Citrus Sinensis ID: 029893

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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------
Protein Sequence
MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTGKKRR
Secondary Structure (PSIPRED)
cHHHHHHHHccccEEEEEcccccHHHHHHHHHccccccccEEEEEcccccccccccccccccHHHHHHHccccccEEEEEEccccEEcccccccccEEEEEEEccccccccccccccccEEEEEEEEcccccccccccHHHHHHHHHHHcccccEEEEEccccccHHHHHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHccEEEEEcccccHHHHHHHHHcccccHHHEEEEcccccccHHHHHHHHHHHHHHHHHHHHccccEEEEEcccccccccccHHHHcEEEEEEEccccccccccccccccHccEEEEEcccccHHccccHHHHHHHHHHHcccccEEEEEccccccHHHHHHHHHHHHHHccccccc
Coil and Loop (DISEMBL)
MLALCKFLRDKyslaavtndiftkedgeflmrngalpeeriravetggcphaairedisinlgpleelsnlFKADLLLcesggdnlaaNFSRELADYIIYIIDVsggdkiprkggpgitqadlLVINKTDLASAIGADLAVMERDalrmrdggpFIFAQVKHGLGVEEIVNHILQAWEASTGKKRR
Flexible Loop (DISEMBL)
MLALCKFlrdkyslaavtndiftkedgefLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQaweastgkkrr
Low Complexity Region (SEG)
MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTGKKRR
Disordered region (IsUnstruct)
**ALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE********
Disordered Region (DISOPRED)
MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHIL************
Disordered Region (DISEMBL)
MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE********
Disordered Region (DISPRO)
MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTGKKRR
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	186	2.2.26 [Sep-21-2011]
A7HHN3	236	Urease accessory protein	yes	no	0.978	0.771	0.703	1e-72
A9GP90	302	Urease accessory protein	yes	no	0.973	0.599	0.690	2e-67
Q96WV0	286	Uncharacterized urease ac	yes	no	0.919	0.597	0.695	3e-66
Q11VN1	244	Urease accessory protein	yes	no	0.967	0.737	0.657	3e-64
B8IJ81	204	Urease accessory protein	yes	no	0.946	0.862	0.632	2e-59
Q8DMQ4	200	Urease accessory protein	yes	no	0.903	0.84	0.621	2e-58
B0UBI3	204	Urease accessory protein	yes	no	0.946	0.862	0.621	4e-58
B1M3X4	205	Urease accessory protein	yes	no	0.946	0.858	0.604	2e-57
A4VQW0	204	Urease accessory protein	yes	no	0.924	0.843	0.630	2e-57
B1ZHN6	204	Urease accessory protein	yes	no	0.946	0.862	0.598	4e-57

>sp|A7HHN3|UREG_ANADF Urease accessory protein UreG OS=Anaeromyxobacter sp. (strain Fw109-5) GN=ureG PE=3 SV=1

 Score =  271 bits (694), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 128/182 (70%), Positives = 150/182 (82%)

Query: 1   MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
           +LALC+ LRD  SL  VTNDIFT+ED EFL+RN ALP ERIRAVETGGCPHAAIRED++ 
Sbjct: 52  VLALCRALRDSRSLGVVTNDIFTREDAEFLVRNDALPAERIRAVETGGCPHAAIREDVTA 111

Query: 61  NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 120
           NL  LEEL+   + ++L CESGGDNLAA+FSRELADY IY+IDV+GGDK+PRKGGPGITQ
Sbjct: 112 NLLALEELTEAHRPEILFCESGGDNLAAHFSRELADYTIYVIDVAGGDKVPRKGGPGITQ 171

Query: 121 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS 180
           ADLLV+NKTDLA+A+GADL VM RDA RMR  GP +FAQV  G+GV EI  H+L A+  +
Sbjct: 172 ADLLVVNKTDLATAVGADLDVMARDAARMRGDGPVVFAQVTRGVGVPEIAGHVLHAYRHA 231

Query: 181 TG 182
            G
Sbjct: 232 VG 233

Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG.
Anaeromyxobacter sp. (strain Fw109-5) (taxid: 404589)

>sp|A9GP90|UREG_SORC5 Urease accessory protein UreG OS=Sorangium cellulosum (strain So ce56) GN=ureG PE=3 SV=1

 Score =  254 bits (650), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 125/181 (69%), Positives = 143/181 (79%)

Query: 1   MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
           +LALC+ LRD+  L  VTNDIFT+ED EFL RN ALP ERIRAVETGGCPHAAIREDIS 
Sbjct: 115 VLALCRALRDRMPLGVVTNDIFTQEDAEFLHRNKALPPERIRAVETGGCPHAAIREDISH 174

Query: 61  NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 120
           NL  L++L +     LL+ ESGGDNLAA +SREL DY IY+IDV+GGDK+PRKGGPGITQ
Sbjct: 175 NLVALDDLMDHVAPALLIVESGGDNLAAQYSRELVDYTIYVIDVAGGDKVPRKGGPGITQ 234

Query: 121 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS 180
           +DLLVINKTDLA  +GADL VMERDA RMR  GPF+FAQ     GV EI++HIL A   +
Sbjct: 235 SDLLVINKTDLAPHVGADLGVMERDARRMRGDGPFLFAQCNRSQGVPEIIDHILSAMRRA 294

Query: 181 T 181
           T
Sbjct: 295 T 295

Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG.

