899976654433    356799999999999999999999999999999


Q ss_pred             EeCCCHhh----------HHHHHHHHHHhhh---cCCCeEEEEeeCCCCC
Q 040295          129 FNLNDLST----------LDALKHWVPSIDL---QKFEILLCIGNKVDLL  165 (289)
Q Consensus       129 ~Dv~~~~S----------~~~l~~~~~~i~~---~~~~~iivvgnK~Dl~  165 (289)
                      ||.++..+          ++....|+..+-.   ....|++|||||+|+.
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~  124 (200)
T d1zcba2          75 VSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLL  124 (200)
T ss_dssp             EETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHH
T ss_pred             EEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhh
Confidence            99987543          3444455554422   2345999999999985

>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=99.83  E-value=6.6e-22  Score=161.68  Aligned_cols=151  Identities=17%  Similarity=0.130  Sum_probs=107.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCC-CCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhc--------cccccc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDA-SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSI--------RSLPIS  119 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~-~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~--------~~~~~~  119 (289)
                      ++||+++|++|||||||+++|++.+.... ..++.........+...  ...+.+||++|......        ....++
T Consensus         1 ~~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~   78 (161)
T d2gj8a1           1 GMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHID--GMPLHIIDTAGLREASDEVERIGIERAWQEI   78 (161)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEET--TEEEEEEECCCCSCCSSHHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeecc--CceeeeccccccccccccchhHHHHHHHHHH
Confidence            48999999999999999999998875422 22222222222233333  35688999998633211        123446


Q ss_pred             cCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCC-CeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcc
Q 040295          120 DQLTALVMVFNLNDLSTLDALKHWVPSIDLQKF-EILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISET  198 (289)
Q Consensus       120 ~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~-~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~  198 (289)
                      ..+|++++++|..++.+++....|...+..... .|+|+|+||+|+.+...                             
T Consensus        79 ~~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~iilv~NK~Dl~~~~~-----------------------------  129 (161)
T d2gj8a1          79 EQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKADITGETL-----------------------------  129 (161)
T ss_dssp             HTCSEEEEEEETTTCCCCSHHHHCHHHHHHSCTTCCEEEEEECHHHHCCCC-----------------------------
T ss_pred             HhccccceeeccccccchhhhhhhhhhhhhcccccceeeccchhhhhhhHH-----------------------------
Confidence            789999999999999888888877777665543 48999999999854210                             


Q ss_pred             cCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          199 EGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                          .+....+.+++++||++|            +||++++++|++.|
T Consensus       130 --------------------~~~~~~~~~~~~iSAk~~------------~gi~~L~~~l~~~l  161 (161)
T d2gj8a1         130 --------------------GMSEVNGHALIRLSARTG------------EGVDVLRNHLKQSM  161 (161)
T ss_dssp             --------------------EEEEETTEEEEECCTTTC------------TTHHHHHHHHHHHC
T ss_pred             --------------------HHHHhCCCcEEEEECCCC------------CCHHHHHHHHHhhC
Confidence                                001113568999999999            99999999998864

>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=99.83  E-value=1.1e-20  Score=156.07  Aligned_cols=170  Identities=16%  Similarity=0.122  Sum_probs=110.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEEE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVMV  128 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV  128 (289)
                      ..||+++|++|||||||+++|.++.+... .++.+........  .  ...+.+||+.++..+...+..+.+..+++++|
T Consensus        13 ~~kI~lvG~~~vGKTsLl~~l~~~~~~~~-~~~~~~~~~~~~~--~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (186)
T d1f6ba_          13 TGKLVFLGLDNAGKTTLLHMLKDDRLGQH-VPTLHPTSEELTI--A--GMTFTTFDLGGHIQARRVWKNYLPAINGIVFL   87 (186)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSCEEEEE--T--TEEEEEEEECC----CCGGGGGGGGCSEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCcce-ecccccceeEEEe--c--ccccccccccchhhhhhHHhhhhcccceeeee
Confidence            47999999999999999999999887543 3444443333322  2  24578999999999988888999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHhhhc---CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCCCC
Q 040295          129 FNLNDLSTLDALKHWVPSIDLQ---KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSLLG  205 (289)
Q Consensus       129 ~Dv~~~~S~~~l~~~~~~i~~~---~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (289)
                      +|+++...+.....+.......   ...|+++++||.|+..... ..+...... +           ........     
T Consensus        88 ~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~~~~-~~~i~~~~~-~-----------~~~~~~~~-----  149 (186)
T d1f6ba_          88 VDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAIS-EERLREMFG-L-----------YGQTTGKG-----  149 (186)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTCCC-HHHHHHHHT-C-----------TTTCCCSS-----
T ss_pred             eeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCccccCC-HHHHHHHHh-h-----------cccchhhh-----
Confidence            9999999999887655444322   3449999999999865332 111122220 0           00000000     


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          206 DEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                       ..        ........++++++|||++|            +||+++|++|++.+
T Consensus       150 -~~--------~~~~~~~~~~~~~~~SA~tg------------~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         150 -SV--------SLKELNARPLEVFMCSVLKR------------QGYGEGFRWMAQYI  185 (186)
T ss_dssp             -CC--------CTTTCCSCCEEEEECBTTTT------------BSHHHHHHHHHTTC
T ss_pred             -hh--------hHHHhhcCCCEEEEEeCCCC------------CCHHHHHHHHHHhh
Confidence             00        01111234568999999999            99999999999764

>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=99.79  E-value=2.6e-19  Score=149.28  Aligned_cols=154  Identities=20%  Similarity=0.144  Sum_probs=100.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCC--CCCcceEEeeEEeecCcceEEEEEEEcCCchhh----hccc---ccccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDAS--DSSSELLVNGWTINTKYYTADVSLWMAHLHEEF----SIRS---LPISD  120 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~--~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~----~~~~---~~~~~  120 (289)
                      ..|+|+|.+|||||||+|+|++.+.....  ..+....+ .......  ...+.+|||||....    ....   ...+.
T Consensus         2 ~~VaivG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~~~-~~~~~~~--~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~   78 (180)
T d1udxa2           2 ADVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNL-GVVEVSE--EERFTLADIPGIIEGASEGKGLGLEFLRHIA   78 (180)
T ss_dssp             CSEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEE-EEEECSS--SCEEEEEECCCCCCCGGGSCCSCHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceeccCCCceeeee-ceeeecC--CCeEEEcCCCeeecCchHHHHHHHHHHHHHH
Confidence            35999999999999999999987653222  12222222 2222222  345889999995321    1111   13356


Q ss_pred             CccEEEEEEeCCCH--hhHHHHHHHHHHhhhc-CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCc
Q 040295          121 QLTALVMVFNLNDL--STLDALKHWVPSIDLQ-KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISE  197 (289)
Q Consensus       121 ~ad~vIlV~Dv~~~--~S~~~l~~~~~~i~~~-~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~  197 (289)
                      .++++++++|+...  ..+.....|+...... ...|+|+|+||+|+...        +.+                   
T Consensus        79 ~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~D~~~~--------~~~-------------------  131 (180)
T d1udxa2          79 RTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE--------EAV-------------------  131 (180)
T ss_dssp             SSSEEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH--------HHH-------------------
T ss_pred             hhhhhhhhcccccccccchhhhhhhhhccccccchhhhhhhhhhhhhhhH--------HHH-------------------
Confidence            78999999998643  3444444555443222 22489999999999642        111                   


Q ss_pred             ccCCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          198 TEGSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       198 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                       +...+.....+.+++++||++|            +||+++++.|.+.+
T Consensus       132 -----------------~~~~~~~~~~~~~~~~iSA~tg------------~gid~L~~~i~~~l  167 (180)
T d1udxa2         132 -----------------KALADALAREGLAVLPVSALTG------------AGLPALKEALHALV  167 (180)
T ss_dssp             -----------------HHHHHHHHTTTSCEEECCTTTC------------TTHHHHHHHHHHHH
T ss_pred             -----------------HHHHHHHHhcCCeEEEEEcCCC------------CCHHHHHHHHHHHH
Confidence                             1145556667889999999999            99999999998765

>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=99.77  E-value=4.5e-18  Score=144.68  Aligned_cols=117  Identities=18%  Similarity=0.203  Sum_probs=87.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhh-ccccccccCccEEEEEE
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFS-IRSLPISDQLTALVMVF  129 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~-~~~~~~~~~ad~vIlV~  129 (289)
                      +|+|+|++|||||||+++|+++.+...+ +|.+..+....+. ....+.+.+||++|++.++ ..+..+++.++++++||
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~~~~~~-~t~~~~~~~~~~~-~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~   79 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQYRDTQ-TSITDSSAIYKVN-NNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVV   79 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCBC-CCCSCEEEEEECS-STTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCccc-CCeeEEEEEEEEe-eeeeeeeeeeeccccccccchhhhhhhhhccccceEE
Confidence            5999999999999999999999886544 5666555544443 4456789999999999885 45567889999999999


Q ss_pred             eCCCHhhH-HHHHHHHHHh----hhc-CCCeEEEEeeCCCCCCCCC
Q 040295          130 NLNDLSTL-DALKHWVPSI----DLQ-KFEILLCIGNKVDLLPGHP  169 (289)
Q Consensus       130 Dv~~~~S~-~~l~~~~~~i----~~~-~~~~iivvgnK~Dl~~~~~  169 (289)
                      |+++..++ .....|+..+    ... +..|++||+||+|+....+
T Consensus        80 D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a~~  125 (207)
T d2fh5b1          80 DSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKS  125 (207)
T ss_dssp             ETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCC
T ss_pred             EcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCCCC
Confidence            99987764 4444444333    222 3459999999999975443

>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=99.77  E-value=9.9e-19  Score=144.52  Aligned_cols=155  Identities=15%  Similarity=0.135  Sum_probs=94.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhh---------hccccccccC
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF---------SIRSLPISDQ  121 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~---------~~~~~~~~~~  121 (289)
                      +|+|+|++|||||||+++|++....... ...+.+..............+.+||++|....         ......++..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVE-DEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIRE   80 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC---------------CCSEEEEEETTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcceec-ccCceeeccccccccccccccccccccceeeeecccccccccccccccccc
Confidence            6999999999999999999987653211 11111111111112223456899999984211         1122234678


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCC
Q 040295          122 LTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGS  201 (289)
Q Consensus       122 ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  201 (289)
                      +|+++++.|.+....... ..|+..++..+. |+|+|+||+|+..      +...++                       
T Consensus        81 ad~i~~~~~~~~~~~~~~-~~~~~~l~~~~~-pviiv~NK~Dl~~------~~~~~~-----------------------  129 (171)
T d1mkya1          81 ADLVLFVVDGKRGITKED-ESLADFLRKSTV-DTILVANKAENLR------EFEREV-----------------------  129 (171)
T ss_dssp             CSEEEEEEETTTCCCHHH-HHHHHHHHHHTC-CEEEEEESCCSHH------HHHHHT-----------------------
T ss_pred             CcEEEEeecccccccccc-cccccccccccc-cccccchhhhhhh------hhhhHH-----------------------
Confidence            999999999876544433 345555555443 7889999999942      111222                       


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          202 SLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                     ..++......+++++||++|            .|+++++++|++.+.+
T Consensus       130 ---------------~~~~~~~~~~~~i~iSAk~g------------~gid~L~~~i~~~l~e  165 (171)
T d1mkya1         130 ---------------KPELYSLGFGEPIPVSAEHN------------INLDTMLETIIKKLEE  165 (171)
T ss_dssp             ---------------HHHHGGGSSCSCEECBTTTT------------BSHHHHHHHHHHHHHH
T ss_pred             ---------------HHHHHhcCCCCeEEEecCCC------------CCHHHHHHHHHHhCCC
Confidence                           33444433346899999999            9999999999986643

>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=99.76  E-value=1.4e-18  Score=150.57  Aligned_cols=110  Identities=16%  Similarity=0.272  Sum_probs=84.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      ..+||+++|++|||||||+++|..+++.    +|.|.......+  +  .+.+++||++|++.++..+..+++.++++++
T Consensus         5 ~~~KilllG~~~vGKTsll~~~~~~~~~----pTiG~~~~~~~~--~--~~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii~   76 (221)
T d1azta2           5 ATHRLLLLGAGESGKSTIVKQMRILHVV----LTSGIFETKFQV--D--KVNFHMFDVGGQRDERRKWIQCFNDVTAIIF   76 (221)
T ss_dssp             HSEEEEEECSTTSSHHHHHHHHHHHHCC----CCCSCEEEEEEE--T--TEEEEEEECCCSTTTTTGGGGGCTTCSEEEE
T ss_pred             hcCEEEEECCCCCCHHHHHHHHhcCCcC----CCCCeEEEEEEE--C--cEEEEEEecCccceeccchhhhcccccceEE
Confidence            3589999999999999999999877653    788866544333  2  4689999999999999999999999999999


Q ss_pred             EEeCCCHh----------hH-HHHHHHHHHhhhc--CCCeEEEEeeCCCCC
Q 040295          128 VFNLNDLS----------TL-DALKHWVPSIDLQ--KFEILLCIGNKVDLL  165 (289)
Q Consensus       128 V~Dv~~~~----------S~-~~l~~~~~~i~~~--~~~~iivvgnK~Dl~  165 (289)
                      |+|+++..          .+ +....|..-+...  ...|++|+|||+|+.
T Consensus        77 v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~  127 (221)
T d1azta2          77 VVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLL  127 (221)
T ss_dssp             EEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHH
T ss_pred             EEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhh
Confidence            99988543          22 2333333333322  334999999999995

>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=99.74  E-value=9.2e-19  Score=142.51  Aligned_cols=149  Identities=17%  Similarity=0.141  Sum_probs=95.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCC-CCCcceEEeeEEeecCcceEEEEEEEcCCchhhh--cc-------ccccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDAS-DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFS--IR-------SLPIS  119 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~-~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~--~~-------~~~~~  119 (289)
                      +||+++|.+|||||||+|+|++.+..... .+..........+...  ...+.+|||||.....  ..       ....+
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~   78 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIR--GILFRIVDTAGVRSETNDLVERLGIERTLQEI   78 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEET--TEEEEEEESSCCCSSCCTTCCCCCHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeeccccccccceeEEEEeC--CeeEEeccccccccCCccHHHHHHHHHHHHHH
Confidence            58999999999999999999987643221 1111111112222223  3568899999942110  00       11225


Q ss_pred             cCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCccc
Q 040295          120 DQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETE  199 (289)
Q Consensus       120 ~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~  199 (289)
                      +.+|++|+|+|.+++...+...-+..    ....++++++||+|+.....     ...+                     
T Consensus        79 ~~ad~ii~v~d~~~~~~~~~~~~~~~----~~~~~~i~~~~k~d~~~~~~-----~~~~---------------------  128 (160)
T d1xzpa2          79 EKADIVLFVLDASSPLDEEDRKILER----IKNKRYLVVINKVDVVEKIN-----EEEI---------------------  128 (160)
T ss_dssp             HHCSEEEEEEETTSCCCHHHHHHHHH----HTTSSEEEEEEECSSCCCCC-----HHHH---------------------
T ss_pred             HhCCEEEEEEeCCCCcchhhhhhhhh----cccccceeeeeeccccchhh-----hHHH---------------------
Confidence            67999999999998877665443322    13347888999999975321     1111                     


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHHHHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          200 GSSLLGDEEPSWEIRRSCLEWCTEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                       ...+  ..+.+++++||++|            .|+++++++|.+.
T Consensus       129 -----------------~~~~--~~~~~~~~vSA~~g------------~gi~~L~~~I~ke  159 (160)
T d1xzpa2         129 -----------------KNKL--GTDRHMVKISALKG------------EGLEKLEESIYRE  159 (160)
T ss_dssp             -----------------HHHH--TCSTTEEEEEGGGT------------CCHHHHHHHHHHH
T ss_pred             -----------------HHHh--CCCCcEEEEECCCC------------CCHHHHHHHHHhc
Confidence                             1111  23467999999999            9999999998764

>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=99.74  E-value=5.3e-18  Score=141.91  Aligned_cols=160  Identities=18%  Similarity=0.141  Sum_probs=99.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEee-----cCcceEEEEEEEcCCchhhhccccccccCcc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTIN-----TKYYTADVSLWMAHLHEEFSIRSLPISDQLT  123 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~-----~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad  123 (289)
                      .++|+|+|++|+|||||+|+|++.........+...........     .......+.++|++|+..|.......+..+|
T Consensus         5 ~inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~l~~~d   84 (179)
T d1wb1a4           5 NINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLENYRITLVDAPGHADLIRAVVSAADIID   84 (179)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETTEEEEECCCSSHHHHHHHHHHHTTSCC
T ss_pred             CEEEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccCCccccccccccccccccchhhhhhhcc
Confidence            47899999999999999999996543221111111111111111     1112356889999999988877777888999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccCCCC
Q 040295          124 ALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEGSSL  203 (289)
Q Consensus       124 ~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (289)
                      ++++|+|.++....+....| ..+...+ .|+++|.||+|+...     +..+..                         
T Consensus        85 ~~ilv~d~~~g~~~~~~~~~-~~~~~~~-~p~iiv~NKiD~~~~-----~~~~~~-------------------------  132 (179)
T d1wb1a4          85 LALIVVDAKEGPKTQTGEHM-LILDHFN-IPIIVVITKSDNAGT-----EEIKRT-------------------------  132 (179)
T ss_dssp             EEEEEEETTTCSCHHHHHHH-HHHHHTT-CCBCEEEECTTSSCH-----HHHHHH-------------------------
T ss_pred             ccccccccccccchhhhhhh-hhhhhcC-CcceeccccccccCH-----HHHHHH-------------------------
Confidence            99999999875443333222 2233333 368889999999642     111111                         