Sorangium cellulosum (strain So ce56) (taxid: 448385)

>sp|Q96WV0|UREG_SCHPO Uncharacterized urease accessory protein ureG-like OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPCPB16A4.05c PE=3 SV=1

 Score =  250 bits (639), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 119/171 (69%), Positives = 148/171 (86%)

Query: 10  DKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELS 69
           +KYS+  VTNDIFT+ED EFL+RN ALPEERIRA+ETGGCPHAAIRED+S NL  LEEL 
Sbjct: 112 EKYSIGVVTNDIFTREDQEFLIRNKALPEERIRAIETGGCPHAAIREDVSGNLVALEELQ 171

Query: 70  NLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKT 129
           + F  +LLL ESGGDNLAAN+SR+LAD+IIY+IDVSGGDKIPRKGGPGIT++DLL+INKT
Sbjct: 172 SEFNTELLLVESGGDNLAANYSRDLADFIIYVIDVSGGDKIPRKGGPGITESDLLIINKT 231

Query: 130 DLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS 180
           DLA  +GADL+VM+RDA ++R+ GP +FAQVK+ +G++EI   IL A +++
Sbjct: 232 DLAKLVGADLSVMDRDAKKIRENGPIVFAQVKNQVGMDEITELILGAAKSA 282

Probably facilitates nickel incorporation.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q11VN1|UREG_CYTH3 Urease accessory protein UreG OS=Cytophaga hutchinsonii (strain ATCC 33406 / NCIMB 9469) GN=ureG PE=3 SV=1

 Score =  244 bits (622), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 119/181 (65%), Positives = 144/181 (79%), Gaps = 1/181 (0%)

Query: 1   MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
           ++ +CK LRDK ++A VTNDIFT ED EFL+RN AL ++RI  VETGGCPHAAIRED+S 
Sbjct: 52  LMQICKALRDKMNIAVVTNDIFTSEDAEFLIRNEALSKDRIIGVETGGCPHAAIREDVSQ 111

Query: 61  NLGPLEELSNLFK-ADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGIT 119
           N+  LEEL   F   +LL  ESGGDNLAA+FS+EL DY +Y+IDVSGGDKIPRKGGPGIT
Sbjct: 112 NMYALEELMKRFPDVELLFVESGGDNLAAHFSKELVDYSVYVIDVSGGDKIPRKGGPGIT 171

Query: 120 QADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA 179
           QADLLVINK DLA  + ADL+VMERD+ +MR  GPF+FA+ K   G++EI+NHIL A E 
Sbjct: 172 QADLLVINKIDLAHLVNADLSVMERDSKKMRGDGPFLFARAKDCFGIDEIINHILTAREK 231

Query: 180 S 180
           +
Sbjct: 232 A 232

Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG.

Cytophaga hutchinsonii (strain ATCC 33406 / NCIMB 9469) (taxid: 269798)

>sp|B8IJ81|UREG_METNO Urease accessory protein UreG OS=Methylobacterium nodulans (strain ORS2060 / LMG 21967) GN=ureG PE=3 SV=1

 Score =  228 bits (580), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 112/177 (63%), Positives = 133/177 (75%), Gaps = 1/177 (0%)

Query: 1   MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
           M  LCK LR +Y L A+TNDI+TKED   L   GALPEERI  VETGGCPH AIRED SI
Sbjct: 25  MEGLCKALRARYDLCAITNDIYTKEDARLLTVAGALPEERIMGVETGGCPHTAIREDASI 84

Query: 61  NLGPLEELSNLFKA-DLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGIT 119
           NL  + E+   F A DL+L ESGGDNLAA FS ELAD  +Y+IDV+GG+KIPRKGGPGIT
Sbjct: 85  NLAAVAEMRRRFPALDLILIESGGDNLAATFSPELADLTLYVIDVAGGEKIPRKGGPGIT 144

Query: 120 QADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA 176
           ++DLLVINKTDLA  +GADLAVME D  RMR   P++F  ++ G GVEE+   +++A
Sbjct: 145 RSDLLVINKTDLAPLVGADLAVMEADTRRMRGSRPYVFTSLRQGEGVEEVARFVVEA 201

Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG.

Methylobacterium nodulans (strain ORS2060 / LMG 21967) (taxid: 460265)

>sp|Q8DMQ4|UREG_THEEB Urease accessory protein UreG OS=Thermosynechococcus elongatus (strain BP-1) GN=ureG PE=3 SV=1

 Score =  224 bits (571), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 105/169 (62%), Positives = 132/169 (78%), Gaps = 1/169 (0%)

Query: 3   ALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINL 62
           ALCK LRD+Y LA VTNDI+T+ED +FL+R+ ALP ERI  VETGGCPH AIRED S+NL
Sbjct: 23  ALCKALRDRYRLAVVTNDIYTQEDAQFLVRSQALPPERILGVETGGCPHTAIREDASLNL 82

Query: 63  GPLEELSNLFKA-DLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQA 121
             +++L   F+  DL+  ESGGDNLAA FS EL D  IY+IDV+ GDKIPRKGGPGIT++
Sbjct: 83  AAIQQLETAFRPLDLIFVESGGDNLAATFSPELVDLTIYVIDVAAGDKIPRKGGPGITKS 142

Query: 122 DLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIV 170
           DLLVINK DLA  +GADL VM+RD L+MR   P++   +K GLG+++++
Sbjct: 143 DLLVINKIDLAPYVGADLEVMKRDTLKMRGDRPYVMTNLKTGLGLDQVI 191

Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG.