Q ss_pred             CCCCCCcHHHHHHHHHHHHH----cCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          204 LGDEEPSWEIRRSCLEWCTE----HRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~----~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                ......+...    .+.+++++||++|            +|++++++.|.+.+
T Consensus       133 ----------~~~~~~~~~~~~~~~~~~iv~iSA~~g------------~gi~eL~~~I~~~l  173 (179)
T d1wb1a4         133 ----------EMIMKSILQSTHNLKNSSIIPISAKTG------------FGVDELKNLIITTL  173 (179)
T ss_dssp             ----------HHHHHHHHHHSSSGGGCCEEECCTTTC------------TTHHHHHHHHHHHH
T ss_pred             ----------HHHHHHHHHHhhcCCCCeEEEEEccCC------------cCHHHHHHHHHhcC
Confidence                      0012233322    2357999999999            99999999998754

>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=99.72  E-value=5.1e-17  Score=134.76  Aligned_cols=109  Identities=16%  Similarity=0.065  Sum_probs=66.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCch-----------hhh----ccc
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHE-----------EFS----IRS  115 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e-----------~~~----~~~  115 (289)
                      .|+|+|.+|||||||+|++++.+......+.....  ...+...    .+.+|||||..           .+.    ...
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~~~~~~g~T~~--~~~~~~~----~~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~   75 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRK--IIEIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFI   75 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTS--CEEEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCEeec--ccccccc----cceecccCCceeccccccccccccchhhhhhh
Confidence            58999999999999999999887643222211111  1122222    26789999952           111    112


Q ss_pred             cccccCccEEEEEEeCCCHhhHHHHH----------HHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          116 LPISDQLTALVMVFNLNDLSTLDALK----------HWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       116 ~~~~~~ad~vIlV~Dv~~~~S~~~l~----------~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ....+.+|++++|+|.+.........          .++..+.. ...|+|+|+||+|+..
T Consensus        76 ~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~-~~~p~iiv~NK~D~~~  135 (184)
T d2cxxa1          76 EDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE-LDIPTIVAVNKLDKIK  135 (184)
T ss_dssp             HHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHH-TTCCEEEEEECGGGCS
T ss_pred             hhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHH-cCCCEEEEEeeeehhh
Confidence            23456789999999987553332211          12223333 3447999999999864

>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=2e-17  Score=137.78  Aligned_cols=162  Identities=14%  Similarity=0.053  Sum_probs=95.5

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCC--CCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcc---------
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFE--DASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIR---------  114 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~--~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~---------  114 (289)
                      ....+||+|+|.+|||||||+|+|++.+..  .....+..... ...+..++  ..+.++|++|.......         
T Consensus         5 ~~~~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~~~~~-~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~   81 (186)
T d1mkya2           5 ITDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPV-DDEVFIDG--RKYVFVDTAGLRRKSRVEPRTVEKYS   81 (186)
T ss_dssp             CCSCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------C-CEEEEETT--EEEEESSCSCC-----------CCSC
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHCCCcceeecccccccccc-eeeeccCC--ceeeeeccCCccccccccccccccch
Confidence            445699999999999999999999987642  12222221111 11222232  34788899886433221         


Q ss_pred             ---ccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCccc
Q 040295          115 ---SLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFC  191 (289)
Q Consensus       115 ---~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~  191 (289)
                         ....++.+|++++|+|++.+..-+ ...++..+.. ...|+|+|+||+|+......                     
T Consensus        82 ~~~~~~~~~~~dvii~v~d~~~~~~~~-~~~~~~~~~~-~~~~~i~v~nK~D~~~~~~~---------------------  138 (186)
T d1mkya2          82 NYRVVDSIEKADVVVIVLDATQGITRQ-DQRMAGLMER-RGRASVVVFNKWDLVVHREK---------------------  138 (186)
T ss_dssp             CHHHHHHHHHCSEEEEEEETTTCCCHH-HHHHHHHHHH-TTCEEEEEEECGGGSTTGGG---------------------
T ss_pred             hHHHHHHHhcCCEEEEeecccccchhh-HHHHHHHHHH-cCCceeeeccchhhhcchhh---------------------
Confidence               123356789999999998653322 2233333443 34588999999999643210                     


Q ss_pred             CCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          192 QSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       192 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                       ...+..+...+.....+ .+++++||++|            .|++++++.|.+.+
T Consensus       139 -----------------~~~~~~~~~~~~~~~~~~~~i~~vSa~~g------------~gv~~L~~~i~~~~  181 (186)
T d1mkya2         139 -----------------RYDEFTKLFREKLYFIDYSPLIFTSADKG------------WNIDRMIDAMNLAY  181 (186)
T ss_dssp             -----------------CHHHHHHHHHHHCGGGTTSCEEECBTTTT------------BSHHHHHHHHHHHH
T ss_pred             -----------------hhhhHHHHHHHHhcccCCCeEEEEeCCCC------------CCHHHHHHHHHHHH
Confidence                             11111112222222233 47999999999            99999999996643

>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=99.68  E-value=1.2e-16  Score=134.57  Aligned_cols=162  Identities=16%  Similarity=0.187  Sum_probs=90.4

Q ss_pred             cccccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcce--EEeeEEeecCcceEEEEEEEcCCch----------
Q 040295           42 DRASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSEL--LVNGWTINTKYYTADVSLWMAHLHE----------  109 (289)
Q Consensus        42 ~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~--~~~~~~i~~~~~~~~l~I~Dt~G~e----------  109 (289)
                      .+.......+|+|+|.+|||||||+|+|++.+.........+.  ......+  ..   .+.+.|++|..          
T Consensus        16 ~~~p~~~~~~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~~~~--~~---~~~~~d~~~~~~~~~~~~~~~   90 (195)
T d1svia_          16 EQYPEGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYII--ND---ELHFVDVPGYGFAKVSKSERE   90 (195)
T ss_dssp             GGSCCSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEE--TT---TEEEEECCCBCCCSSCHHHHH
T ss_pred             hHCCCCCCCEEEEECCCCCCHHHHHHHhcCCCceEEeecccceeeecccccc--cc---cceEEEEEeeccccccccccc
Confidence            3444444569999999999999999999986542222121111  1111121  11   13445555421          


Q ss_pred             hhhc---cccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCC
Q 040295          110 EFSI---RSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSA  186 (289)
Q Consensus       110 ~~~~---~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~  186 (289)
                      ....   ........++++++|.|.+++..-. -..++..++.. ..|+++|+||+|+.+...     ....        
T Consensus        91 ~~~~~~~~~~~~~~~~~~vi~viD~~~~~~~~-~~~~~~~l~~~-~~piivv~NK~D~~~~~~-----~~~~--------  155 (195)
T d1svia_          91 AWGRMIETYITTREELKAVVQIVDLRHAPSND-DVQMYEFLKYY-GIPVIVIATKADKIPKGK-----WDKH--------  155 (195)
T ss_dssp             HHHHHHHHHHHHCTTEEEEEEEEETTSCCCHH-HHHHHHHHHHT-TCCEEEEEECGGGSCGGG-----HHHH--------
T ss_pred             hhhhHHhhhhccccchhhhhhhhhcccccccc-ccccccccccc-cCcceechhhccccCHHH-----HHHH--------
Confidence            1111   1113345679999999997653221 12344444443 347999999999864211     1111        


Q ss_pred             CCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHH-HHcCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          187 DPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWC-TEHRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       187 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                                 .+...+.. .....+++.+||++|            +|+++++++|.+.+
T Consensus       156 ---------------------------~~~~~~~l~~~~~~~~~~~SA~~~------------~gi~el~~~i~~~l  193 (195)
T d1svia_         156 ---------------------------AKVVRQTLNIDPEDELILFSSETK------------KGKDEAWGAIKKMI  193 (195)
T ss_dssp             ---------------------------HHHHHHHHTCCTTSEEEECCTTTC------------TTHHHHHHHHHHHH
T ss_pred             ---------------------------HHHHHHHhcccCCCCEEEEeCCCC------------CCHHHHHHHHHHHh
Confidence                                       11122222 223457999999999            99999999998764

>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=99.68  E-value=2.9e-17  Score=137.06  Aligned_cols=153  Identities=13%  Similarity=0.049  Sum_probs=92.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCC-C-CCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcc----cc---cccc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDA-S-DSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIR----SL---PISD  120 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~-~-~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~----~~---~~~~  120 (289)
                      .+|+|+|++|||||||+|+|.+.+.... + ..|.......... .++  ..+.+|||||.......    ..   ..+.
T Consensus         2 ~~VaiiG~~nvGKSSLin~L~~~~~~~~~~~~~T~~~~~~~~~~-~~~--~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~   78 (185)
T d1lnza2           2 ADVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVET-DDG--RSFVMADLPGLIEGAHQGVGLGHQFLRHIE   78 (185)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEEC-SSS--CEEEEEEHHHHHHHTTCTTTTHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHhCCCCceecCCCceEeeeeceeEe-cCC--cEEEEecCCCcccCchHHHHHHHHHHHHHH
Confidence            4699999999999999999988764322 1 1222222222222 222  25789999996322211    11   1234


Q ss_pred             CccEEEEEEeCCCHhhHHHHH---HHHHHhhhc----CCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCC
Q 040295          121 QLTALVMVFNLNDLSTLDALK---HWVPSIDLQ----KFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQS  193 (289)
Q Consensus       121 ~ad~vIlV~Dv~~~~S~~~l~---~~~~~i~~~----~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~  193 (289)
                      .++.++++.+...........   .+.......    ...|+|+|+||+|+...       .. .               
T Consensus        79 ~~~~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~-------~~-~---------------  135 (185)
T d1lnza2          79 RTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEA-------AE-N---------------  135 (185)
T ss_dssp             HCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTH-------HH-H---------------
T ss_pred             HhhhhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhH-------HH-H---------------
Confidence            578888888765433222221   111111111    23488999999999531       11 1               


Q ss_pred             CCCcccCCCCCCCCCCcHHHHHHHHHHHHH--cCCeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcc
Q 040295          194 GISETEGSSLLGDEEPSWEIRRSCLEWCTE--HRIEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMW  263 (289)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~  263 (289)
                                             .+.+...  .+.+++.+||++|            .|+++++++|++.+-
T Consensus       136 -----------------------~~~~~~~~~~~~~v~~iSA~~g------------~Gi~~L~~~i~~~L~  172 (185)
T d1lnza2         136 -----------------------LEAFKEKLTDDYPVFPISAVTR------------EGLRELLFEVANQLE  172 (185)
T ss_dssp             -----------------------HHHHHHHCCSCCCBCCCSSCCS------------STTHHHHHHHHHHHT
T ss_pred             -----------------------HHHHHHHhccCCcEEEEECCCC------------CCHHHHHHHHHHhhh
Confidence                                   2333333  3578899999999            999999999998763

>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=99.64  E-value=1.4e-15  Score=128.48  Aligned_cols=163  Identities=17%  Similarity=0.180  Sum_probs=106.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCC-----CCCCcceEEeeEEee-------------------cCcceEEEEEE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDA-----SDSSSELLVNGWTIN-------------------TKYYTADVSLW  103 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~-----~~~t~~~~~~~~~i~-------------------~~~~~~~l~I~  103 (289)
                      +.++|+|+|..++|||||+++|++......     ...|....+......                   .......+.+.
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
Confidence            447899999999999999999987432111     011111111111110                   11223568899


Q ss_pred             EcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhccc
Q 040295          104 MAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREE  183 (289)
Q Consensus       104 Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~  183 (289)
                      ||||++.|......-+..+|++++|.|..+.-......+-+..++..+.+++|++.||+|+.+.       .+..     
T Consensus        84 DtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~~~~iiv~inK~D~~d~-------~~~~-----  151 (195)
T d1kk1a3          84 DAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIELVDK-------EKAL-----  151 (195)
T ss_dssp             ECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGSCH-------HHHH-----
T ss_pred             ccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHhcCccceeeeecccchhh-------HHHH-----
Confidence            9999999987776777889999999999875322333333344555566678889999999642       1111     


Q ss_pred             CCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC---CeEEEeecCCCcccccccCCCCchhHHHHHHHHHH
Q 040295          184 SSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR---IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSA  260 (289)
Q Consensus       184 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~  260 (289)
                                                  +..+...++....+   ++++++||++|            +|++++++.+.+
T Consensus       152 ----------------------------~~~~~~~~~~~~~~~~~~~iIpiSA~~G------------~ni~~Ll~~I~~  191 (195)
T d1kk1a3         152 ----------------------------ENYRQIKEFIEGTVAENAPIIPISALHG------------ANIDVLVKAIED  191 (195)
T ss_dssp             ----------------------------HHHHHHHHHHTTSTTTTCCEEECBTTTT------------BSHHHHHHHHHH
T ss_pred             ----------------------------HHHHHHHHHhccccCCCCeEEEEECCCC------------CCHHHHHHHHHH
Confidence                                        11222455555443   57999999999            999999999987


Q ss_pred             hc
Q 040295          261 HM  262 (289)
Q Consensus       261 ~~  262 (289)
                      .+
T Consensus       192 ~i  193 (195)
T d1kk1a3         192 FI  193 (195)
T ss_dssp             HS
T ss_pred             HC
Confidence            54

>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=99.61  E-value=1.1e-15  Score=132.73  Aligned_cols=117  Identities=12%  Similarity=0.172  Sum_probs=75.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCCCC--CCCcceEEeeEE--------------eecCcceEEEEEEEcCCchhhhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFEDAS--DSSSELLVNGWT--------------INTKYYTADVSLWMAHLHEEFSI  113 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~~~--~~t~~~~~~~~~--------------i~~~~~~~~l~I~Dt~G~e~~~~  113 (289)
                      +.|+|+|.+++|||||++++++.......  ..+.........              .........+.++||||++.|..
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~~   85 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTT   85 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTT
T ss_pred             CEEEEEeCCCccHHHHHHHHHhhcchheecCceeeeccccccccccccccccccccceeecccccccccccccceecccc
Confidence            45999999999999999999875322110  011100011111              01123345789999999999987


Q ss_pred             cccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCC
Q 040295          114 RSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGH  168 (289)
Q Consensus       114 ~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~  168 (289)
                      .....+..+|++|+|+|+.+.-.-+... .+..+...+ .|+|+|.||+|+....
T Consensus        86 ~~~~~~~~~D~~ilVvda~~g~~~~~~~-~~~~~~~~~-~p~iivlNK~D~~~~~  138 (227)
T d1g7sa4          86 LRKRGGALADLAILIVDINEGFKPQTQE-ALNILRMYR-TPFVVAANKIDRIHGW  138 (227)
T ss_dssp             SBCSSSBSCSEEEEEEETTTCCCHHHHH-HHHHHHHTT-CCEEEEEECGGGSTTC
T ss_pred             cchhcccccceEEEEEecccCcccchhH-HHHHhhcCC-CeEEEEEECccCCCch
Confidence            7777788999999999998643333322 223333333 3788899999997644

>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=99.59  E-value=1.1e-14  Score=124.02  Aligned_cols=164  Identities=13%  Similarity=0.154  Sum_probs=102.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCC---CCC----CcceEEeeEEeec----------------------CcceE
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDA---SDS----SSELLVNGWTINT----------------------KYYTA   98 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~---~~~----t~~~~~~~~~i~~----------------------~~~~~   98 (289)
                      +-++|+|+|..++|||||+++|++..-...   ...    ..+..........                      .....
T Consensus         7 p~ini~iiGhVd~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r   86 (205)
T d2qn6a3           7 PEVNIGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLR   86 (205)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHSCCC--------------CEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEE
T ss_pred             CCeEEEEEEccCCcHHHHHHHHHhhhchhhHHHHHhhcccccchhhhhhhhhhhhhhhheeeecccceeeeeeccccceE
Confidence            447999999999999999999986322110   000    0111101111100                      11124


Q ss_pred             EEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHh
Q 040295           99 DVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRL  178 (289)
Q Consensus        99 ~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~  178 (289)
                      .+.+.||||+..|-.....-+..+|++|+|.|..+.-.-..-+.-+......+.+|+||+.||+|+...       .+..
T Consensus        87 ~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~~i~~iIV~vNK~Dl~~~-------~~~~  159 (205)
T d2qn6a3          87 RISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDVVSK-------EEAL  159 (205)
T ss_dssp             EEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCCCEEEEEECGGGSCH-------HHHH
T ss_pred             EEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHcCCceeeeccccCCCccc-------hHHH
Confidence            688999999999976665667789999999999865211122222333444566689999999999642       1111


Q ss_pred             hhcccCCCCCcccCCCCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC---CeEEEeecCCCcccccccCCCCchhHHHHH
Q 040295          179 LKREESSADPDFCQSGISETEGSSLLGDEEPSWEIRRSCLEWCTEHR---IEYIEACASNVDFDKCLSIDGDSQGVERLY  255 (289)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~  255 (289)
                                                       ........+.....   ++++.+||++|            .||++++
T Consensus       160 ---------------------------------~~~~~~~~~l~~~~~~~~p~ipiSA~~g------------~nI~~L~  194 (205)
T d2qn6a3         160 ---------------------------------SQYRQIKQFTKGTWAENVPIIPVSALHK------------INIDSLI  194 (205)
T ss_dssp             ---------------------------------HHHHHHHHHHTTSTTTTCCEEECBTTTT------------BSHHHHH
T ss_pred             ---------------------------------HHHHHHHHHhccccCCCCeEEEEeCCCC------------CChHHHH
Confidence                                             11122444444333   67999999999            9999999


Q ss_pred             HHHHHhcc
Q 040295          256 GALSAHMW  263 (289)
Q Consensus       256 ~~L~~~~~  263 (289)
                      +.+...+-
T Consensus       195 e~i~~~ip  202 (205)
T d2qn6a3         195 EGIEEYIK  202 (205)
T ss_dssp             HHHHHHSC
T ss_pred             HHHHhhCC
Confidence            99887543

>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=99.58  E-value=1.7e-14  Score=118.65  Aligned_cols=154  Identities=13%  Similarity=0.093  Sum_probs=95.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCC--CCCCcceEEeeEEeecCcceEEEEEEEcCCchhh---------hccccccc
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFEDA--SDSSSELLVNGWTINTKYYTADVSLWMAHLHEEF---------SIRSLPIS  119 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~~~--~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~---------~~~~~~~~  119 (289)
                      .|+|+|.+|||||||+|+|++.++...  ...+............   ...+..||++|....         ........
T Consensus         7 ~I~iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (179)
T d1egaa1           7 FIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEG---AYQAIYVDTPGLHMEEKRAINRLMNKAASSSI   83 (179)
T ss_dssp             EEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEET---TEEEEEESSSSCCHHHHHHHHHHHTCCTTSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeecC---CceeEeecCCCceecchhhhhhhhhhccccch
Confidence            489999999999999999998764322  1122222222222222   234667888874211         22223334


Q ss_pred             cCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCccc
Q 040295          120 DQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETE  199 (289)
Q Consensus       120 ~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~  199 (289)
                      ..+++++++.|.+..  ......+...+... ..|+++|.||+|+....       .                       
T Consensus        84 ~~~~~~l~~~d~~~~--~~~~~~~~~~l~~~-~~~~i~v~~k~d~~~~~-------~-----------------------  130 (179)
T d1egaa1          84 GDVELVIFVVEGTRW--TPDDEMVLNKLREG-KAPVILAVNKVDNVQEK-------A-----------------------  130 (179)
T ss_dssp             CCEEEEEEEEETTCC--CHHHHHHHHHHHSS-SSCEEEEEESTTTCCCH-------H-----------------------
T ss_pred             hhcceeEEEEecCcc--chhHHHHHHHhhhc-cCceeeeeeeeeccchh-------h-----------------------
Confidence            567888888887643  22222333334333 33677889999986531       1                       


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHHHHcC-CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhccc
Q 040295          200 GSSLLGDEEPSWEIRRSCLEWCTEHR-IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWP  264 (289)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~  264 (289)
                                  +.......+....+ .+++++||++|            +|++++++.|++++.+
T Consensus       131 ------------~~~~~~~~~~~~~~~~~~~~vSA~~g------------~gi~~L~~~i~~~lpe  172 (179)
T d1egaa1         131 ------------DLLPHLQFLASQMNFLDIVPISAETG------------LNVDTIAAIVRKHLPE  172 (179)
T ss_dssp             ------------HHHHHHHHHHTTSCCSEEEECCTTTT------------TTHHHHHHHHHTTCCB
T ss_pred             ------------hhhhHhhhhhhhcCCCCEEEEeCcCC------------CCHHHHHHHHHHhCCC
Confidence                        11122456666666 48999999999            9999999999887643

>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=99.58  E-value=2.6e-15  Score=128.02  Aligned_cols=172  Identities=14%  Similarity=0.140  Sum_probs=108.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcC-------CCCC-------CCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSV-------NFED-------ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIR  114 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~-------~~~~-------~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~  114 (289)
                      -++|+|+|..++|||||++++++.       .+..       ......+.+.....+........+.+.||||+..|...
T Consensus         3 ~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~~~~~~~~~iDtPGh~~f~~~   82 (196)
T d1d2ea3           3 HVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKN   82 (196)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHHH
T ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEEeceeeEEeecCcchHHHHHH
Confidence            378999999999999999999741       0000       00111122222222222333456899999999999776


Q ss_pred             ccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCC
Q 040295          115 SLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSG  194 (289)
Q Consensus       115 ~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~  194 (289)
                      ...-+..+|++|+|+|..+.-.-+. .+.+..+...+.+++||+.||+|+....       ..                 
T Consensus        83 ~~~~~~~aD~allVVda~~G~~~QT-~~~~~~a~~~~~~~iIv~iNK~D~~~~~-------~~-----------------  137 (196)
T d1d2ea3          83 MITGTAPLDGCILVVAANDGPMPQT-REHLLLARQIGVEHVVVYVNKADAVQDS-------EM-----------------  137 (196)
T ss_dssp             HHHTSSCCSEEEEEEETTTCSCHHH-HHHHHHHHHTTCCCEEEEEECGGGCSCH-------HH-----------------
T ss_pred             HHHHHhhcCeEEEEEEcCCCCchhH-HHHHHHHHHhcCCcEEEEEecccccccH-------HH-----------------
Confidence            6666788999999999986532222 2333444555667899999999996421       11                 


Q ss_pred             CCcccCCCCCCCCCCcHHHHHHHHHHHHHcC-----CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHhc
Q 040295          195 ISETEGSSLLGDEEPSWEIRRSCLEWCTEHR-----IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHM  262 (289)
Q Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~  262 (289)
                                     .+.+..++..++...+     ++++.+||++| +... +.....+++++++++|.+.+
T Consensus       138 ---------------~~~i~~~i~~~l~~~~~~~~~~pii~iSa~~g-~~~~-~~~~~~~~~~~Lldai~~~i  193 (196)
T d1d2ea3         138 ---------------VELVELEIRELLTEFGYKGEETPIIVGSALCA-LEQR-DPELGLKSVQKLLDAVDTYI  193 (196)
T ss_dssp             ---------------HHHHHHHHHHHHHHTTSCTTTSCEEECCHHHH-HTTC-CTTTTHHHHHHHHHHHHHHS
T ss_pred             ---------------HHHHHHHHHHHHHHhCCCcccCEEEEEEcccc-cccc-CcccccCCHHHHHHHHHhhC
Confidence                           1123334566665554     56899999987 1111 11223358999999887754

>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=99.56  E-value=8.1e-15  Score=123.43  Aligned_cols=114  Identities=18%  Similarity=0.198  Sum_probs=79.0

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCchhhhcccccc----ccCccE
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSLPI----SDQLTA  124 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~~~----~~~ad~  124 (289)
                      .+.|+|+|++|||||||+|+|+++++.+.    .+.......+..+  ...+.+||+||++.+...+..+    ...++.
T Consensus         3 ~p~V~lvG~~n~GKTSLln~l~~~~~~~~----tt~~~~~~~~~~~--~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~~   76 (209)
T d1nrjb_           3 QPSIIIAGPQNSGKTSLLTLLTTDSVRPT----VVSQEPLSAADYD--GSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKG   76 (209)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSSCCCB----CCCSSCEEETTGG--GSSCEEEECCCCGGGTHHHHHHHHHHGGGEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCCe----EEecceEEEEEeC--CeEEEEEecccccchhhHHHHHHHHHhhhccc
Confidence            35899999999999999999999886532    2222222233333  3458899999998776555443    344578


Q ss_pred             EEEEEeCC-CHhhHHHHHHHHHHh----hhc--CCCeEEEEeeCCCCCCCC
Q 040295          125 LVMVFNLN-DLSTLDALKHWVPSI----DLQ--KFEILLCIGNKVDLLPGH  168 (289)
Q Consensus       125 vIlV~Dv~-~~~S~~~l~~~~~~i----~~~--~~~~iivvgnK~Dl~~~~  168 (289)
                      +++++|.. +..+++....|+..+    ...  ...|+++|+||+|+....
T Consensus        77 ~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~~~  127 (209)
T d1nrjb_          77 LIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTAR  127 (209)
T ss_dssp             EEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCC
T ss_pred             cceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeecccccC
Confidence            88888865 567777777666443    222  344899999999997654

>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=1.3e-13  Score=113.10  Aligned_cols=164  Identities=15%  Similarity=0.063  Sum_probs=82.1

Q ss_pred             cccCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCch-------hhhccc-
Q 040295           44 ASLEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLHE-------EFSIRS-  115 (289)
Q Consensus        44 ~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e-------~~~~~~-  115 (289)
                      ...+..+||+|+|.+|||||||+|++.+.+..........................+..++..+..       ...... 
T Consensus        11 ~p~~~~~~I~lvG~~NvGKSSL~n~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (188)
T d1puia_          11 LPSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYGYAEVPEEMKRKWQRALG   90 (188)
T ss_dssp             SSCSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEETTEEEEECCCCC------CCHHHHHHHHH
T ss_pred             CCCccCCEEEEECCCCCCHHHHHHHHhCCCceEeecccccceeeccceecccccceeeeecccccchhhhhhhhhhhhhh
Confidence            345567999999999999999999999877543322211111111111111111122222222111       101011 


Q ss_pred             --cccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCC
Q 040295          116 --LPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQS  193 (289)
Q Consensus       116 --~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~  193 (289)
                        ......+..++.+.+........ ...++..+..... ++++++||+|+...     ......               
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~-~~~~v~~k~D~~~~-----~~~~~~---------------  148 (188)
T d1puia_          91 EYLEKRQSLQGLVVLMDIRHPLKDL-DQQMIEWAVDSNI-AVLVLLTKADKLAS-----GARKAQ---------------  148 (188)
T ss_dssp             HHHHHCTTEEEEEEEEETTSCCCHH-HHHHHHHHHHTTC-CEEEEEECGGGSCH-----HHHHHH---------------
T ss_pred             hhhhhhhheeEEEEeecccccchhH-HHHHHHHhhhccc-cccchhhhhhccCH-----HHHHHH---------------
Confidence              11123345566666665443222 2344444444433 67778999999752     111111               


Q ss_pred             CCCcccCCCCCCCCCCcHHHHHHHHHHHHHcC--CeEEEeecCCCcccccccCCCCchhHHHHHHHHHHh
Q 040295          194 GISETEGSSLLGDEEPSWEIRRSCLEWCTEHR--IEYIEACASNVDFDKCLSIDGDSQGVERLYGALSAH  261 (289)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~  261 (289)
                                          .....+.....+  .+++.+||++|            .||+++++.|...
T Consensus       149 --------------------~~~~~~~l~~~~~~~~~i~vSA~~g------------~Gid~L~~~i~~~  186 (188)
T d1puia_         149 --------------------LNMVREAVLAFNGDVQVETFSSLKK------------QGVDKLRQKLDTW  186 (188)
T ss_dssp             --------------------HHHHHHHHGGGCSCEEEEECBTTTT------------BSHHHHHHHHHHH
T ss_pred             --------------------HHHHHHHHHhhCCCCcEEEEeCCCC------------CCHHHHHHHHHHH
Confidence                                111233333332  46899999999            9999999988653

>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=99.46  E-value=8.5e-14  Score=118.97  Aligned_cols=113  Identities=17%  Similarity=0.141  Sum_probs=77.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcC--------CCCCC-----------CCCCcceEEeeEEeecCcceEEEEEEEcCCch
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSV--------NFEDA-----------SDSSSELLVNGWTINTKYYTADVSLWMAHLHE  109 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~--------~~~~~-----------~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e  109 (289)
                      -++|+++|+.++|||||+++|+..        .+...           ..-|....  ...+..+  ..++.+.||||+.
T Consensus         3 ~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~--~~~~~~~--~~~i~iiDtPGh~   78 (204)
T d2c78a3           3 HVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTA--HVEYETA--KRHYSHVDCPGHA   78 (204)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCE--EEEEECS--SCEEEEEECCCSG
T ss_pred             CeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEee--EEEEEeC--CeEEEEEeCCCch
Confidence            378999999999999999999732        11000           01122222  2233333  3468899999999


Q ss_pred             hhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          110 EFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       110 ~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      .|......-++.+|++|+|+|+.+.-..+....| ..+...+.++++++.||+|+..
T Consensus        79 df~~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~-~~~~~~gi~~iiv~iNK~D~~~  134 (204)
T d2c78a3          79 DYIKNMITGAAQMDGAILVVSAADGPMPQTREHI-LLARQVGVPYIVVFMNKVDMVD  134 (204)
T ss_dssp             GGHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHH-HHHHHTTCCCEEEEEECGGGCC
T ss_pred             hhHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHH-HHHHHcCCCeEEEEEEecccCC
Confidence            9977666778899999999999876555544443 3344445556888899999964

>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=99.39  E-value=8e-13  Score=114.41  Aligned_cols=116  Identities=16%  Similarity=0.125  Sum_probs=73.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCC--CCCC-------------------------------CCCCcceEEeeEEeecC
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVN--FEDA-------------------------------SDSSSELLVNGWTINTK   94 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~--~~~~-------------------------------~~~t~~~~~~~~~i~~~   94 (289)
                      ..++|+++|..++|||||+.+|+...  +...                               ................ 
T Consensus         8 ~~~~i~viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~~~~~~-   86 (222)
T d1zunb3           8 EMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFST-   86 (222)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEEC-
T ss_pred             CcceEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHHHHhcCccccceeeeeccccchhhhccCCCceeeEEEEec-
Confidence            45789999999999999999997421  1000                               0000110111111111 


Q ss_pred             cceEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295           95 YYTADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        95 ~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                       ....+.+.|+||++.|-.....-...+|++|+|.|....-.-+.... +.-....+.+.+|++.||+|+..
T Consensus        87 -~~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e~-~~~~~~~gv~~iiv~vNK~D~~~  156 (222)
T d1zunb3          87 -AKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRH-SYIASLLGIKHIVVAINKMDLNG  156 (222)
T ss_dssp             -SSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHH-HHHHHHTTCCEEEEEEECTTTTT
T ss_pred             -cceEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHHH-HHHHHHcCCCEEEEEEEcccccc
Confidence             23468999999999997766667888999999999985422222222 22334445567888999999964

>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=99.28  E-value=1.2e-11  Score=115.52  Aligned_cols=175  Identities=13%  Similarity=0.081  Sum_probs=97.1

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCC-CCCCc--ceEEeeEEeecCcceEEEEEEEcCCchhhhcccc-----cccc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDA-SDSSS--ELLVNGWTINTKYYTADVSLWMAHLHEEFSIRSL-----PISD  120 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~-~~~t~--~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~~-----~~~~  120 (289)
                      .++|+|+|.+|||||||+|.|.+...... ..++.  +.+.....+...+ ...+.+|||||......-..     ....
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~~~~~~-~~~~~l~DtPG~~~~~~~~~~~~~~~~~~  134 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPN-IPNVVFWDLPGIGSTNFPPDTYLEKMKFY  134 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSS-CTTEEEEECCCGGGSSCCHHHHHHHTTGG
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeeeeeccC-CCeEEEEeCCCcccccccHHHHHHHhhhh
Confidence            48999999999999999999998653222 11111  1111111111111 12378999999754332222     2245


Q ss_pred             CccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCCcccC
Q 040295          121 QLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGISETEG  200 (289)
Q Consensus       121 ~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~  200 (289)
                      .+|.++++.|..-.+.-..   ++..++.. ..|+++|.||+|....      ..+.-.                     
T Consensus       135 ~~d~~l~~~~~~~~~~d~~---l~~~l~~~-~k~~~~V~nK~D~~~~------~~~~~~---------------------  183 (400)
T d1tq4a_         135 EYDFFIIISATRFKKNDID---IAKAISMM-KKEFYFVRTKVDSDIT------NEADGE---------------------  183 (400)
T ss_dssp             GCSEEEEEESSCCCHHHHH---HHHHHHHT-TCEEEEEECCHHHHHH------HHHTTC---------------------
T ss_pred             cceEEEEecCCCCCHHHHH---HHHHHHHc-CCCEEEEEeCcccccc------hhhhcc---------------------
Confidence            6788888887543322222   33334433 3489999999997310      111000                     


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHcCC---eEEEeecCCCcccccccCCCCchhHHHHHHHHHHhcccC
Q 040295          201 SSLLGDEEPSWEIRRSCLEWCTEHRI---EYIEACASNVDFDKCLSIDGDSQGVERLYGALSAHMWPG  265 (289)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~~~~---~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~~~~~~~  265 (289)
                      ......+.....+++.+.......++   ++|.+|..+.          ..++++++.+.+.+.+-..
T Consensus       184 ~~~~~~e~~l~~ir~~~~~~l~~~~~~~~~vflvS~~~~----------~~~d~~~L~~~l~~~L~~~  241 (400)
T d1tq4a_         184 PQTFDKEKVLQDIRLNCVNTFRENGIAEPPIFLLSNKNV----------CHYDFPVLMDKLISDLPIY  241 (400)
T ss_dssp             CTTCCHHHHHHHHHHHHHHHHHHTTCSSCCEEECCTTCT----------TSTTHHHHHHHHHHHSCGG
T ss_pred             cccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEecCCcc----------cccCHHHHHHHHHHHhHHH
Confidence            00001111234555566666666665   3677887653          2368999998888766443