Thermosynechococcus elongatus (strain BP-1) (taxid: 197221)

>sp|B0UBI3|UREG_METS4 Urease accessory protein UreG OS=Methylobacterium sp. (strain 4-46) GN=ureG PE=3 SV=1

 Score =  223 bits (569), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 110/177 (62%), Positives = 133/177 (75%), Gaps = 1/177 (0%)

Query: 1   MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
           M  LCK LR ++ L A+TNDI+TKED   L   GALPEERI  VETGGCPH AIRED SI
Sbjct: 25  MEGLCKALRGRFDLCAITNDIYTKEDARLLTVAGALPEERIMGVETGGCPHTAIREDASI 84

Query: 61  NLGPLEELSNLFKA-DLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGIT 119
           NL  + E+   F + DL+L ESGGDNLAA FS ELAD  +Y+IDV+GG+KIPRKGGPGIT
Sbjct: 85  NLAAVAEMRRRFPSLDLILIESGGDNLAATFSPELADLTLYVIDVAGGEKIPRKGGPGIT 144

Query: 120 QADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA 176
           ++DLLVINKTDLA  +GADLAVME D  RMR G P++F  ++ G GVE +   +++A
Sbjct: 145 RSDLLVINKTDLAPLVGADLAVMEADTQRMRGGRPYVFTSLRRGDGVEAVARFVIEA 201

Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG.

Methylobacterium sp. (strain 4-46) (taxid: 426117)

>sp|B1M3X4|UREG1_METRJ Urease accessory protein UreG 1 OS=Methylobacterium radiotolerans (strain ATCC 27329 / DSM 1819 / JCM 2831) GN=ureG1 PE=3 SV=1

 Score =  221 bits (564), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 107/177 (60%), Positives = 132/177 (74%), Gaps = 1/177 (0%)

Query: 1   MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
           M  LCK  RD+Y + A+TNDI+TKED   L   GALPEERI  VETGGCPH AIRED SI
Sbjct: 24  MEQLCKRFRDRYEICAITNDIYTKEDARILTVAGALPEERILGVETGGCPHTAIREDASI 83

Query: 61  NLGPLEELSNLF-KADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGIT 119
           NL  + E+S  F K DL+L ESGGDNLAA FS ELAD  +Y+IDV+GG+KIPRKGGPGIT
Sbjct: 84  NLAAVAEMSRRFPKLDLVLIESGGDNLAATFSPELADITLYVIDVAGGEKIPRKGGPGIT 143

Query: 120 QADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA 176
           ++DLL++NKTDLA  +GADL+VME D  RMR   P++FA ++ G G + +   + +A
Sbjct: 144 RSDLLIVNKTDLAPLVGADLSVMESDTQRMRGTRPYVFASLREGTGADAVARFVEEA 200

Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG.

Methylobacterium radiotolerans (strain ATCC 27329 / DSM 1819 / JCM 2831) (taxid: 426355)

>sp|A4VQW0|UREG_PSEU5 Urease accessory protein UreG OS=Pseudomonas stutzeri (strain A1501) GN=ureG PE=3 SV=1

 Score =  221 bits (563), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 109/173 (63%), Positives = 135/173 (78%), Gaps = 1/173 (0%)

Query: 2   LALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISIN 61
           LALC+ LRD+Y+LA VTNDI+T+ED +FL+RN AL  ERI  VETGGCPH AIRED SIN
Sbjct: 23  LALCQALRDRYNLAVVTNDIYTQEDAQFLVRNEALAPERIIGVETGGCPHTAIREDASIN 82

Query: 62  LGPLEELSNLFKA-DLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 120
           L  +E+L+  F   DL++ ESGGDNL+A FS EL+D  IY+IDVS GDK+PRKGGPGI +
Sbjct: 83  LEAVEQLNRRFPGLDLIIVESGGDNLSATFSPELSDLTIYVIDVSAGDKLPRKGGPGICK 142

Query: 121 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHI 173
           +DLLVINK DLA  +GA L VM+RDA +MR   PF+F+  K G G+EEI++ I
Sbjct: 143 SDLLVINKIDLAPMVGASLEVMDRDARKMRGERPFVFSNQKVGQGLEEIISFI 195

Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG.

Pseudomonas stutzeri (strain A1501) (taxid: 379731)

>sp|B1ZHN6|UREG1_METPB Urease accessory protein UreG 1 OS=Methylobacterium populi (strain ATCC BAA-705 / NCIMB 13946 / BJ001) GN=ureG1 PE=3 SV=1

 Score =  220 bits (560), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 106/177 (59%), Positives = 132/177 (74%), Gaps = 1/177 (0%)

Query: 1   MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
           M  LC+  RD+Y + A+TNDI+TKED   L   GALPEERI  VETGGCPH AIRED SI
Sbjct: 24  MEQLCRRFRDRYEICAITNDIYTKEDARILTVAGALPEERILGVETGGCPHTAIREDASI 83

Query: 61  NLGPLEELSNLF-KADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGIT 119
           NL  + E+   F K DL+L ESGGDNLAA FS ELAD  +Y+IDV+GG+KIPRKGGPGIT
Sbjct: 84  NLAAVAEMRRRFPKLDLVLIESGGDNLAATFSPELADITLYVIDVAGGEKIPRKGGPGIT 143

Query: 120 QADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA 176
           ++DLL++NKTDLA  +GADL+VME D  RMR   P++FA ++ G G + +   I++A
Sbjct: 144 RSDLLIVNKTDLAPLVGADLSVMESDTQRMRGTRPYVFASLREGHGADRVATFIVEA 200

Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG.