>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=99.22  E-value=4.1e-11  Score=104.87  Aligned_cols=116  Identities=17%  Similarity=0.135  Sum_probs=62.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCC--C-----------------------------CCCCCcceEEeeEEeecCcce
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFE--D-----------------------------ASDSSSELLVNGWTINTKYYT   97 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~--~-----------------------------~~~~t~~~~~~~~~i~~~~~~   97 (289)
                      .+.|+|+|+.++|||||+.+|+...-.  .                             ...............  ....
T Consensus        24 ~iNi~iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~--~~~~  101 (245)
T d1r5ba3          24 HVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYF--ETEH  101 (245)
T ss_dssp             EEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEE--ECSS
T ss_pred             ceEEEEEeeCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCccchhhhhhhccccccccCcccccccccc--cccc
Confidence            367999999999999999999531100  0                             000000000001111  1223


Q ss_pred             EEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHh---hHH---HHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295           98 ADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLS---TLD---ALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        98 ~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~---S~~---~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ..+.+.||||+..|......-...+|++|+|.|+.+..   +++   ....-+..+...+.+.++++.||+|+..
T Consensus       102 ~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~~i~~iiv~iNKmD~~~  176 (245)
T d1r5ba3         102 RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPS  176 (245)
T ss_dssp             EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTT
T ss_pred             ceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHHcCCCeEEEEEEcCCCCc
Confidence            56899999999999887777788899999999998641   111   1122222334445557888999999964

>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=99.21  E-value=1.5e-11  Score=105.87  Aligned_cols=116  Identities=16%  Similarity=0.195  Sum_probs=72.6

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCC--C-----------------------------CCCCCCcceEEeeEEeecCcce
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNF--E-----------------------------DASDSSSELLVNGWTINTKYYT   97 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~--~-----------------------------~~~~~t~~~~~~~~~i~~~~~~   97 (289)
                      -+.|+|+|.-++|||||+.+|+...-  .                             .+...............  ...
T Consensus         3 ~iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~--~~~   80 (224)
T d1jnya3           3 HLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFE--TKK   80 (224)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEE--CSS
T ss_pred             ccEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhcCCccccceEEEEe--cCC
Confidence            37899999999999999999863110  0                             00001111111111122  224


Q ss_pred             EEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHh---hH---HHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295           98 ADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLS---TL---DALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        98 ~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~---S~---~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ..+.+.||||+..|......-++.+|++|+|+|+.+..   ++   ....+-+.-....+.+++|++.||+|+..
T Consensus        81 ~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~~~~~iIv~iNK~D~~~  155 (224)
T d1jnya3          81 YFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTE  155 (224)
T ss_dssp             CEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSS
T ss_pred             ceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHhCCCceEEEEEcccCCC
Confidence            56899999999999887777788999999999998642   11   11122222223345557888999999964

>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=99.20  E-value=8.3e-12  Score=109.05  Aligned_cols=114  Identities=16%  Similarity=0.152  Sum_probs=74.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC--CCC------------------C-----------CCCCCcceEEeeEEeecCcceE
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV--NFE------------------D-----------ASDSSSELLVNGWTINTKYYTA   98 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~--~~~------------------~-----------~~~~t~~~~~~~~~i~~~~~~~   98 (289)
                      +.|+++|..++|||||+.+|+..  ...                  .           +....+........+...  ..
T Consensus         7 iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~--~~   84 (239)
T d1f60a3           7 INVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETP--KY   84 (239)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECS--SE
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEeccC--CE
Confidence            78999999999999999999631  100                  0           011111111112222223  35


Q ss_pred             EEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhh-------HHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295           99 DVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLST-------LDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        99 ~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S-------~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ++.|.||||+..|-.....-+..+|++|+|.|.....-       -+....| ...+..+.+++||+.||+|+.+
T Consensus        85 ~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~-~~~~~~gv~~iiv~iNKmD~~~  158 (239)
T d1f60a3          85 QVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHA-LLAFTLGVRQLIVAVNKMDSVK  158 (239)
T ss_dssp             EEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHH-HHHHHTTCCEEEEEEECGGGGT
T ss_pred             EEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHH-HHHHHcCCCeEEEEEECCCCCC
Confidence            79999999999998777677889999999999975411       0111222 2334556668999999999864

>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=99.09  E-value=6.8e-10  Score=98.65  Aligned_cols=110  Identities=18%  Similarity=0.145  Sum_probs=75.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCC--CC----------------C--CCCCcceEEeeEEeecCcceEEEEEEEcCCchh
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNF--ED----------------A--SDSSSELLVNGWTINTKYYTADVSLWMAHLHEE  110 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~--~~----------------~--~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~  110 (289)
                      .|+|+|+.++|||||+.+++...-  ..                +  ...|+....  ..+.  ....++.|.||||+..
T Consensus         8 ni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~--~~~~--~~~~~~n~iDtPG~~d   83 (276)
T d2bv3a2           8 NIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAV--TTCF--WKDHRINIIDAPGHVD   83 (276)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSE--EEEE--ETTEEEEEECCCSSSS
T ss_pred             EEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccce--eeec--cCCeEEEEecCCchhh
Confidence            599999999999999999974210  00                0  011111111  1222  2345799999999999


Q ss_pred             hhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          111 FSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       111 ~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      |..-...-++.+|++|+|+|..+.-.-....-|... +.. ..|.|++.||+|...
T Consensus        84 F~~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w~~a-~~~-~lP~i~fINKmDr~~  137 (276)
T d2bv3a2          84 FTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQA-EKY-KVPRIAFANKMDKTG  137 (276)
T ss_dssp             CSTTHHHHHHHCCEEEEEEETTTSSCHHHHHHHHHH-HTT-TCCEEEEEECTTSTT
T ss_pred             hHHHHHHHHHhhhheEEeccccCCcchhHHHHHHHH-HHc-CCCEEEEEecccccc
Confidence            977777778889999999999987666666666333 222 337888999999954

>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=99.08  E-value=4.2e-10  Score=99.62  Aligned_cols=109  Identities=14%  Similarity=0.073  Sum_probs=74.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCC-C-------------------CCCCCcceEEeeEEeecCcceEEEEEEEcCCchh
Q 040295           51 GILIIGSSNVGKRTILSRLLSVNFE-D-------------------ASDSSSELLVNGWTINTKYYTADVSLWMAHLHEE  110 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~~~-~-------------------~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~  110 (289)
                      .|+|+|+.++|||||+.+++...-. .                   ....|+...+.  .+..+  ..++.++||||+..
T Consensus         4 Nv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~--~~~~~--~~~~n~iDtPGh~d   79 (267)
T d2dy1a2           4 TVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVA--PLLFR--GHRVFLLDAPGYGD   79 (267)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEE--EEEET--TEEEEEEECCCSGG
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeecc--ccccc--ccceeEEccCchhh
Confidence            4899999999999999999632110 0                   01112222222  22233  34689999999999


Q ss_pred             hhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCC
Q 040295          111 FSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLL  165 (289)
Q Consensus       111 ~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~  165 (289)
                      |..-...-++.+|++|+|.|..+.-.-+....|.. .... ..|.+++.||+|..
T Consensus        80 F~~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~~-~~~~-~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          80 FVGEIRGALEAADAALVAVSAEAGVQVGTERAWTV-AERL-GLPRMVVVTKLDKG  132 (267)
T ss_dssp             GHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHH-HHHT-TCCEEEEEECGGGC
T ss_pred             hhhhhhhhhcccCceEEEeeccCCccchhHHHHHh-hhhc-cccccccccccccc
Confidence            98777677888999999999997666555555542 2222 33677789999973

>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=99.03  E-value=3.6e-10  Score=99.16  Aligned_cols=116  Identities=13%  Similarity=0.108  Sum_probs=68.3

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCCCCCC--CC-CcceEEeeEEeecCcceEEEEEEEcCCchhhhccc-------c-
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVNFEDAS--DS-SSELLVNGWTINTKYYTADVSLWMAHLHEEFSIRS-------L-  116 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~--~~-t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~~~~~~-------~-  116 (289)
                      ..++|+++|.+|||||||+|.+++.......  .+ |.........  ..  ...+.++||||........       . 
T Consensus        31 ~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~~~T~~~~~~~~~--~~--g~~i~viDTPGl~~~~~~~~~~~~~i~~  106 (257)
T d1h65a_          31 NSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRS--RA--GFTLNIIDTPGLIEGGYINDMALNIIKS  106 (257)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEE--ET--TEEEEEEECCCSEETTEECHHHHHHHHH
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhCCCceeecCCCCcceeEEEEEEE--ec--cEEEEEEeeecccCCcchHHHHHHHHHH
Confidence            4589999999999999999999987643221  12 2222222222  23  2468999999953221111       1 


Q ss_pred             -ccccCccEEEEEEeCCCHh----hHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCC
Q 040295          117 -PISDQLTALVMVFNLNDLS----TLDALKHWVPSIDLQKFEILLCIGNKVDLLPG  167 (289)
Q Consensus       117 -~~~~~ad~vIlV~Dv~~~~----S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~  167 (289)
                       ......++++||++++...    ....+......+...-.+++|+|.||+|..+.
T Consensus       107 ~~~~~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~  162 (257)
T d1h65a_         107 FLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPP  162 (257)
T ss_dssp             HTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCG
T ss_pred             HHhcCCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcchhhhhCEEEEEECcccCCc
Confidence             1123568999998876431    12222222222222222378899999999763

>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=98.94  E-value=8.9e-10  Score=93.70  Aligned_cols=69  Identities=19%  Similarity=0.060  Sum_probs=42.5

Q ss_pred             EEEEEEEcCCchhhhccccc---c--ccCccEEEEEEeCC---CHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295           98 ADVSLWMAHLHEEFSIRSLP---I--SDQLTALVMVFNLN---DLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        98 ~~l~I~Dt~G~e~~~~~~~~---~--~~~ad~vIlV~Dv~---~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ..+.+.|+||+..+......   .  ....++++++.|..   ++..+.........+......|.++|.||+|+..
T Consensus        95 ~~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~~~~~~ivvinK~D~~~  171 (244)
T d1yrba1          95 NDYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLS  171 (244)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCC
T ss_pred             cceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHHHHhCCCceeeeecccccc
Confidence            44788899998755332211   1  12356889999864   5555544433333333333447888999999986

>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=98.88  E-value=1.2e-09  Score=99.81  Aligned_cols=116  Identities=14%  Similarity=0.079  Sum_probs=77.5

Q ss_pred             CCce-EEEEcCCCCCHHHHHHHHhcCC--CC--------------CCC--CCCcceEEeeEEe------------ecCcc
Q 040295           48 KRPG-ILIIGSSNVGKRTILSRLLSVN--FE--------------DAS--DSSSELLVNGWTI------------NTKYY   96 (289)
Q Consensus        48 ~~iK-I~ilG~~gvGKSSLi~rl~~~~--~~--------------~~~--~~t~~~~~~~~~i------------~~~~~   96 (289)
                      ..+| |+|+|+.++|||||+.+|+...  ..              ++.  .-|+.........            ...+.
T Consensus        15 ~~IRNI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~~~~~~~~~~~~~~~~~~   94 (341)
T d1n0ua2          15 TNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGN   94 (341)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSS
T ss_pred             ccCcEEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEeCCEEEEEeccCcccccchhcccccc
Confidence            3465 9999999999999999997311  00              011  1122111111111            11335


Q ss_pred             eEEEEEEEcCCchhhhccccccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCC
Q 040295           97 TADVSLWMAHLHEEFSIRSLPISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLL  165 (289)
Q Consensus        97 ~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~  165 (289)
                      .+.+.+.||||+..|..-...-++-+|++|+|+|+...-..+....|..... .+ .|+++|.||+|..
T Consensus        95 ~~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~~-~~-~p~i~viNKiDr~  161 (341)
T d1n0ua2          95 SFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALG-ER-IKPVVVINKVDRA  161 (341)
T ss_dssp             EEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH-TT-CEEEEEEECHHHH
T ss_pred             ceEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHHHHH-cC-CCeEEEEECcccc
Confidence            6789999999999997766677888999999999998766666665554432 22 3677789999974

>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=98.63  E-value=7.2e-08  Score=87.24  Aligned_cols=24  Identities=21%  Similarity=0.281  Sum_probs=21.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..++|.|.|+||||||||+++|..
T Consensus        53 ~~~~IgitG~pGaGKSTLi~~l~~   76 (327)
T d2p67a1          53 NTLRLGVTGTPGAGKSTFLEAFGM   76 (327)
T ss_dssp             CSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CceEEEeeCCCCCCHHHHHHHHHH
Confidence            458999999999999999999973

>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=98.60  E-value=8.5e-08  Score=86.61  Aligned_cols=24  Identities=33%  Similarity=0.368  Sum_probs=21.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..++|.|.|+||||||||+++|..
T Consensus        50 ~~~~igitG~pGaGKSTli~~l~~   73 (323)
T d2qm8a1          50 RAIRVGITGVPGVGKSTTIDALGS   73 (323)
T ss_dssp             CSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CceEEeeeCCCCCCHHHHHHHHHH
Confidence            458999999999999999999984

>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=98.43  E-value=8.2e-07  Score=78.05  Aligned_cols=120  Identities=15%  Similarity=0.102  Sum_probs=72.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCcceE-EeeEEe---------ecCc----------------------
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFED-ASDSSSELL-VNGWTI---------NTKY----------------------   95 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~~~~-~~~~~i---------~~~~----------------------   95 (289)
                      .++|+|+|.-++|||||+|.|++..+.+ ...++.... .....-         ...+                      
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
Confidence            3689999999999999999999988643 233332211 101000         0000                      


Q ss_pred             -----------------ceEEEEEEEcCCchhh-------------hccccccccCcc-EEEEEEeCCCHhhHHHHHHHH
Q 040295           96 -----------------YTADVSLWMAHLHEEF-------------SIRSLPISDQLT-ALVMVFNLNDLSTLDALKHWV  144 (289)
Q Consensus        96 -----------------~~~~l~I~Dt~G~e~~-------------~~~~~~~~~~ad-~vIlV~Dv~~~~S~~~l~~~~  144 (289)
                                       ....+.++|+||....             ..+...|+...+ ++++|.+.+..-+-..+..|.
T Consensus       106 ~~~~~~~~~i~l~~~~p~~~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~  185 (299)
T d2akab1         106 TNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIA  185 (299)
T ss_dssp             STTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHH
T ss_pred             CCcCcCCccEEEEEcCCCCCCeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHHH
Confidence                             0112678999985321             223345666665 556677776555555555666


Q ss_pred             HHhhhcCCCeEEEEeeCCCCCCCCC
Q 040295          145 PSIDLQKFEILLCIGNKVDLLPGHP  169 (289)
Q Consensus       145 ~~i~~~~~~~iivvgnK~Dl~~~~~  169 (289)
                      ..+..... .+++|.||+|......
T Consensus       186 ~~~~~~~~-r~i~Vltk~D~~~~~~  209 (299)
T d2akab1         186 KEVDPQGQ-RTIGVITKLDLMDEGT  209 (299)
T ss_dssp             HHHCTTCS-SEEEEEECGGGSCTTC
T ss_pred             HHhCcCCC-ceeeEEeccccccchh
Confidence            66654443 5777899999987543

>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=98.30  E-value=8.8e-07  Score=78.81  Aligned_cols=83  Identities=18%  Similarity=0.008  Sum_probs=45.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCC-----cceEEeeEEe----------------ecCcceEEEEEEEcCC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFED-ASDSS-----SELLVNGWTI----------------NTKYYTADVSLWMAHL  107 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t-----~~~~~~~~~i----------------~~~~~~~~l~I~Dt~G  107 (289)
                      +||+++|.||||||||+|.+++.+... .|..|     .|........                ........++++|+||
T Consensus         1 ~~v~lvG~pn~GKStlfn~lt~~~~~v~nypftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~pG   80 (319)
T d1wxqa1           1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (319)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CcEeEECCCCCCHHHHHHHHHCCCCchhcCCCCcccCccceeeCCCCchhhhhhhccCccccccccccccccEEEEECCC
Confidence            489999999999999999999876432 23222     2322110000                0112235689999998


Q ss_pred             chhh----hccc---cccccCccEEEEEEeCC
Q 040295          108 HEEF----SIRS---LPISDQLTALVMVFNLN  132 (289)
Q Consensus       108 ~e~~----~~~~---~~~~~~ad~vIlV~Dv~  132 (289)
                      .-.-    ..+.   -..++.+|++++|+|+.
T Consensus        81 li~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~  112 (319)
T d1wxqa1          81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDAT  112 (319)
T ss_dssp             --------------CCCSSTTCSEEEEEEETT
T ss_pred             cccchhcccchHHHHHHhhccceEEEEEeccc
Confidence            5221    1111   23367899999999975

>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=98.29  E-value=7.1e-07  Score=78.87  Aligned_cols=26  Identities=31%  Similarity=0.713  Sum_probs=24.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFE   75 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~   75 (289)
                      ++|+|+|..++|||||+|.+++.++.
T Consensus        25 P~ivVvG~~ssGKSSliNaLlG~~~l   50 (306)
T d1jwyb_          25 PQIVVVGSQSSGKSSVLENIVGRDFL   50 (306)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHTSCCC
T ss_pred             CeEEEEeCCCCCHHHHHHHHhCCCCC
Confidence            68999999999999999999998874

>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=98.08  E-value=2.5e-06  Score=74.66  Aligned_cols=82  Identities=15%  Similarity=-0.020  Sum_probs=50.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCCc-ceEEeeEEeecC----------c-c--eEEEEEEEcCCc----hh
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNFED-ASDSSS-ELLVNGWTINTK----------Y-Y--TADVSLWMAHLH----EE  110 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~~~-~~~~t~-~~~~~~~~i~~~----------~-~--~~~l~I~Dt~G~----e~  110 (289)
                      +||.|+|-|+||||||++++++.+... .|..|+ ........+...          . +  ...+.+.|+||.    ..
T Consensus         3 ~~~GivG~Pn~GKSTlf~~lt~~~~~~~~ypf~ti~pn~gvv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~GLi~ga~~   82 (278)
T d1jala1           3 FKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGASK   82 (278)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHCCCCccccCCCCCCCCceEEEecccHhHHHHHHhcCCCceeeeeEEEEEccccCCCccc
Confidence            799999999999999999999876432 232222 222222222211          0 1  135889999985    22


Q ss_pred             hhccccc---cccCccEEEEEEeC
Q 040295          111 FSIRSLP---ISDQLTALVMVFNL  131 (289)
Q Consensus       111 ~~~~~~~---~~~~ad~vIlV~Dv  131 (289)
                      -..+...   .++.+|++|.|.|+
T Consensus        83 g~Glg~~FL~~ir~~d~LihVVr~  106 (278)
T d1jala1          83 GEGLGNKFLANIRETDAIGHVVRC  106 (278)
T ss_dssp             HGGGTCCHHHHHHTCSEEEEEEEC
T ss_pred             CCCccHHHHHHHHhccceEEEeec
Confidence            2233333   36789999999976

>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=97.94  E-value=3.9e-06  Score=73.28  Aligned_cols=59  Identities=22%  Similarity=0.263  Sum_probs=36.1

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEEeecCcceEEEEEEEcCCc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWTINTKYYTADVSLWMAHLH  108 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~  108 (289)
                      ....++|+|+|-||||||||+|++.+.+... .....|.+.....+...   -.+.+.||||.
T Consensus       109 ~~~~~~v~vvG~PNvGKSsliN~L~~~~~~~-~~~~pG~Tr~~~~i~~~---~~~~l~DTPGi  167 (273)
T d1puja_         109 KPRAIRALIIGIPNVGKSTLINRLAKKNIAK-TGDRPGITTSQQWVKVG---KELELLDTPGI  167 (273)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHTSCCC-------------CCEEET---TTEEEEECCCC
T ss_pred             CCCceEEEEEecCccchhhhhhhhhccceEE-ECCcccccccceEEECC---CCeEEecCCCc
Confidence            3456899999999999999999999987532 33333333221112211   13899999996

>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=97.91  E-value=1.4e-05  Score=70.33  Aligned_cols=85  Identities=13%  Similarity=0.016  Sum_probs=53.4

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCC--CCCCCCCc-ceEEeeEEeecC-------------cceEEEEEEEcCCchh--
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNF--EDASDSSS-ELLVNGWTINTK-------------YYTADVSLWMAHLHEE--  110 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~--~~~~~~t~-~~~~~~~~i~~~-------------~~~~~l~I~Dt~G~e~--  110 (289)
                      .+||.|+|.||||||||++.+++...  ...|+.|+ ........+...             .....+++.|+||.-.  
T Consensus        10 ~~kiGivG~Pn~GKSTlfnalT~~~~~~~anypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~gA   89 (296)
T d1ni3a1          10 NLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKGA   89 (296)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHCCCCCCcCCCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeecccccccc
Confidence            48999999999999999999997653  23343332 222222222221             1124688999997421  


Q ss_pred             --hhcccc---ccccCccEEEEEEeCCC
Q 040295          111 --FSIRSL---PISDQLTALVMVFNLND  133 (289)
Q Consensus       111 --~~~~~~---~~~~~ad~vIlV~Dv~~  133 (289)
                        -..+..   .-++.+|++|.|.|+.+
T Consensus        90 ~~g~GLGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          90 STGVGLGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             CSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             ccccccHHHHHHHhhccceeEEEEeccC
Confidence              112222   23678999999998754

>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=97.72  E-value=7.3e-05  Score=59.36  Aligned_cols=23  Identities=30%  Similarity=0.580  Sum_probs=21.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      +||+|+|++|+|||||++.+++.
T Consensus         1 ~ki~I~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           1 MKIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCcHHHHHHHHHHhc
Confidence            58999999999999999999864

>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=97.52  E-value=2.3e-05  Score=67.30  Aligned_cols=43  Identities=19%  Similarity=0.285  Sum_probs=40.2

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      +.||...++++.+++.+++-.++|+|++|||||||++.+.+-.
T Consensus        14 k~yg~~~al~~vsl~v~~Ge~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          14 KRFGNFTAVNKLNLTIKDGEFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             EEETTEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEECCEEEEcceeEEECCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            5789999999999999999999999999999999999998765

>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=97.50  E-value=2.5e-05  Score=66.79  Aligned_cols=43  Identities=16%  Similarity=0.314  Sum_probs=39.8

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      +.||...++++.+++..++--++++|++|||||||++.+.+-.
T Consensus         8 k~yg~~~~l~~isl~i~~Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2           8 KAWGEVVVSKDINLDIHEGEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             EEETTEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEECCEEEEeeeEEEEcCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            5789999999999999999999999999999999999998754

>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=97.46  E-value=5.8e-05  Score=64.19  Aligned_cols=25  Identities=24%  Similarity=0.203  Sum_probs=21.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      +-..+++|+||||||||+|+|.++.
T Consensus        95 ~kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          95 GKISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             CCeEEEECCCCCCHHHHHHhhcchh
Confidence            3468999999999999999998764

>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=97.40  E-value=3.4e-05  Score=66.27  Aligned_cols=43  Identities=19%  Similarity=0.319  Sum_probs=39.7

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...++++.+++..++-.++++|++|||||||++.+.+-.
T Consensus        11 k~yg~~~al~~vsl~i~~Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          11 KVFGEVTAVREMSLEVKDGEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EEETTEEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEECCEEEEcceeeEEcCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            4689999999999999999999999999999999999998765

>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=97.36  E-value=4.5e-05  Score=66.16  Aligned_cols=43  Identities=28%  Similarity=0.250  Sum_probs=39.7

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      +.||...++++.+++..++-.++|+|++|||||||++.+.+-.
T Consensus        10 k~yg~~~al~~vs~~i~~GEi~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          10 KRYGGHEVLKGVSLQARAGDVISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             EEETTEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEECCEEEEcceeeEEcCCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            4689999999999999999999999999999999999997654

>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=97.31  E-value=5.9e-05  Score=64.78  Aligned_cols=42  Identities=21%  Similarity=0.184  Sum_probs=36.2

Q ss_pred             ecC-CcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFG-RQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g-~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+ ...++++.++...++-+++|+|++|+|||||++.+.+-.
T Consensus        10 ~Y~~~~~vL~~isl~i~~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          10 AYDDSEQILRDISFEAQPNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             CSSSSSCSEEEEEEEECTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             ECCCCCceeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            453 346789999999999999999999999999999997644

>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=97.29  E-value=5.4e-05  Score=64.91  Aligned_cols=43  Identities=19%  Similarity=0.271  Sum_probs=40.0

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...++++.+++..++--++++|+.|+|||||++.+.+-.
T Consensus        14 k~yg~~~al~~vs~~i~~Gei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          14 VYYGAIHAIKGIDLKVPRGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEETTEEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEECCEEEEeeeeEEECCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4689999999999999999999999999999999999998765

>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=97.28  E-value=6e-05  Score=64.72  Aligned_cols=39  Identities=21%  Similarity=0.184  Sum_probs=34.6

Q ss_pred             CcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           35 RQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        35 ~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ...++++.++...++-+|+|+|++|+|||||++.+.+--
T Consensus        15 ~~~vL~~isl~i~~Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          15 SPVILDNINLSIKQGEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             SCEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CcceEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            334789999999999999999999999999999997654

>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=97.25  E-value=7.8e-05  Score=64.38  Aligned_cols=42  Identities=17%  Similarity=0.191  Sum_probs=35.9

Q ss_pred             ecCCc--ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQ--EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~--~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+..  .++++.++...++-+++|+|++|||||||++.+.+-.
T Consensus        22 ~Y~~~~~~~L~~isl~i~~Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          22 TYPGREVPALRNINLKIPAGKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             CSSSSSCCSEEEEEEEECTTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             EeCCCCCceeeceEEEEcCCCEEEEECCCCChHHHHHHHHhccc
Confidence            46433  4789999999999999999999999999999997643

>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=97.23  E-value=7.9e-05  Score=63.80  Aligned_cols=43  Identities=21%  Similarity=0.233  Sum_probs=40.1

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      +.||...++++.+++..++--++++|+.|+|||||++.+.+-.
T Consensus        10 k~yg~~~vl~~vs~~v~~Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          10 KRIGKKEILKGISFEIEEGEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             EEETTEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEECCEEEEccceeEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            5799999999999999999999999999999999999998765

>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=97.23  E-value=6.6e-05  Score=65.86  Aligned_cols=52  Identities=25%  Similarity=0.321  Sum_probs=39.2

Q ss_pred             chhhhhhhhheecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           21 DEDRLSFVRVLIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        21 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ....+++.-+. |++..++++.++...++-+++|+|++|||||||++.+.+--
T Consensus        35 ~~~~i~~~~~~-~~g~pvL~~isl~i~~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          35 DENNVSFSHLC-LVGNPVLKNINLNIEKGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             -----CHHHHH-HTTCEEEEEEEEEECTTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCCcEEEEEcC-CCCCeEEeCeEEEEcCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            34445443332 45568999999999999999999999999999999998653

>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=97.23  E-value=8.4e-05  Score=64.09  Aligned_cols=37  Identities=16%  Similarity=0.145  Sum_probs=33.6

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .++++.+++..++-+++|+|++|||||||++.+.+--
T Consensus        28 ~vL~~isl~i~~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          28 LVLQGLTFTLRPGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             CSEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EeEeceEEEEcCCCEEEEECCCCCcHHHHHHHHhccc
Confidence            3788999999999999999999999999999997644

>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=97.22  E-value=0.00068  Score=57.35  Aligned_cols=85  Identities=15%  Similarity=0.172  Sum_probs=60.9

Q ss_pred             cccCccEEEEEEeCCCH-hhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCCCCchhHHHHHhhhcccCCCCCcccCCCCC
Q 040295          118 ISDQLTALVMVFNLNDL-STLDALKHWVPSIDLQKFEILLCIGNKVDLLPGHPVHAEYRRRLLKREESSADPDFCQSGIS  196 (289)
Q Consensus       118 ~~~~ad~vIlV~Dv~~~-~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~  196 (289)
                      ...+.|.+++|+++.+| -+...+.+|+-.....+-+|+| |.||+||...      ...+.                  
T Consensus         7 ~vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~~~i~pvI-vlnK~DL~~~------~~~~~------------------   61 (225)
T d1u0la2           7 HVANVDQVILVVTVKMPETSTYIIDKFLVLAEKNELETVM-VINKMDLYDE------DDLRK------------------   61 (225)
T ss_dssp             TEESCCEEEEEECSSTTCCCHHHHHHHHHHHHHTTCEEEE-EECCGGGCCH------HHHHH------------------
T ss_pred             CcccCCEEEEEEeCCCCCCCHHHHHHHHHHHHHcCCCEEE-EEeCcccCCH------HHHHH------------------
Confidence            45688999999998765 5667778888777777775555 7999999642      11111                  


Q ss_pred             cccCCCCCCCCCCcHHHHHHHHHHHHHc--CCeEEEeecCCCcccccccCCCCchhHHHHHHHHH
Q 040295          197 ETEGSSLLGDEEPSWEIRRSCLEWCTEH--RIEYIEACASNVDFDKCLSIDGDSQGVERLYGALS  259 (289)
Q Consensus       197 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~ie~Sa~~~~~~~~~~~~~~~~~i~~l~~~L~  259 (289)
                                          ...+...+  +.+.+.+||+++            .|++++...|.
T Consensus        62 --------------------~~~~~~~~~~~~~v~~vSa~~~------------~g~~~L~~~l~   94 (225)
T d1u0la2          62 --------------------VRELEEIYSGLYPIVKTSAKTG------------MGIEELKEYLK   94 (225)
T ss_dssp             --------------------HHHHHHHHTTTSCEEECCTTTC------------TTHHHHHHHHS
T ss_pred             --------------------HHHhhcccccceeEEEeccccc------------hhHhhHHHHhc
Confidence                                33444433  467899999999            99999888764

>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=97.18  E-value=8.6e-05  Score=64.12  Aligned_cols=43  Identities=26%  Similarity=0.296  Sum_probs=40.0

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...++++.+++..++--++++|+.|||||||++.+.+-.
T Consensus        12 k~yg~~~aL~~vs~~v~~Gei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          12 KYFGEFKALDGVSISVNKGDVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             EEETTEEEEEEECCEEETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEECCeEEEcceEEEECCCCEEEEECCCCCcHHHHHHHHHCCC
Confidence            5789999999999999999999999999999999999998764

>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=97.11  E-value=5.7e-05  Score=64.91  Aligned_cols=40  Identities=20%  Similarity=0.308  Sum_probs=36.5

Q ss_pred             CCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           34 GRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        34 g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      |...++++.+++.+++-.++|+|++|||||||++.+.+-.
T Consensus        16 g~~~aL~~vsl~i~~Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          16 GKVVALDNVNINIENGERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             GTEEEEEEEEEEECTTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCEEEEeceEEEECCCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            5567899999999999999999999999999999998765

>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=97.10  E-value=5e-05  Score=64.84  Aligned_cols=25  Identities=24%  Similarity=0.356  Sum_probs=20.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      +-..+++|+||||||||+|+|.++.
T Consensus        97 ~~~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          97 DKTTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             TSEEEEEESHHHHHHHHHHHHCC--
T ss_pred             cceEEEECCCCccHHHHHHhhccHh
Confidence            3468899999999999999999764

>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=97.09  E-value=0.00012  Score=62.40  Aligned_cols=37  Identities=19%  Similarity=0.222  Sum_probs=33.2

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .++++.+++.+++--++|+|++|||||||++.+.+-.
T Consensus        19 ~al~~isl~i~~Ge~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          19 YALKNVNLNIKEGEFVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             EEEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEeceEEEEcCCCEEEEECCCCCCcchhhHhccCCC
Confidence            3688899999999999999999999999999887654

>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=97.08  E-value=8.6e-05  Score=64.24  Aligned_cols=43  Identities=19%  Similarity=0.262  Sum_probs=35.9

Q ss_pred             eecCC--cccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGR--QEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~--~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      +.|+.  ..++++.++...++-+++|+|++|||||||++.+.+-.
T Consensus        24 f~Y~~~~~~vL~~isl~i~~Ge~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          24 FQYNDNEAPILKDINLSIEKGETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             ECSCSSSCCSEEEEEEEECTTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             EEeCCCCCcceeceEEEEcCCCEEEEECCCCCcHHHHHHHHHhcC
Confidence            34643  35889999999999999999999999999999876533

>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=97.01  E-value=0.00013  Score=57.41  Aligned_cols=22  Identities=23%  Similarity=0.543  Sum_probs=20.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      =+|+|.|++|||||||+++|..
T Consensus         8 K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999999975

>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=97.00  E-value=0.00013  Score=62.05  Aligned_cols=43  Identities=14%  Similarity=0.143  Sum_probs=37.8

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      +.||. .++++.++...++--++|+|++|||||||++.+.+-..
T Consensus         9 k~y~~-~aL~~vs~~i~~Ge~~~liGpsGaGKSTll~~l~Gl~~   51 (229)
T d3d31a2           9 RKWKN-FSLDNLSLKVESGEYFVILGPTGAGKTLFLELIAGFHV   51 (229)
T ss_dssp             EECSS-CEEEEEEEEECTTCEEEEECCCTHHHHHHHHHHHTSSC
T ss_pred             EEeCC-EEEeeeEEEECCCCEEEEECCCCCcHHHHHHHHhcCcC
Confidence            45776 47888999999999999999999999999999988653

>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=96.99  E-value=0.00021  Score=56.07  Aligned_cols=25  Identities=28%  Similarity=0.446  Sum_probs=22.4

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ++.++|+|.|++||||||+.+.|..
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~   27 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAA   27 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHH
Confidence            4568999999999999999999964

>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=96.97  E-value=0.00018  Score=61.55  Aligned_cols=37  Identities=16%  Similarity=0.148  Sum_probs=33.7

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .++++.+++..++--++|+|++|||||||++.+.+-.
T Consensus        19 ~al~~vsl~i~~Ge~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          19 QALNNVSLHVPAGQIYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             EEEEEEEEEECSSCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEeeceeEEEcCCCEEEEECCCCCCHHHHHHHHcCCc
Confidence            5688899999999999999999999999999997754

>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=96.96  E-value=0.00018  Score=59.73  Aligned_cols=41  Identities=17%  Similarity=0.237  Sum_probs=36.3