Methylobacterium populi (strain ATCC BAA-705 / NCIMB 13946 / BJ001) (taxid: 441620)

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	186
222143562	279	urease accessory protein ureG [Morus alb	1.0	0.666	0.935	2e-98
297826907	278	predicted protein [Arabidopsis lyrata su	1.0	0.669	0.919	2e-97
222424894	191	AT2G34470 [Arabidopsis thaliana]	1.0	0.973	0.913	3e-97
79324312	276	urease accessory protein [Arabidopsis th	1.0	0.673	0.913	4e-97
15226754	275	urease accessory protein [Arabidopsis th	1.0	0.676	0.913	4e-97
224069802	280	predicted protein [Populus trichocarpa]	1.0	0.664	0.924	5e-97
255557339	275	Urease accessory protein ureG, putative	1.0	0.676	0.913	6e-97
449500609	287	PREDICTED: uncharacterized urease access	1.0	0.648	0.913	2e-96
449459358	277	PREDICTED: uncharacterized urease access	1.0	0.671	0.913	2e-96
4324678	275	urease accessory protein UREG [Arabidops	1.0	0.676	0.908	2e-96

>gi|222143562|dbj|BAH19310.1| urease accessory protein ureG [Morus alba]

 Score =  363 bits (932), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 174/186 (93%), Positives = 183/186 (98%)

Query: 1   MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
           MLALCKFLRDKYSLAAVTNDIFTKEDGEFL++NGALPEERIRAVETGGCPHAAIREDISI
Sbjct: 94  MLALCKFLRDKYSLAAVTNDIFTKEDGEFLVKNGALPEERIRAVETGGCPHAAIREDISI 153

Query: 61  NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 120
           NLGPLEELSNLFKAD+LLCESGGDNLAANFSRELADYIIYIIDVS GDKIPRKGGPGITQ
Sbjct: 154 NLGPLEELSNLFKADILLCESGGDNLAANFSRELADYIIYIIDVSAGDKIPRKGGPGITQ 213

Query: 121 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS 180
           ADLLVINKTDLA A+GADLAVMERDALRMRDGGPF+FAQVKHG+G+EEIVNH+LQAWEA+
Sbjct: 214 ADLLVINKTDLAPAVGADLAVMERDALRMRDGGPFVFAQVKHGVGIEEIVNHVLQAWEAA 273

Query: 181 TGKKRR 186
           TGKKR 
Sbjct: 274 TGKKRH 279

Source: Morus alba

Species: Morus alba

Genus: Morus

Family: Moraceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297826907|ref|XP_002881336.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297327175|gb|EFH57595.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score =  359 bits (922), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 171/186 (91%), Positives = 183/186 (98%)

Query: 1   MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
           MLALC+FLRDKYSLAAVTNDIFTKEDGEFL++NGALPEERIRAVETGGCPHAAIREDISI
Sbjct: 93  MLALCRFLRDKYSLAAVTNDIFTKEDGEFLVKNGALPEERIRAVETGGCPHAAIREDISI 152

Query: 61  NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 120
           NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVS GDKIPRKGGPGITQ
Sbjct: 153 NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSAGDKIPRKGGPGITQ 212

Query: 121 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS 180
           ADLLVINKTDLA+A+GADL+VMERDALRMRDGGPF+FAQVKHGLGVEEIVNH++ +WE +
Sbjct: 213 ADLLVINKTDLAAAVGADLSVMERDALRMRDGGPFVFAQVKHGLGVEEIVNHVMHSWEHA 272

Query: 181 TGKKRR 186
           TGKKR+
Sbjct: 273 TGKKRQ 278

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|222424894|dbj|BAH20398.1| AT2G34470 [Arabidopsis thaliana]

 Score =  359 bits (921), Expect = 3e-97,   Method: Compositional matrix adjust.
 Identities = 170/186 (91%), Positives = 183/186 (98%)

Query: 1   MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
           MLALC+FLRDKYSLAAVTNDIFTKEDGEFL++NGALPEERIRAVETGGCPHAAIREDISI
Sbjct: 6   MLALCRFLRDKYSLAAVTNDIFTKEDGEFLVKNGALPEERIRAVETGGCPHAAIREDISI 65

Query: 61  NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 120
           NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVS GDKIPRKGGPGITQ
Sbjct: 66  NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSAGDKIPRKGGPGITQ 125

Query: 121 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS 180
           ADLLVINKTDLA+A+GADL+VMERD+LRMRDGGPF+FAQVKHGLGVEEIVNH++ +WE +
Sbjct: 126 ADLLVINKTDLAAAVGADLSVMERDSLRMRDGGPFVFAQVKHGLGVEEIVNHVMHSWEHA 185

Query: 181 TGKKRR 186
           TGKKR+
Sbjct: 186 TGKKRQ 191

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|79324312|ref|NP_001031481.1| urease accessory protein [Arabidopsis thaliana] gi|330253885|gb|AEC08979.1| urease accessory protein [Arabidopsis thaliana]

 Score =  358 bits (920), Expect = 4e-97,   Method: Compositional matrix adjust.
 Identities = 170/186 (91%), Positives = 183/186 (98%)

Query: 1   MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
           MLALC+FLRDKYSLAAVTNDIFTKEDGEFL++NGALPEERIRAVETGGCPHAAIREDISI
Sbjct: 91  MLALCRFLRDKYSLAAVTNDIFTKEDGEFLVKNGALPEERIRAVETGGCPHAAIREDISI 150

Query: 61  NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 120
           NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVS GDKIPRKGGPGITQ
Sbjct: 151 NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSAGDKIPRKGGPGITQ 210

Query: 121 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS 180
           ADLLVINKTDLA+A+GADL+VMERD+LRMRDGGPF+FAQVKHGLGVEEIVNH++ +WE +
Sbjct: 211 ADLLVINKTDLAAAVGADLSVMERDSLRMRDGGPFVFAQVKHGLGVEEIVNHVMHSWEHA 270

Query: 181 TGKKRR 186
           TGKKR+
Sbjct: 271 TGKKRQ 276

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15226754|ref|NP_180994.1| urease accessory protein [Arabidopsis thaliana] gi|3128220|gb|AAC26700.1| putative urease accessory protein [Arabidopsis thaliana] gi|20197163|gb|AAM14950.1| putative urease accessory protein [Arabidopsis thaliana] gi|21553947|gb|AAM63028.1| putative urease accessory protein [Arabidopsis thaliana] gi|26453270|dbj|BAC43708.1| putative urease accessory protein [Arabidopsis thaliana] gi|28950833|gb|AAO63340.1| At2g34470 [Arabidopsis thaliana] gi|330253884|gb|AEC08978.1| urease accessory protein [Arabidopsis thaliana]

 Score =  358 bits (920), Expect = 4e-97,   Method: Compositional matrix adjust.
 Identities = 170/186 (91%), Positives = 183/186 (98%)

Query: 1   MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
           MLALC+FLRDKYSLAAVTNDIFTKEDGEFL++NGALPEERIRAVETGGCPHAAIREDISI
Sbjct: 90  MLALCRFLRDKYSLAAVTNDIFTKEDGEFLVKNGALPEERIRAVETGGCPHAAIREDISI 149

Query: 61  NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 120
           NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVS GDKIPRKGGPGITQ
Sbjct: 150 NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSAGDKIPRKGGPGITQ 209

Query: 121 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS 180
           ADLLVINKTDLA+A+GADL+VMERD+LRMRDGGPF+FAQVKHGLGVEEIVNH++ +WE +
Sbjct: 210 ADLLVINKTDLAAAVGADLSVMERDSLRMRDGGPFVFAQVKHGLGVEEIVNHVMHSWEHA 269

Query: 181 TGKKRR 186
           TGKKR+
Sbjct: 270 TGKKRQ 275

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224069802|ref|XP_002303043.1| predicted protein [Populus trichocarpa] gi|222844769|gb|EEE82316.1| predicted protein [Populus trichocarpa]

 Score =  358 bits (919), Expect = 5e-97,   Method: Compositional matrix adjust.
 Identities = 172/186 (92%), Positives = 180/186 (96%)

Query: 1   MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
           ML+LCK LRDKYSLAAVTNDIFTKEDGEFL+++GALPEERIRAVETGGCPHAAIREDISI
Sbjct: 95  MLSLCKLLRDKYSLAAVTNDIFTKEDGEFLIKHGALPEERIRAVETGGCPHAAIREDISI 154

Query: 61  NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 120
           NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ
Sbjct: 155 NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 214

Query: 121 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS 180
           ADLLVINKTDLA A+GADL VMERDALRMRDGGPF+FAQVKHGLG+EEIVNHILQ WE +
Sbjct: 215 ADLLVINKTDLAPAVGADLVVMERDALRMRDGGPFVFAQVKHGLGIEEIVNHILQGWEVA 274

Query: 181 TGKKRR 186
           TGKKR 
Sbjct: 275 TGKKRH 280

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255557339|ref|XP_002519700.1| Urease accessory protein ureG, putative [Ricinus communis] gi|223541117|gb|EEF42673.1| Urease accessory protein ureG, putative [Ricinus communis]

 Score =  358 bits (919), Expect = 6e-97,   Method: Compositional matrix adjust.
 Identities = 170/186 (91%), Positives = 181/186 (97%)

Query: 1   MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
           MLA+CKFLRDKYSLAAVTNDIFTKEDGEFL++NGALPEERIRAVETGGCPHAAIREDISI
Sbjct: 90  MLAICKFLRDKYSLAAVTNDIFTKEDGEFLIKNGALPEERIRAVETGGCPHAAIREDISI 149

Query: 61  NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 120
           NLGPLEELS LFK D+LLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ
Sbjct: 150 NLGPLEELSKLFKTDILLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 209

Query: 121 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS 180
           ADLLVINKTDLASA+GADL VMERDA+RMRDGGPF+FAQVKHG+GVEEIVNH+LQAWE +
Sbjct: 210 ADLLVINKTDLASAVGADLTVMERDAVRMRDGGPFVFAQVKHGVGVEEIVNHVLQAWEVA 269

Query: 181 TGKKRR 186
           TGKK+ 
Sbjct: 270 TGKKQH 275

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449500609|ref|XP_004161145.1| PREDICTED: uncharacterized urease accessory protein ureG-like [Cucumis sativus]

 Score =  357 bits (915), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 170/186 (91%), Positives = 182/186 (97%)

Query: 1   MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
           MLALC FLRDKYSLAAVTNDIFTKEDGEFL+++GALPEERIRAVETGGCPHAAIREDISI
Sbjct: 102 MLALCTFLRDKYSLAAVTNDIFTKEDGEFLVKHGALPEERIRAVETGGCPHAAIREDISI 161

Query: 61  NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 120
           NLGPLEELSNL+K D+LLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ
Sbjct: 162 NLGPLEELSNLYKTDILLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 221

Query: 121 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS 180
           ADLLVINKTDLA+A+GADLAVMERDAL+MRDGGPF+FAQVKHG+GV EIVNHI+QAWEA+
Sbjct: 222 ADLLVINKTDLATAVGADLAVMERDALKMRDGGPFVFAQVKHGVGVGEIVNHIIQAWEAA 281

Query: 181 TGKKRR 186
           TGKKR 
Sbjct: 282 TGKKRH 287

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449459358|ref|XP_004147413.1| PREDICTED: uncharacterized urease accessory protein ureG-like [Cucumis sativus]

 Score =  357 bits (915), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 170/186 (91%), Positives = 182/186 (97%)

Query: 1   MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
           MLALC FLRDKYSLAAVTNDIFTKEDGEFL+++GALPEERIRAVETGGCPHAAIREDISI
Sbjct: 92  MLALCTFLRDKYSLAAVTNDIFTKEDGEFLVKHGALPEERIRAVETGGCPHAAIREDISI 151