Q ss_pred             ecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           32 IFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        32 ~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .|+. .++++.+++.+++-.++|+|+.|||||||++.+.+--
T Consensus        11 ~y~~-~vl~~is~~i~~Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          11 GYDK-PVLERITMTIEKGNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             ESSS-EEEEEEEEEEETTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EeCC-eEEeceEEEEcCCCEEEEECCCCChHHHHHHHHhccc
Confidence            4654 6889999999999999999999999999999997654

>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=96.96  E-value=0.00018  Score=56.26  Aligned_cols=23  Identities=43%  Similarity=0.642  Sum_probs=20.7

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..+|+|+|++||||||++++|..
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999999864

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=96.92  E-value=0.00061  Score=58.81  Aligned_cols=46  Identities=11%  Similarity=-0.042  Sum_probs=33.1

Q ss_pred             ccccCccEEEEEEeCCCHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295          117 PISDQLTALVMVFNLNDLSTLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus       117 ~~~~~ad~vIlV~Dv~~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ..++.+|++|+|.|...|.+...-  .+..+-  +.+|+|+|.||+|+.+
T Consensus        11 ~~i~~~DvIl~V~DaR~P~ss~~~--~l~~~~--~~Kp~IlVlNK~DLv~   56 (273)
T d1puja_          11 EKLKLIDIVYELVDARIPMSSRNP--MIEDIL--KNKPRIMLLNKADKAD   56 (273)
T ss_dssp             HHGGGCSEEEEEEETTSTTTTSCH--HHHHHC--SSSCEEEEEECGGGSC
T ss_pred             HHHHhCCEEEEEEECCCCCCCCCH--HHHHHH--cCCCeEEEEECccCCc
Confidence            457889999999999988665421  122222  2458999999999975

>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=96.89  E-value=0.00033  Score=59.60  Aligned_cols=49  Identities=14%  Similarity=0.213  Sum_probs=38.2

Q ss_pred             cccCccEEEEEEeCCCH-hhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCCC
Q 040295          118 ISDQLTALVMVFNLNDL-STLDALKHWVPSIDLQKFEILLCIGNKVDLLPG  167 (289)
Q Consensus       118 ~~~~ad~vIlV~Dv~~~-~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~~  167 (289)
                      ...+.|.+++|+++.+| -++..+.+++-.....+.+|+| |.||+||.+.
T Consensus         7 ~vANiD~~~iV~s~~~P~~~~~~idR~Lv~a~~~~i~pvI-vlnK~DL~~~   56 (231)
T d1t9ha2           7 PICNVDQAVLVFSAVQPSFSTALLDRFLVLVEANDIQPII-CITKMDLIED   56 (231)
T ss_dssp             TEECCCEEEEEEESTTTTCCHHHHHHHHHHHHTTTCEEEE-EEECGGGCCC
T ss_pred             CccccCEEEEEEECCCCCCCHHHHHHHHHHHHHcCCCEEE-EEeccccccc
Confidence            35689999999998765 6677888888877777766655 7999999753

>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=96.85  E-value=0.00031  Score=56.68  Aligned_cols=24  Identities=25%  Similarity=0.392  Sum_probs=21.9

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ++++|+|+|++||||||++.+|..
T Consensus         2 ~~~riil~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           2 KGVRAVLLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999999999864

>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=96.75  E-value=0.00035  Score=54.48  Aligned_cols=21  Identities=29%  Similarity=0.415  Sum_probs=19.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      -|+|+|.+|||||||+++++.
T Consensus         4 vi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            489999999999999999985

>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=96.55  E-value=0.00057  Score=52.53  Aligned_cols=21  Identities=33%  Similarity=0.499  Sum_probs=18.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040295           52 ILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~~   72 (289)
                      |+|+|++|||||||++++...
T Consensus         5 Iii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            788999999999999998654

>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=96.53  E-value=0.00047  Score=58.45  Aligned_cols=36  Identities=17%  Similarity=0.284  Sum_probs=32.2

Q ss_pred             ccccccccccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           37 EMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        37 ~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..+++.+++..++--++|+|++|+|||||++.+.+-
T Consensus        13 ~~l~~isl~I~~Gei~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          13 TRLGPLSGEVRAGEILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             TTSCSEEEEEETTCEEECBCCTTSSHHHHHHHHHTS
T ss_pred             ceecCEEEEEcCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            357778899999999999999999999999999874

>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=96.51  E-value=0.00085  Score=54.56  Aligned_cols=25  Identities=28%  Similarity=0.401  Sum_probs=22.4

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .+.++|+|+|+|||||||+..+|..
T Consensus         4 ~r~mrIiliG~PGSGKtT~a~~La~   28 (189)
T d2ak3a1           4 ARLLRAAIMGAPGSGKGTVSSRITK   28 (189)
T ss_dssp             SCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcceeEEEECCCCCCHHHHHHHHHH
Confidence            4568999999999999999999975

>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=96.49  E-value=0.0022  Score=53.40  Aligned_cols=64  Identities=11%  Similarity=0.060  Sum_probs=37.4

Q ss_pred             EEEEEEEcCCchhhhccc----ccc--------ccCccEEEEEEeCC-CHhhHHHHHHHHHHhhhcCCCeEEEEeeCCCC
Q 040295           98 ADVSLWMAHLHEEFSIRS----LPI--------SDQLTALVMVFNLN-DLSTLDALKHWVPSIDLQKFEILLCIGNKVDL  164 (289)
Q Consensus        98 ~~l~I~Dt~G~e~~~~~~----~~~--------~~~ad~vIlV~Dv~-~~~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl  164 (289)
                      +++.+.||+|...+....    ..+        ....+-++||.|.+ ..+....+...+..+.   ..-  +|.+|.|-
T Consensus        89 ~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~~---~~~--lI~TKlDe  163 (207)
T d1okkd2          89 YDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAVG---LTG--VIVTKLDG  163 (207)
T ss_dssp             CSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHHHHHHHHC---CSE--EEEECTTS
T ss_pred             CCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchHHHHHHHhhhccC---Cce--EEEeccCC
Confidence            468999999964332210    011        12356789999987 4455555555444442   222  35899998


Q ss_pred             CC
Q 040295          165 LP  166 (289)
Q Consensus       165 ~~  166 (289)
                      ..
T Consensus       164 t~  165 (207)
T d1okkd2         164 TA  165 (207)
T ss_dssp             SC
T ss_pred             CC
Confidence            54

>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=96.49  E-value=0.0007  Score=53.71  Aligned_cols=22  Identities=18%  Similarity=0.457  Sum_probs=19.6

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ++|+|+|+|||||||+++.|..
T Consensus         1 m~I~i~G~pGSGKsT~a~~La~   22 (182)
T d1zina1           1 MNLVLMGLPGAGKGTQAEKIVA   22 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998854

>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=96.41  E-value=0.00075  Score=52.25  Aligned_cols=21  Identities=38%  Similarity=0.550  Sum_probs=19.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040295           52 ILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~~   72 (289)
                      |+|.|++||||||++++|...
T Consensus         5 I~i~G~~GsGKTTva~~L~~~   25 (176)
T d2bdta1           5 YIITGPAGVGKSTTCKRLAAQ   25 (176)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            889999999999999999753

>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=96.38  E-value=0.00091  Score=53.83  Aligned_cols=23  Identities=22%  Similarity=0.273  Sum_probs=20.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .++|+|+|++||||||++++|..
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~   25 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKT   25 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999998853

>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=96.38  E-value=0.0009  Score=53.40  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=20.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ++|+|+|++||||||++++|...
T Consensus         1 m~I~i~G~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           1 MRVLLLGPPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            48999999999999999998643

>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=96.36  E-value=0.00088  Score=51.16  Aligned_cols=22  Identities=32%  Similarity=0.499  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .|+++|++||||||+.+.|...
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5999999999999999999643

>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=96.36  E-value=0.001  Score=53.54  Aligned_cols=22  Identities=18%  Similarity=0.415  Sum_probs=19.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..|+|+|++||||||++++|..
T Consensus         7 ~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           7 NVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4579999999999999999974

>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=96.34  E-value=0.00095  Score=53.35  Aligned_cols=23  Identities=26%  Similarity=0.450  Sum_probs=20.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ++|+|+|++||||||++.+|...
T Consensus         1 M~I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           1 MNIVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999988743

>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=96.26  E-value=0.0011  Score=52.74  Aligned_cols=22  Identities=23%  Similarity=0.395  Sum_probs=19.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +||+|+|++||||||.+++|..
T Consensus         1 m~I~i~G~pGSGKsT~~~~La~   22 (179)
T d1e4va1           1 MRIILLGAPVAGKGTQAQFIME   22 (179)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999998864

>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=96.21  E-value=0.0014  Score=52.39  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=20.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .++|+|+|++||||||+++.|..
T Consensus         2 ~mrIvl~G~pGSGKtT~a~~La~   24 (180)
T d1akya1           2 SIRMVLIGPPGAGKGTQAPNLQE   24 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            37899999999999999999964

>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=96.19  E-value=0.0012  Score=53.43  Aligned_cols=22  Identities=41%  Similarity=0.653  Sum_probs=19.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q 040295           52 ILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      |+|+||+|||||||+++|....
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            8999999999999999997653

>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=96.17  E-value=0.0011  Score=52.09  Aligned_cols=20  Identities=20%  Similarity=0.511  Sum_probs=18.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 040295           52 ILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~   71 (289)
                      |.|+|.+|||||||+++++.
T Consensus         4 i~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            46999999999999999975

>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=96.11  E-value=0.0018  Score=50.35  Aligned_cols=25  Identities=28%  Similarity=0.312  Sum_probs=21.0

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..++-|.++|.+||||||+.+.|..
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4567789999999999999988763

>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=96.09  E-value=0.0014  Score=52.50  Aligned_cols=22  Identities=32%  Similarity=0.448  Sum_probs=19.4

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      =|+|+||+|||||||++++...
T Consensus         4 iivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           4 VVVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            3789999999999999999754

>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=96.06  E-value=0.0015  Score=51.48  Aligned_cols=22  Identities=36%  Similarity=0.558  Sum_probs=19.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ++|+++|.+||||||+.+.+..
T Consensus         2 p~IvliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999988853

>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=96.06  E-value=0.0015  Score=50.77  Aligned_cols=21  Identities=24%  Similarity=0.544  Sum_probs=19.1

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .|+|.|++|+|||||+..+..
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~   23 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            389999999999999999874

>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=96.04  E-value=0.0018  Score=55.10  Aligned_cols=40  Identities=13%  Similarity=0.260  Sum_probs=29.1

Q ss_pred             eecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           31 LIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        31 ~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..||...+  +.+++... --++++|++|||||||++.+.+-.
T Consensus         9 k~~g~~~~--~vs~~~~~-e~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1           9 KRLGNFRL--NVDFEMGR-DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEETTEEE--EEEEEECS-SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEECCEEE--EEEEEeCC-EEEEEECCCCChHHHHHHHHHcCC
Confidence            45665443  25555543 357899999999999999998765

>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=96.03  E-value=0.0016  Score=52.61  Aligned_cols=21  Identities=29%  Similarity=0.705  Sum_probs=19.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040295           52 ILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~~   72 (289)
                      |+|+||+|+||+||+++|+..
T Consensus         6 ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           6 LVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            899999999999999999854

>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=95.92  E-value=0.0018  Score=52.47  Aligned_cols=21  Identities=33%  Similarity=0.661  Sum_probs=18.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040295           52 ILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~~   72 (289)
                      |+|+||+|||||||+++|...
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~   23 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQE   23 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            899999999999999998643

>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=95.91  E-value=0.0019  Score=51.97  Aligned_cols=21  Identities=29%  Similarity=0.390  Sum_probs=18.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      -|+++|.|||||||++++|..
T Consensus         4 li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           4 LIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999999874

>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=95.90  E-value=0.0019  Score=53.38  Aligned_cols=23  Identities=22%  Similarity=0.403  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCC
Q 040295           51 GILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      =|+|+||+|||||||+++++...
T Consensus         4 livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           4 LYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            48899999999999999998653

>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=95.89  E-value=0.002  Score=50.10  Aligned_cols=20  Identities=25%  Similarity=0.479  Sum_probs=18.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 040295           52 ILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~   71 (289)
                      |+|+|++||||||+.+.|..
T Consensus         9 ivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           9 YVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             EEEECSTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67799999999999999865

>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=95.88  E-value=0.0025  Score=50.44  Aligned_cols=24  Identities=33%  Similarity=0.290  Sum_probs=20.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..+-|+|.|++|||||||+++|..
T Consensus        21 ~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          21 GRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            345688999999999999999864

>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=95.88  E-value=0.0026  Score=51.25  Aligned_cols=25  Identities=24%  Similarity=0.478  Sum_probs=21.2

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ....-|+|+|++||||||++.+|..
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3445699999999999999999964

>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=95.85  E-value=0.0022  Score=50.14  Aligned_cols=19  Identities=21%  Similarity=0.385  Sum_probs=17.4

Q ss_pred             EEEEcCCCCCHHHHHHHHh
Q 040295           52 ILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~   70 (289)
                      |+|.|++||||||+++++.
T Consensus         4 I~i~G~~GsGKsT~~~~L~   22 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAM   22 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            7888999999999999885

>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=95.84  E-value=0.0049  Score=53.32  Aligned_cols=61  Identities=11%  Similarity=0.006  Sum_probs=40.8

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCCCCC-----CCCCcceEEeeEEeecCcceEEEEEEEcCCchh
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNFEDA-----SDSSSELLVNGWTINTKYYTADVSLWMAHLHEE  110 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~~~~-----~~~t~~~~~~~~~i~~~~~~~~l~I~Dt~G~e~  110 (289)
                      ..-|.|+|+.++|||+|+|++++..+.-.     ...|.|.-.....+. .+....+.+.||.|...
T Consensus        32 v~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~~-~~~~~~~~~lDteG~~~   97 (277)
T d1f5na2          32 MVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHP-KKPGHILVLLDTEGLGD   97 (277)
T ss_dssp             EEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECS-SSTTCEEEEEEECCBCC
T ss_pred             EEEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeecc-CCCCceEEEEecccccc
Confidence            34689999999999999999998764222     234555433333322 33445688899998643

>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=95.76  E-value=0.0027  Score=49.42  Aligned_cols=21  Identities=33%  Similarity=0.540  Sum_probs=18.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040295           52 ILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~~   72 (289)
                      |+|.|++||||||+.+.+...
T Consensus         7 I~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            778999999999999988654

>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=95.73  E-value=0.0037  Score=49.94  Aligned_cols=22  Identities=23%  Similarity=0.391  Sum_probs=19.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .-|+++|.+|||||||++++..
T Consensus        15 ~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          15 EVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTG
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999964

>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=95.71  E-value=0.0026  Score=50.96  Aligned_cols=22  Identities=23%  Similarity=0.483  Sum_probs=19.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +.|+|+|++||||||.+.++..
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998864

>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=95.66  E-value=0.0034  Score=51.21  Aligned_cols=24  Identities=29%  Similarity=0.332  Sum_probs=21.0

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +.++|+|-||+||||||.+.+|..
T Consensus         2 k~i~IaIdGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           2 KTIQIAIDGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999999864

>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=95.65  E-value=0.0028  Score=49.06  Aligned_cols=21  Identities=43%  Similarity=0.586  Sum_probs=18.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040295           52 ILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~~   72 (289)
                      |+|.|++||||||+.+.|...
T Consensus         6 I~l~G~~GsGKsTva~~L~~~   26 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            566699999999999998764

>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=95.42  E-value=0.0039  Score=48.95  Aligned_cols=21  Identities=33%  Similarity=0.458  Sum_probs=18.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +|+++|++||||||+.+.+..
T Consensus         2 ~I~liG~~GsGKsTi~k~La~   22 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAK   22 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999998854

>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=95.39  E-value=0.0031  Score=52.64  Aligned_cols=22  Identities=23%  Similarity=0.407  Sum_probs=19.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q 040295           52 ILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      |++.|+||||||||++.+...-
T Consensus        35 ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          35 FLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             EEEECCTTSCTHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            8899999999999999997643

>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=95.24  E-value=0.0045  Score=48.46  Aligned_cols=20  Identities=35%  Similarity=0.665  Sum_probs=17.2

Q ss_pred             eE-EEEcCCCCCHHHHHHHHh
Q 040295           51 GI-LIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        51 KI-~ilG~~gvGKSSLi~rl~   70 (289)
                      || +|.|.+||||||+++.+.
T Consensus         2 kiivi~G~~GsGKTT~~~~La   22 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVK   22 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            55 567999999999999885

>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=95.12  E-value=0.0051  Score=49.41  Aligned_cols=22  Identities=23%  Similarity=0.431  Sum_probs=19.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -|+|+|+|||||||++.+|...
T Consensus        10 iI~l~G~pGSGKsT~a~~La~~   31 (194)
T d3adka_          10 IIFVVGGPGSGKGTQCEKIVQK   31 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999999653

>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=95.12  E-value=0.0054  Score=48.27  Aligned_cols=19  Identities=26%  Similarity=0.504  Sum_probs=17.7

Q ss_pred             EEEEcCCCCCHHHHHHHHh
Q 040295           52 ILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~   70 (289)
                      |+++|++||||||+.+.+.
T Consensus         5 Iil~G~~GsGKSTia~~LA   23 (170)
T d1e6ca_           5 IFMVGARGCGMTTVGRELA   23 (170)
T ss_dssp             EEEESCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            7889999999999999985