Query: 61  NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 120
           NLGPLEELSNL+K D+LLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ
Sbjct: 152 NLGPLEELSNLYKTDILLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 211

Query: 121 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS 180
           ADLLVINKTDLA+A+GADLAVMERDAL+MRDGGPF+FAQVKHG+GV EIVNHI+QAWEA+
Sbjct: 212 ADLLVINKTDLATAVGADLAVMERDALKMRDGGPFVFAQVKHGVGVGEIVNHIIQAWEAA 271

Query: 181 TGKKRR 186
           TGKKR 
Sbjct: 272 TGKKRH 277

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|4324678|gb|AAD16984.1| urease accessory protein UREG [Arabidopsis thaliana]

 Score =  356 bits (914), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 169/186 (90%), Positives = 182/186 (97%)

Query: 1   MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
           MLALC+FLRDKYSLAAVTNDIFTKEDGEFL++NGA PEERIRAVETGGCPHAAIREDISI
Sbjct: 90  MLALCRFLRDKYSLAAVTNDIFTKEDGEFLVKNGAPPEERIRAVETGGCPHAAIREDISI 149

Query: 61  NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 120
           NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVS GDKIPRKGGPGITQ
Sbjct: 150 NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSAGDKIPRKGGPGITQ 209

Query: 121 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS 180
           ADLLVINKTDLA+A+GADL+VMERD+LRMRDGGPF+FAQVKHGLGVEEIVNH++ +WE +
Sbjct: 210 ADLLVINKTDLAAAVGADLSVMERDSLRMRDGGPFVFAQVKHGLGVEEIVNHVMHSWEHA 269

Query: 181 TGKKRR 186
           TGKKR+
Sbjct: 270 TGKKRQ 275

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	186
TAIR|locus:2040894	276	UREG "AT2G34470" [Arabidopsis	1.0	0.673	0.913	6.5e-90
UNIPROTKB|G4NCH0	277	MGG_01086 "Uncharacterized pro	0.967	0.649	0.756	1.3e-68
ASPGD|ASPL0000062920	266	ureD [Emericella nidulans (tax	0.967	0.676	0.711	4.5e-66
POMBASE|SPCPB16A4.05c	286	SPCPB16A4.05c "urease accessor	0.989	0.643	0.673	7.6e-64
UNIPROTKB|Q48DC7	205	ureG "Urease accessory protein	0.924	0.839	0.606	1.5e-51
UNIPROTKB|P18319	205	ureG "Urease accessory protein	0.903	0.819	0.603	9.8e-48
TIGR_CMR|SPO_1717	215	SPO_1717 "urease accessory pro	0.903	0.781	0.579	9.8e-48
UNIPROTKB|P0A664	224	ureG "Urease accessory protein	0.903	0.75	0.562	1.1e-46

TAIR|locus:2040894 UREG "AT2G34470" [Arabidopsis thaliana (taxid:3702)]

 Score = 897 (320.8 bits), Expect = 6.5e-90, P = 6.5e-90
 Identities = 170/186 (91%), Positives = 183/186 (98%)

Query:     1 MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
             MLALC+FLRDKYSLAAVTNDIFTKEDGEFL++NGALPEERIRAVETGGCPHAAIREDISI
Sbjct:    91 MLALCRFLRDKYSLAAVTNDIFTKEDGEFLVKNGALPEERIRAVETGGCPHAAIREDISI 150

Query:    61 NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 120
             NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVS GDKIPRKGGPGITQ
Sbjct:   151 NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSAGDKIPRKGGPGITQ 210

Query:   121 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS 180
             ADLLVINKTDLA+A+GADL+VMERD+LRMRDGGPF+FAQVKHGLGVEEIVNH++ +WE +
Sbjct:   211 ADLLVINKTDLAAAVGADLSVMERDSLRMRDGGPFVFAQVKHGLGVEEIVNHVMHSWEHA 270

Query:   181 TGKKRR 186
             TGKKR+
Sbjct:   271 TGKKRQ 276

GO:0000166 "nucleotide binding" evidence=ISS

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM;IEA

GO:0016151 "nickel cation binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=ISS

GO:0006807 "nitrogen compound metabolic process" evidence=IMP

GO:0048554 "positive regulation of metalloenzyme activity" evidence=IMP

GO:0016020 "membrane" evidence=IDA

UNIPROTKB|G4NCH0 MGG_01086 "Uncharacterized protein" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 696 (250.1 bits), Expect = 1.3e-68, P = 1.3e-68
 Identities = 137/181 (75%), Positives = 153/181 (84%)

Query:     1 MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
             MLALC  LRD +SLAAVTNDIFT+ED EFL RN ALP  RIRA+ETGGCPHAA+REDIS 
Sbjct:    74 MLALCLALRDTHSLAAVTNDIFTREDAEFLTRNKALPPSRIRAIETGGCPHAAVREDISA 133

Query:    61 NLGPLEELSNLFKA-DLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGIT 119
             NL  LE+L   F   DLLL ESGGDNLAAN+SRELAD+IIY+IDVSGGDKIPRKGGPGIT
Sbjct:   134 NLACLEDLHRTFNGVDLLLIESGGDNLAANYSRELADFIIYVIDVSGGDKIPRKGGPGIT 193

Query:   120 QADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA 179
             Q+DLLV+NKTDLA  +GADL VMERDA +MR+GGP +FAQVK  +GVE IVN IL AW+A
Sbjct:   194 QSDLLVVNKTDLAEIVGADLGVMERDARKMREGGPTVFAQVKKSVGVEHIVNLILSAWKA 253