>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=95.09  E-value=0.0027  Score=50.31  Aligned_cols=24  Identities=25%  Similarity=0.304  Sum_probs=20.4

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .+.-|.++|.+||||||+.+.|..
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            345688999999999999999864

>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=95.08  E-value=0.0049  Score=50.95  Aligned_cols=23  Identities=26%  Similarity=0.430  Sum_probs=20.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..+++.||||+||||+++.+...
T Consensus        36 ~~~L~~GPpGtGKT~lA~~la~~   58 (238)
T d1in4a2          36 DHVLLAGPPGLGKTTLAHIIASE   58 (238)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHhc
Confidence            35999999999999999998754

>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=95.05  E-value=0.0052  Score=50.85  Aligned_cols=23  Identities=22%  Similarity=0.426  Sum_probs=20.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..+++.||||+||||+++.+.+.
T Consensus        36 ~~~Ll~GPpG~GKTtla~~la~~   58 (239)
T d1ixsb2          36 EHLLLFGPPGLGKTTLAHVIAHE   58 (239)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            45899999999999999998754

>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=94.77  E-value=0.0081  Score=48.78  Aligned_cols=22  Identities=18%  Similarity=0.323  Sum_probs=19.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +-|+|.|++|||||||.+.|..
T Consensus         3 ~iIgI~G~~gSGKSTla~~L~~   24 (213)
T d1uj2a_           3 FLIGVSGGTASGKSSVCAKIVQ   24 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            6689999999999999998854

>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=94.73  E-value=0.0072  Score=49.93  Aligned_cols=22  Identities=23%  Similarity=0.341  Sum_probs=19.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -|+|.|++|+|||||++++...
T Consensus        31 ~i~i~G~~G~GKTsLl~~~~~~   52 (283)
T d2fnaa2          31 ITLVLGLRRTGKSSIIKIGINE   52 (283)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Confidence            4889999999999999998753

>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=94.67  E-value=0.017  Score=45.73  Aligned_cols=25  Identities=24%  Similarity=0.284  Sum_probs=21.6

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ++.-|++-|+=|+|||||++.++..
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~   56 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhh
Confidence            4556889999999999999999865

>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=94.51  E-value=0.0081  Score=52.38  Aligned_cols=23  Identities=43%  Similarity=0.697  Sum_probs=20.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      --|+++||+|||||.|++.+...
T Consensus        50 ~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          50 KNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHhhc
Confidence            34899999999999999998754

>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=94.50  E-value=0.0085  Score=49.20  Aligned_cols=23  Identities=35%  Similarity=0.472  Sum_probs=20.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..+++.|++|+||||+++.+...
T Consensus        46 ~~lll~Gp~G~GKTtla~~iak~   68 (231)
T d1iqpa2          46 PHLLFAGPPGVGKTTAALALARE   68 (231)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            35999999999999999998764

>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=94.41  E-value=0.009  Score=49.48  Aligned_cols=24  Identities=17%  Similarity=0.254  Sum_probs=21.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      -.+++.||+|+||||+++.+.+.-
T Consensus        53 ~~lll~GPpG~GKTt~a~~la~~~   76 (253)
T d1sxja2          53 RAAMLYGPPGIGKTTAAHLVAQEL   76 (253)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHH
Confidence            359999999999999999998654

>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=94.33  E-value=0.012  Score=48.32  Aligned_cols=23  Identities=30%  Similarity=0.475  Sum_probs=20.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -.++++|++|||||++++.+...
T Consensus        44 ~n~lLvG~pGVGKTalv~~LA~r   66 (195)
T d1jbka_          44 NNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEecCCcccHHHHHHHHHH
Confidence            46999999999999999888753

>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=94.29  E-value=0.011  Score=48.77  Aligned_cols=23  Identities=26%  Similarity=0.553  Sum_probs=20.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -.++|.|++|+|||++++.+...
T Consensus        44 ~~lll~GppGtGKT~l~~~l~~~   66 (276)
T d1fnna2          44 PRATLLGRPGTGKTVTLRKLWEL   66 (276)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            36999999999999999988754

>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=94.22  E-value=0.012  Score=47.42  Aligned_cols=22  Identities=32%  Similarity=0.354  Sum_probs=18.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      =|+|.||+||||+|+...+...
T Consensus         5 iI~I~GppGSGKgT~ak~La~~   26 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEA   26 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4788899999999999998643

>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=94.21  E-value=0.012  Score=46.92  Aligned_cols=23  Identities=30%  Similarity=0.348  Sum_probs=20.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .+-|+|-|..||||||+++.|..
T Consensus         9 p~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           9 PFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             CEEEEEECSTTSCHHHHHHTTGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35699999999999999999864

>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=94.03  E-value=0.014  Score=50.21  Aligned_cols=23  Identities=35%  Similarity=0.426  Sum_probs=19.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -.++++|++|||||++++.|...
T Consensus        40 ~n~lLVG~~GvGKTalv~~la~r   62 (268)
T d1r6bx2          40 NNPLLVGESGVGKTAIAEGLAWR   62 (268)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEECCCCCcHHHHHHHHHHH
Confidence            36999999999999999888753

>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=93.96  E-value=0.014  Score=49.30  Aligned_cols=23  Identities=17%  Similarity=0.420  Sum_probs=20.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -.|++.||+|||||+|++.+.+.
T Consensus        41 ~~vLL~GppGtGKT~la~alA~~   63 (246)
T d1d2na_          41 VSVLLEGPPHSGKTALAAKIAEE   63 (246)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHhhc
Confidence            45999999999999999999753

>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=93.67  E-value=0.0089  Score=49.61  Aligned_cols=21  Identities=24%  Similarity=0.243  Sum_probs=17.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040295           52 ILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~~   72 (289)
                      +++.|++|+|||++++.+...
T Consensus        49 l~l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          49 YGSIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             EECTTCCSSSHHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHHH
Confidence            345699999999999998754

>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=93.67  E-value=0.016  Score=47.37  Aligned_cols=22  Identities=23%  Similarity=0.375  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .+++.||+|+||||+++.+...
T Consensus        35 ~lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          35 HMLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChHHHHHHHHHH
Confidence            4899999999999999998754

>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=93.66  E-value=0.016  Score=47.42  Aligned_cols=23  Identities=30%  Similarity=0.482  Sum_probs=19.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..+++.||+|+||||+++.+...
T Consensus        37 ~~~ll~Gp~G~GKTt~a~~la~~   59 (224)
T d1sxjb2          37 PHMIISGMPGIGKTTSVHCLAHE   59 (224)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCchhhHHHHHHH
Confidence            35899999999999999988643

>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=93.49  E-value=0.014  Score=48.07  Aligned_cols=22  Identities=32%  Similarity=0.487  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .+++.|++|+||||+++.+...
T Consensus        35 ~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          35 HLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             CEEEECSTTSSHHHHHHTHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            5999999999999999998764

>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=93.43  E-value=0.02  Score=44.78  Aligned_cols=26  Identities=19%  Similarity=0.144  Sum_probs=21.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ++-=++|.|++|+|||+|+..|...-
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            34458999999999999999998644

>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=93.43  E-value=0.022  Score=45.59  Aligned_cols=21  Identities=38%  Similarity=0.526  Sum_probs=18.5

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      -|+|-|..||||||+++.|..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999998763

>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=93.24  E-value=0.02  Score=46.68  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=20.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .+++.|++|+||||+++.+...
T Consensus        37 ~lLl~Gp~G~GKttl~~~la~~   58 (227)
T d1sxjc2          37 HLLFYGPPGTGKTSTIVALARE   58 (227)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHHH
Confidence            5899999999999999999864

>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=93.08  E-value=0.022  Score=48.04  Aligned_cols=22  Identities=27%  Similarity=0.607  Sum_probs=20.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .|++.||+|+|||+|++.+.+.
T Consensus        44 giLl~GppGtGKT~la~aia~~   65 (247)
T d1ixza_          44 GVLLVGPPGVGKTHLARAVAGE   65 (247)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEecCCCCChhHHHHHHHHH
Confidence            4999999999999999999854

>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=92.97  E-value=0.021  Score=46.77  Aligned_cols=28  Identities=25%  Similarity=0.247  Sum_probs=22.9

Q ss_pred             cccCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           44 ASLEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        44 ~~~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      +....+.-|.|.|.||+|||||.+.|..
T Consensus        19 ~~~~kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          19 LRNQRGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             HHTSSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             HhCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3445566799999999999999999863

>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=92.93  E-value=0.034  Score=44.03  Aligned_cols=24  Identities=33%  Similarity=0.220  Sum_probs=20.3

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      +-|+|.|.+||||||+++.|....
T Consensus         4 ~IIgitG~~gSGKstva~~l~~~g   27 (191)
T d1uf9a_           4 IIIGITGNIGSGKSTVAALLRSWG   27 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCC
Confidence            568899999999999999886433

>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=92.65  E-value=0.038  Score=45.72  Aligned_cols=24  Identities=29%  Similarity=0.412  Sum_probs=19.3

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHh
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~   70 (289)
                      ....-|+++|+.||||||-+-++.
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLA   32 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLA   32 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            344568999999999999877765

>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=92.62  E-value=0.03  Score=49.13  Aligned_cols=24  Identities=17%  Similarity=0.457  Sum_probs=20.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      -.|+|.|+.|+|||||++.++..-
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i  190 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFI  190 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGS
T ss_pred             CCEEEEeeccccchHHHHHHhhhc
Confidence            359999999999999999998543

>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=92.54  E-value=0.029  Score=47.55  Aligned_cols=22  Identities=23%  Similarity=0.555  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .+++.||+|+|||++++.+...
T Consensus        47 ~iLL~GppGtGKT~la~~iA~~   68 (256)
T d1lv7a_          47 GVLMVGPPGTGKTLLAKAIAGE   68 (256)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEeeCCCCCCccHHHHHHHHH
Confidence            4899999999999999999753

>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=92.52  E-value=0.031  Score=45.69  Aligned_cols=25  Identities=16%  Similarity=0.181  Sum_probs=21.3

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      +--++|.|++|+|||+|..+|+..-
T Consensus        36 G~~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          36 QAITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3458999999999999999998654

>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=92.52  E-value=0.029  Score=47.33  Aligned_cols=22  Identities=32%  Similarity=0.522  Sum_probs=20.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcC
Q 040295           51 GILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .|++.||+|+|||+|++.+...
T Consensus        40 giLL~GppGtGKT~l~~ala~~   61 (258)
T d1e32a2          40 GILLYGPPGTGKTLIARAVANE   61 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eeEEecCCCCCchHHHHHHHHH
Confidence            5999999999999999999764

>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=92.46  E-value=0.033  Score=44.97  Aligned_cols=26  Identities=15%  Similarity=0.133  Sum_probs=21.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ++--++|.|++|+|||+|+..|...-
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTTT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            34458999999999999999997543

>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=92.36  E-value=0.031  Score=48.86  Aligned_cols=23  Identities=39%  Similarity=0.278  Sum_probs=19.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .+-|+|.|++|||||||.+.+..
T Consensus        80 P~iIGIaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          80 PYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEEeCCCCCCCcHHHHHHHH
Confidence            36799999999999999888753

>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=92.20  E-value=0.037  Score=44.60  Aligned_cols=21  Identities=29%  Similarity=0.321  Sum_probs=18.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      -|+|-|..||||||+++.|..
T Consensus         4 fIviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           4 YIVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             EEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488889999999999998763

>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=92.13  E-value=0.032  Score=46.11  Aligned_cols=23  Identities=30%  Similarity=0.434  Sum_probs=20.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      .-++|.|.-|+|||||+++++..
T Consensus         4 Pv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           4 AVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CEEEEeeCCCCCHHHHHHHHHhc
Confidence            45789999999999999999875

>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=91.96  E-value=0.03  Score=51.37  Aligned_cols=21  Identities=48%  Similarity=0.744  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .|+++||+|||||-|++++..
T Consensus        51 NILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          51 NILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999999875

>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=91.89  E-value=0.034  Score=45.96  Aligned_cols=64  Identities=11%  Similarity=0.045  Sum_probs=35.2

Q ss_pred             EEEEEEEcCCchhhhcc---c---ccc--ccCccEEEEEEeCCCH-hhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295           98 ADVSLWMAHLHEEFSIR---S---LPI--SDQLTALVMVFNLNDL-STLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        98 ~~l~I~Dt~G~e~~~~~---~---~~~--~~~ad~vIlV~Dv~~~-~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      ..+.+.||+|...+...   .   ..+  .-..+-+++|.+.+.. +..+.+....   .......  +|.+|.|...
T Consensus        95 ~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~~~---~~~~~~~--lI~TKlDet~  167 (211)
T d1j8yf2          95 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFN---QASKIGT--IIITKMDGTA  167 (211)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHH---HHCTTEE--EEEECTTSCS
T ss_pred             CceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhhhh---cccCcce--EEEecccCCC
Confidence            46899999996433210   1   111  1235678899988743 3444433332   2222222  3589999854

>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=91.86  E-value=0.049  Score=43.73  Aligned_cols=25  Identities=36%  Similarity=0.510  Sum_probs=21.9

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      .-|+|+|++|+||||++-.|....+
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~g~   39 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQRGH   39 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTTC
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcCC
Confidence            4599999999999999999987654

>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=91.76  E-value=0.044  Score=45.26  Aligned_cols=20  Identities=40%  Similarity=0.680  Sum_probs=17.8

Q ss_pred             eEEEEcCCCCCHHHHHHHHh
Q 040295           51 GILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~   70 (289)
                      -|+++|+.||||||.+-++.
T Consensus        11 vi~lvGptGvGKTTTiAKLA   30 (211)
T d2qy9a2          11 VILMVGVNGVGKTTTIGKLA   30 (211)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            47789999999999998876

>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=91.67  E-value=0.054  Score=43.51  Aligned_cols=25  Identities=32%  Similarity=0.543  Sum_probs=21.8

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      .-|+|.|++|+||||++-.|....+
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~G~   40 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINKNH   40 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTTTC
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHcCC
Confidence            4599999999999999999987654

>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=91.52  E-value=0.048  Score=44.78  Aligned_cols=64  Identities=9%  Similarity=-0.017  Sum_probs=36.0

Q ss_pred             EEEEEEEcCCchhhhccc----ccc--ccCccEEEEEEeCCCH-hhHHHHHHHHHHhhhcCCCeEEEEeeCCCCCC
Q 040295           98 ADVSLWMAHLHEEFSIRS----LPI--SDQLTALVMVFNLNDL-STLDALKHWVPSIDLQKFEILLCIGNKVDLLP  166 (289)
Q Consensus        98 ~~l~I~Dt~G~e~~~~~~----~~~--~~~ad~vIlV~Dv~~~-~S~~~l~~~~~~i~~~~~~~iivvgnK~Dl~~  166 (289)
                      .++.++||+|........    ..+  ..+.+-+++|.|.+.. +..+.+..+...+.   ..-  +|.+|.|-..
T Consensus        93 ~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~~~~~~f~~~~~---~~~--~I~TKlDe~~  163 (207)
T d1ls1a2          93 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVG---VTG--LVLTKLDGDA  163 (207)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHHHHHHHHHTC---CCE--EEEECGGGCS
T ss_pred             CcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHHHHHHHHHhhCC---CCe--eEEeecCccc
Confidence            468999999954332211    111  2346788999987644 44444444333332   222  4579999753

>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=91.49  E-value=0.037  Score=49.82  Aligned_cols=21  Identities=33%  Similarity=0.548  Sum_probs=17.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHh
Q 040295           50 PGILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~   70 (289)
                      -.++++|++|||||++++.|.
T Consensus        44 ~n~llvG~~GvGKtaiv~~la   64 (387)
T d1qvra2          44 NNPVLIGEPGVGKTAIVEGLA   64 (387)
T ss_dssp             CCCEEEECTTSCHHHHHHHHH
T ss_pred             CCCeEECCCCCCHHHHHHHHH
Confidence            347999999999999885544

>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=91.46  E-value=0.038  Score=46.83  Aligned_cols=23  Identities=22%  Similarity=0.436  Sum_probs=20.3

Q ss_pred             eEEEEcCCCCCHHHHHHHHhcCC
Q 040295           51 GILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      -|++.|++|+|||+|++.+.+.-
T Consensus        43 giLL~Gp~GtGKT~l~~ala~~~   65 (265)
T d1r7ra3          43 GVLFYGPPGCGKTLLAKAIANEC   65 (265)
T ss_dssp             EEEEBCCTTSSHHHHHHHHHHHT
T ss_pred             eEEEECCCCCcchhHHHHHHHHh
Confidence            49999999999999999997543

>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=91.38  E-value=0.032  Score=45.43  Aligned_cols=21  Identities=33%  Similarity=0.368  Sum_probs=18.9

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .|+|-|+.||||||+++.|..
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGG
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999998864

>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=91.33  E-value=0.054  Score=43.96  Aligned_cols=28  Identities=18%  Similarity=0.154  Sum_probs=23.0

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      ..++--++|.|++|+|||+|+.+|+..-
T Consensus        34 ip~G~~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          34 IESMAITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             BCSSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             CcCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4445569999999999999999998643

>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=91.10  E-value=0.028  Score=48.75  Aligned_cols=20  Identities=30%  Similarity=0.318  Sum_probs=15.1

Q ss_pred             eEEEEcCCCCCHHHHHHHHh
Q 040295           51 GILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~   70 (289)
                      =|+|.|++||||||+.+.|.
T Consensus         6 IIgIaG~SGSGKTTva~~l~   25 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFD   25 (288)
T ss_dssp             EEEEESCC---CCTHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHH
Confidence            49999999999999999764

>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=91.05  E-value=0.056  Score=43.40  Aligned_cols=26  Identities=15%  Similarity=0.074  Sum_probs=21.7

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      .+-=++|.|++|+|||+|+..+...-
T Consensus        33 ~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          33 SQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            34458999999999999999998543

>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=90.90  E-value=0.07  Score=43.42  Aligned_cols=21  Identities=29%  Similarity=0.393  Sum_probs=17.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHh
Q 040295           50 PGILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~   70 (289)
                      .=|+|-|..||||||+++.+.
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~   24 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLV   24 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            348888999999999887764

>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=90.86  E-value=0.034  Score=48.31  Aligned_cols=21  Identities=33%  Similarity=0.656  Sum_probs=19.1

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .|+++|++|+|||+|++++..
T Consensus        30 ~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_          30 GVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CEEEECCGGGCTTHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHH
Confidence            599999999999999999863

>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=90.74  E-value=0.066  Score=43.55  Aligned_cols=26  Identities=31%  Similarity=0.420  Sum_probs=22.1

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      +++--++|.|++|+|||+|+.++..+
T Consensus        24 ~~gsl~li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          24 FKDSIILATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             ESSCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            34556999999999999999999865

>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=90.65  E-value=0.057  Score=48.06  Aligned_cols=22  Identities=32%  Similarity=0.380  Sum_probs=19.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      --+++.||||+|||+|++.+.+
T Consensus       155 ~~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         155 RYWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3599999999999999999874

>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=90.61  E-value=0.06  Score=45.73  Aligned_cols=23  Identities=30%  Similarity=0.330  Sum_probs=19.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      --|+|.|.+|+|||||+..+.+.
T Consensus        45 ~~v~I~GmgGiGKTtLA~~v~~~   67 (277)
T d2a5yb3          45 FFLFLHGRAGSGKSVIASQALSK   67 (277)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            34789999999999999998654

>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=90.57  E-value=0.064  Score=46.61  Aligned_cols=21  Identities=29%  Similarity=0.504  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      -++++||+|||||.|++.+..
T Consensus        54 ~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          54 SFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCcchhHHHHHHHHh
Confidence            489999999999999999874

>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=90.45  E-value=0.077  Score=42.20  Aligned_cols=26  Identities=31%  Similarity=0.492  Sum_probs=22.2

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           49 RPGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      +.-|+|+|++|+||||+.-.++...+
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~g~   40 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKRGH   40 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHTTC
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHcCC
Confidence            35699999999999999988887654

>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=90.07  E-value=0.1  Score=41.99  Aligned_cols=24  Identities=21%  Similarity=0.209  Sum_probs=20.1

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVN   73 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~   73 (289)
                      +-|+|.|..||||||+++.|....
T Consensus         3 ~iIgITG~igSGKStv~~~l~~~G   26 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTDLG   26 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHTTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCC
Confidence            458899999999999999886433

>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=89.67  E-value=0.088  Score=42.89  Aligned_cols=20  Identities=35%  Similarity=0.441  Sum_probs=18.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 040295           52 ILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~   71 (289)
                      |+|=|..||||||+++.|..
T Consensus         5 IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           5 LSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEECTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            88899999999999999874

>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=89.58  E-value=0.094  Score=41.79  Aligned_cols=26  Identities=27%  Similarity=0.339  Sum_probs=21.1

Q ss_pred             cCCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           46 LEKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        46 ~~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .+++--++|.|++|+|||+|+..++.
T Consensus        23 i~~G~~~~I~G~~G~GKT~la~~~~~   48 (242)
T d1tf7a1          23 LPIGRSTLVSGTSGTGKTLFSIQFLY   48 (242)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcCCeEEEEEeCCCCCHHHHHHHHHH
Confidence            34456699999999999999988754

>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=89.55  E-value=0.1  Score=42.08  Aligned_cols=25  Identities=16%  Similarity=0.267  Sum_probs=20.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSVNF   74 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~~~   74 (289)
                      +-|+|.|..||||||+++.|....+
T Consensus         4 ~iIgitG~igSGKStv~~~l~~~G~   28 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFADLGI   28 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTTC
T ss_pred             EEEEEECCCcCCHHHHHHHHHHCCC
Confidence            3478999999999999998865443

>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=89.47  E-value=0.018  Score=44.63  Aligned_cols=42  Identities=12%  Similarity=0.206  Sum_probs=27.9

Q ss_pred             hhhhhheecCCcccccccccccCCCceEEEEcCCCCCHHHHHHHHh
Q 040295           25 LSFVRVLIFGRQEMDSTDRASLEKRPGILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        25 ~~~~~~~~~g~~~~~~~~~~~~~~~iKI~ilG~~gvGKSSLi~rl~   70 (289)
                      ++.++..+|+.-.   .......++ -.+|+|+.|+|||||+..+.
T Consensus         4 l~~l~l~Nf~~~~---~~~i~f~~~-~tvi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_           4 FRSLTLINWNGFF---ARTFDLDEL-VTTLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             EEEEEEEEETTEE---EEEECHHHH-HHHHHSCCSHHHHHHHHHHH
T ss_pred             eeEEEEECccCEe---eEEEEcCCC-eEEEECCCCCCHHHHHHHHH
Confidence            4556666676542   233334333 35678999999999999985

>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=89.21  E-value=0.095  Score=46.56  Aligned_cols=22  Identities=32%  Similarity=0.546  Sum_probs=19.5

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      -.++++||+|||||-|+++|..
T Consensus        69 ~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          69 SNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             cceeeeCCCCccHHHHHHHHHh
Confidence            4599999999999999999864

>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=88.55  E-value=0.11  Score=42.18  Aligned_cols=22  Identities=36%  Similarity=0.318  Sum_probs=19.0

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhc
Q 040295           50 PGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .=|+|-|..||||||+++.|..
T Consensus         4 k~I~iEG~DGsGKST~~~~L~~   25 (214)
T d1tmka_           4 KLILIEGLDRTGKTTQCNILYK   25 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCcHHHHHHHHHH
Confidence            4589999999999999998853

>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=88.41  E-value=0.11  Score=42.67  Aligned_cols=20  Identities=35%  Similarity=0.478  Sum_probs=17.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 040295           52 ILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~   71 (289)
                      +++.|++|+|||++++.+..
T Consensus        37 ~Ll~Gp~G~GKtt~a~~~~~   56 (239)
T d1njfa_          37 YLFSGTRGVGKTSIARLLAK   56 (239)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            78899999999999998764

>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=88.32  E-value=0.085  Score=44.46  Aligned_cols=18  Identities=28%  Similarity=0.597  Sum_probs=16.3

Q ss_pred             EEEEcCCCCCHHHHHHHH
Q 040295           52 ILIIGSSNVGKRTILSRL   69 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl   69 (289)
                      -+|+|+.||||||+++.+
T Consensus        27 nvlvG~NgsGKS~iL~Ai   44 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAI   44 (308)
T ss_dssp             EEEECCTTTCSTHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHH
Confidence            478999999999999877

>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=88.27  E-value=0.12  Score=44.37  Aligned_cols=21  Identities=19%  Similarity=0.184  Sum_probs=18.4

Q ss_pred             ceEEEEcCCCCCHHHHHHHHh
Q 040295           50 PGILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~   70 (289)
                      +=|.|.|++|||||||...+.
T Consensus        28 ~iIGi~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          28 LFIFFSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEeECCCCCCHHHHHHHHH
Confidence            668899999999999998764

>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=88.00  E-value=0.13  Score=41.56  Aligned_cols=20  Identities=20%  Similarity=0.366  Sum_probs=18.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q 040295           52 ILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~   71 (289)
                      +++.|++|+||||++..+..
T Consensus        27 lLl~Gp~G~GKtt~a~~~a~   46 (207)
T d1a5ta2          27 LLIQALPGMGDDALIYALSR   46 (207)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            89999999999999998765

>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=87.81  E-value=0.14  Score=42.65  Aligned_cols=25  Identities=20%  Similarity=0.270  Sum_probs=20.3

Q ss_pred             CCCceEEEEcCCCCCHHHHHHHHhc
Q 040295           47 EKRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        47 ~~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .++--++|.|++|+|||+|+..+..
T Consensus        33 ~~G~l~vi~G~~G~GKT~~~~~la~   57 (277)
T d1cr2a_          33 RGGEVIMVTSGSGMGKSTFVRQQAL   57 (277)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHH
Confidence            3344589999999999999988864

>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=87.69  E-value=0.13  Score=45.02  Aligned_cols=21  Identities=24%  Similarity=0.504  Sum_probs=17.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040295           52 ILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~~   72 (289)
                      +++.|+||||||.|++.+...
T Consensus       126 ~l~~G~pG~GKT~la~ala~~  146 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGEA  146 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHHH
Confidence            445699999999999999754

>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=87.16  E-value=0.15  Score=41.59  Aligned_cols=21  Identities=33%  Similarity=0.423  Sum_probs=19.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q 040295           52 ILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~~   72 (289)
                      +.|.|++|+|||-|++.+.+.
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~   59 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNE   59 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            789999999999999998754

>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=86.19  E-value=0.19  Score=41.55  Aligned_cols=21  Identities=14%  Similarity=0.184  Sum_probs=18.2

Q ss_pred             ceEEEEcCCCCCHHHHHHHHh
Q 040295           50 PGILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~   70 (289)
                      --++|.|++|+|||+|+-.+.
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
Confidence            347899999999999998875

>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=86.00  E-value=0.18  Score=44.56  Aligned_cols=23  Identities=26%  Similarity=0.463  Sum_probs=19.7

Q ss_pred             ceEEEEcCCCCCHHHHHHHHhcC
Q 040295           50 PGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        50 iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      -+++|+|.+|+|||+++..++.+
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
Confidence            46999999999999998877643

>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=85.68  E-value=0.16  Score=44.54  Aligned_cols=24  Identities=25%  Similarity=0.194  Sum_probs=21.5

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhc
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ...+|+|=|.-||||||+++.|..
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~   28 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMAS   28 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHS
T ss_pred             ceEEEEEECCccCCHHHHHHHHHH
Confidence            347999999999999999999875

>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=85.63  E-value=0.19  Score=43.81  Aligned_cols=22  Identities=23%  Similarity=0.383  Sum_probs=18.1

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHh
Q 040295           48 KRPGILIIGSSNVGKRTILSRLL   70 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~   70 (289)
                      +++ -+|+|+.|+|||+++..+.
T Consensus        25 ~~l-~~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          25 SNF-TSIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             CSE-EEEECSTTSSHHHHHHHHH
T ss_pred             CCE-EEEECCCCCCHHHHHHHHH
Confidence            344 4688999999999999974

>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=85.40  E-value=0.16  Score=41.55  Aligned_cols=23  Identities=17%  Similarity=0.342  Sum_probs=19.9

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      .=-+++.||+++|||.|+..++.
T Consensus        53 kn~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          53 KNCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             CSEEEEESCGGGCHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHH
Confidence            34599999999999999998764

>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=85.18  E-value=0.15  Score=44.79  Aligned_cols=25  Identities=24%  Similarity=0.274  Sum_probs=21.8

Q ss_pred             CCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           48 KRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        48 ~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ..++|+|=|.-||||||+++.+...
T Consensus         4 ~~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           4 GVLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHH
Confidence            3478999999999999999999753

>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=84.97  E-value=0.23  Score=42.70  Aligned_cols=28  Identities=18%  Similarity=0.344  Sum_probs=23.7

Q ss_pred             ccCCCceEEEEcCCCCCHHHHHHHHhcC
Q 040295           45 SLEKRPGILIIGSSNVGKRTILSRLLSV   72 (289)
Q Consensus        45 ~~~~~iKI~ilG~~gvGKSSLi~rl~~~   72 (289)
                      ....+=|++|+|++|+|||+|+..+..+
T Consensus        39 PigrGQr~~I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          39 PIGRGQRGLIVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             CCBTTCEEEEEECSSSSHHHHHHHHHHH
T ss_pred             cccCCCeeeEeCCCCCCHHHHHHHHHHH
Confidence            4556678999999999999999988753

>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=84.50  E-value=0.19  Score=44.04  Aligned_cols=23  Identities=26%  Similarity=0.316  Sum_probs=20.5

Q ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Q 040295           49 RPGILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        49 ~iKI~ilG~~gvGKSSLi~rl~~   71 (289)
                      ..+|+|=|.-||||||+++.+..
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC
T ss_pred             ceEEEEECCcCCCHHHHHHHHHH
Confidence            46799999999999999999863

>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=83.31  E-value=0.21  Score=41.62  Aligned_cols=17  Identities=18%  Similarity=0.491  Sum_probs=13.9

Q ss_pred             EEEEcCCCCCHHHH-HHH
Q 040295           52 ILIIGSSNVGKRTI-LSR   68 (289)
Q Consensus        52 I~ilG~~gvGKSSL-i~r   68 (289)
                      ++|+|++|+||||. +++
T Consensus        17 ~lI~g~aGTGKTt~l~~r   34 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVITNK   34 (306)
T ss_dssp             EEECCCTTSCHHHHHHHH
T ss_pred             EEEEeeCCccHHHHHHHH
Confidence            78999999999975 444

>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=83.00  E-value=0.32  Score=39.38  Aligned_cols=21  Identities=29%  Similarity=0.365  Sum_probs=18.7

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      -|+|.|..||||||+++.|..
T Consensus         3 iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999999864

>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=82.92  E-value=0.26  Score=41.48  Aligned_cols=15  Identities=33%  Similarity=0.694  Sum_probs=13.2

Q ss_pred             EEEEcCCCCCHHHHH
Q 040295           52 ILIIGSSNVGKRTIL   66 (289)
Q Consensus        52 I~ilG~~gvGKSSLi   66 (289)
                      ++|.|.+|+||||.+
T Consensus        27 ~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          27 LLIMAGAGSGKTRVL   41 (318)
T ss_dssp             EEEEECTTSCHHHHH
T ss_pred             EEEEecCCccHHHHH
Confidence            889999999999654

>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=82.85  E-value=0.27  Score=42.48  Aligned_cols=21  Identities=29%  Similarity=0.578  Sum_probs=18.1

Q ss_pred             eEEEEcCCCCCHHHHHHHHhc
Q 040295           51 GILIIGSSNVGKRTILSRLLS   71 (289)
Q Consensus        51 KI~ilG~~gvGKSSLi~rl~~   71 (289)
                      -++++||+|||||.+++.+..
T Consensus        55 ~~lf~Gp~G~GKt~lak~la~   75 (315)
T d1qvra3          55 SFLFLGPTGVGKTELAKTLAA   75 (315)
T ss_dssp             EEEEBSCSSSSHHHHHHHHHH
T ss_pred             EEEEECCCcchHHHHHHHHHH
Confidence            378889999999999998764

>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=81.58  E-value=0.45  Score=42.38  Aligned_cols=82  Identities=21%  Similarity=0.100  Sum_probs=43.6

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCCCCCCCcceEEeeEE----eecCcceEEEEEEEcCCchhhhccccccccCccEEEE
Q 040295           52 ILIIGSSNVGKRTILSRLLSVNFEDASDSSSELLVNGWT----INTKYYTADVSLWMAHLHEEFSIRSLPISDQLTALVM  127 (289)
Q Consensus        52 I~ilG~~gvGKSSLi~rl~~~~~~~~~~~t~~~~~~~~~----i~~~~~~~~l~I~Dt~G~e~~~~~~~~~~~~ad~vIl  127 (289)
                      |+|.|+.|+||||.++.++..-....  .    .+.+..    ....+. ..+++-...+ ..|.......++.-.=+|+
T Consensus       161 iLvtGpTGSGKSTTl~~~l~~~~~~~--~----~i~tiEdPiE~~~~~~-~q~~v~~~~~-~~~~~~l~~~lR~dPDvi~  232 (401)
T d1p9ra_         161 ILVTGPTGSGKSTTLYAGLQELNSSE--R----NILTVEDPIEFDIDGI-GQTQVNPRVD-MTFARGLRAILRQDPDVVM  232 (401)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHCCTT--S----CEEEEESSCCSCCSSS-EEEECBGGGT-BCHHHHHHHHGGGCCSEEE
T ss_pred             EEEEcCCCCCccHHHHHHhhhhcCCC--c----eEEEeccCcccccCCC-CeeeecCCcC-CCHHHHHHHHHhhcCCEEE
Confidence            99999999999999999987431111  1    111111    111111 1222221112 2455445555555555666


Q ss_pred             EEeCCCHhhHHHHH
Q 040295          128 VFNLNDLSTLDALK  141 (289)
Q Consensus       128 V~Dv~~~~S~~~l~  141 (289)
                      +=.+.|+++...+.
T Consensus       233 igEiRd~~ta~~a~  246 (401)
T d1p9ra_         233 VGEIRDLETAQIAV  246 (401)
T ss_dssp             ESCCCSHHHHHHHH
T ss_pred             ecCcCChHHHHHHH
Confidence            66777777765543