Query:   180 S 180
             S
Sbjct:   254 S 254

GO:0005575 "cellular_component" evidence=ND

ASPGD|ASPL0000062920 ureD [Emericella nidulans (taxid:162425)]

 Score = 672 (241.6 bits), Expect = 4.5e-66, P = 4.5e-66
 Identities = 128/180 (71%), Positives = 153/180 (85%)

Query:     1 MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
             MLALC+ LRD+Y++AAVTNDIFT+ED EFL RN AL  +RIRA+ETGGCPHAA+REDIS 
Sbjct:    64 MLALCRALRDEYNIAAVTNDIFTREDAEFLTRNKALSPDRIRAIETGGCPHAAVREDISA 123

Query:    61 NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 120
             NL  L+ L   F+ DLLL ESGGDNLAAN+SRELAD+IIY+IDV+GGDK+PRKGGPGIT 
Sbjct:   124 NLLALQNLHRQFQTDLLLIESGGDNLAANYSRELADFIIYVIDVAGGDKVPRKGGPGITG 183

Query:   121 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS 180
             +DLLV+NK DLA A+GAD++VMERDA +MR+GGP +FA VK   GV+ IVN IL AW+AS
Sbjct:   184 SDLLVVNKIDLAEAVGADISVMERDAAKMREGGPTVFAVVKKDQGVDHIVNLILSAWKAS 243

GO:0043419 "urea catabolic process" evidence=IMP

GO:0009039 "urease activity" evidence=IMP

GO:0005634 "nucleus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0016151 "nickel cation binding" evidence=IEA

POMBASE|SPCPB16A4.05c SPCPB16A4.05c "urease accessory protein UREG (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 651 (234.2 bits), Expect = 7.6e-64, P = 7.6e-64
 Identities = 124/184 (67%), Positives = 155/184 (84%)

Query:     1 MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
             +L LC+ L +KYS+  VTNDIFT+ED EFL+RN ALPEERIRA+ETGGCPHAAIRED+S 
Sbjct:   103 LLQLCRLLGEKYSIGVVTNDIFTREDQEFLIRNKALPEERIRAIETGGCPHAAIREDVSG 162

Query:    61 NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 120
             NL  LEEL + F  +LLL ESGGDNLAAN+SR+LAD+IIY+IDVSGGDKIPRKGGPGIT+
Sbjct:   163 NLVALEELQSEFNTELLLVESGGDNLAANYSRDLADFIIYVIDVSGGDKIPRKGGPGITE 222

Query:   121 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS 180
             +DLL+INKTDLA  +GADL+VM+RDA ++R+ GP +FAQVK+ +G++EI   IL A +++
Sbjct:   223 SDLLIINKTDLAKLVGADLSVMDRDAKKIRENGPIVFAQVKNQVGMDEITELILGAAKSA 282

Query:   181 TGKK 184
                K
Sbjct:   283 GALK 286

GO:0003924 "GTPase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0016151 "nickel cation binding" evidence=IEA

GO:0016530 "metallochaperone activity" evidence=IEA

GO:0019627 "urea metabolic process" evidence=ISM

GO:0042803 "protein homodimerization activity" evidence=IEA

UNIPROTKB|Q48DC7 ureG "Urease accessory protein UreG" [Pseudomonas syringae pv. phaseolicola 1448A (taxid:264730)]

 Score = 535 (193.4 bits), Expect = 1.5e-51, P = 1.5e-51
 Identities = 105/173 (60%), Positives = 132/173 (76%)

Query:     2 LALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISIN 61
             LALC  LRD+Y+LA VTNDI+T+ED +FL+RN AL  ERI  VETGGCPH AIRED SIN
Sbjct:    23 LALCLALRDRYNLAVVTNDIYTREDADFLVRNEALAPERIIGVETGGCPHTAIREDASIN 82

Query:    62 LGPLEELSNLFKA-DLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 120
             L  +++L+  F+  DL++ ESGGDNL+A FS EL+D  IY+IDVS GDK+PRKGGPGI +
Sbjct:    83 LEAVDQLNRRFEGLDLIIVESGGDNLSATFSPELSDLTIYVIDVSAGDKLPRKGGPGICK 142

Query:   121 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHI 173
             +DLLVINK DLA  +GA L +M+ D  RMR   PF+F+  K G G+E+I+  I
Sbjct:   143 SDLLVINKIDLAPLVGASLEMMDSDTRRMRGEKPFVFSNQKTGQGLEQIIAFI 195

GO:0016530 "metallochaperone activity" evidence=ISS

UNIPROTKB|P18319 ureG "Urease accessory protein UreG" [Enterobacter aerogenes (taxid:548)]

 Score = 499 (180.7 bits), Expect = 9.8e-48, P = 9.8e-48
 Identities = 102/169 (60%), Positives = 119/169 (70%)

Query:     3 ALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINL 62
             ALCK +RD + LA VTNDI+TKED   L   GAL  ERI  VETGGCPH AIRED S+NL
Sbjct:    26 ALCKAMRDTWQLAVVTNDIYTKEDQRILTEAGALAPERIVGVETGGCPHTAIREDASMNL 85

Query:    63 GPLEELSNLF-KADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQA 121
               +E LS  F   DL+  ESGGDNL+A FS ELAD  IY+IDV+ G+KIPRKGGPGIT++
Sbjct:    86 AAVEALSEKFGNLDLIFVESGGDNLSATFSPELADLTIYVIDVAEGEKIPRKGGPGITKS 145

Query:   122 DLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIV 170
             D LVINKTDLA  +GA L VM  D  RMR   P+ F  +K G G+  I+
Sbjct:   146 DFLVINKTDLAPYVGASLEVMASDTQRMRGDRPWTFTNLKQGDGLSTII 194

GO:0005515 "protein binding" evidence=IPI

TIGR_CMR|SPO_1717 SPO_1717 "urease accessory protein UreG" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 499 (180.7 bits), Expect = 9.8e-48, P = 9.8e-48
 Identities = 98/169 (57%), Positives = 127/169 (75%)

Query:     3 ALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINL 62
             AL + LRD +S+  +TNDI+T+ED E LMR   LP++RI  VETGGCPH AIRED SINL
Sbjct:    26 ALSEALRDSHSIGVITNDIYTREDAEALMRLQILPQDRIIGVETGGCPHTAIREDASINL 85

Query:    63 GPLEELSNLFKA-DLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQA 121
               + E+       +++L ESGGDNL+A FS ELAD  +Y+IDV+ G++IPRKGGP IT++
Sbjct:    86 AAVAEMERRHPGIEIILIESGGDNLSATFSPELADVTLYVIDVAAGEEIPRKGGPAITKS 145

Query:   122 DLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIV 170
             D+L+INKTDLA  +GA L VMERDA RMR G PF+F+ +++  GV EIV
Sbjct:   146 DILIINKTDLAPHVGASLEVMERDAGRMRCGRPFVFSSLRNRDGVAEIV 194

GO:0019627 "urea metabolic process" evidence=ISS

GO:0046872 "metal ion binding" evidence=ISS

UNIPROTKB|P0A664 ureG "Urease accessory protein UreG" [Mycobacterium tuberculosis (taxid:1773)]

 Score = 489 (177.2 bits), Expect = 1.1e-46, P = 1.1e-46
 Identities = 95/169 (56%), Positives = 123/169 (72%)

Query:     3 ALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINL 62
             ALC+ LR + SLA +TNDI+T ED +FL  +  LP++RI AV+TGGCPH AIR+DI+ NL
Sbjct:    44 ALCRQLRGELSLAVLTNDIYTTEDADFLRTHAVLPDDRIAAVQTGGCPHTAIRDDITANL 103

Query:    63 GPLEELSNLFKA-DLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQA 121
               ++EL     A DL+L ESGGDNL A FS  L D  I++IDV+GGDK+PRKGGPG+T +
Sbjct:   104 DAIDELMAAHDALDLILVESGGDNLTATFSSGLVDAQIFVIDVAGGDKVPRKGGPGVTYS 163

Query:   122 DLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIV 170
             DLLV+NKTDLA+ +GADLAVM RDA  +RDG P +   +       ++V
Sbjct:   164 DLLVVNKTDLAALVGADLAVMARDADAVRDGRPTVLQSLTEDPAASDVV 212


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.320   0.140   0.404    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      186       186   0.00083  110 3  11 22  0.44    32
                                                     31  0.41    35


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  8
  No. of states in DFA:  582 (62 KB)
  Total size of DFA:  143 KB (2088 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  16.92u 0.09s 17.01t   Elapsed:  00:00:00
  Total cpu time:  16.92u 0.09s 17.01t   Elapsed:  00:00:00
  Start:  Thu May  9 23:34:52 2013   End:  Thu May  9 23:34:52 2013

GO:0003924 "GTPase activity" evidence=IDA

GO:0006184 "GTP catabolic process" evidence=IDA

GO:0042803 "protein homodimerization activity" evidence=IPI

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q02FC5	UREG_PSEAB	No assigned EC number	0.6242	0.9247	0.8431	yes	no
B1ZHN6	UREG1_METPB	No assigned EC number	0.5988	0.9462	0.8627	yes	no
B8EPU6	UREG_METSB	No assigned EC number	0.6198	0.9139	0.8252	yes	no
Q6FD79	UREG_ACIAD	No assigned EC number	0.5953	0.9247	0.8431	yes	no
Q0I662	UREG_SYNS3	No assigned EC number	0.6149	0.9301	0.865	yes	no
B0V9P2	UREG_ACIBY	No assigned EC number	0.6069	0.9247	0.8431	yes	no
Q0AC95	UREG_ALHEH	No assigned EC number	0.5977	0.9301	0.8199	yes	no
A3M3F5	UREG_ACIBT	No assigned EC number	0.6069	0.9247	0.8431	yes	no
P72955	UREG_SYNY3	No assigned EC number	0.5872	0.9193	0.8300	N/A	no
Q1LPS6	UREG_RALME	No assigned EC number	0.6023	0.9139	0.8212	yes	no
Q8DMQ4	UREG_THEEB	No assigned EC number	0.6213	0.9032	0.84	yes	no
A6SZ10	UREG_JANMA	No assigned EC number	0.6081	0.9139	0.8056	yes	no
Q2SDP8	UREG_HAHCH	No assigned EC number	0.5872	0.9193	0.8382	yes	no
A9W6X0	UREG1_METEP	No assigned EC number	0.5988	0.9462	0.8627	yes	no
Q7U3I9	UREG_SYNPX	No assigned EC number	0.6091	0.9301	0.8606	yes	no
Q7V3V8	UREG_PROMM	No assigned EC number	0.6149	0.9301	0.8564	yes	no
A2CDZ5	UREG_PROM3	No assigned EC number	0.6206	0.9301	0.8522	yes	no
C3K4L3	UREG_PSEFS	No assigned EC number	0.6265	0.8870	0.8088	yes	no
A4VQW0	UREG_PSEU5	No assigned EC number	0.6300	0.9247	0.8431	yes	no
Q3AGD6	UREG_SYNSC	No assigned EC number	0.6149	0.9301	0.8606	yes	no
Q11VN1	UREG_CYTH3	No assigned EC number	0.6574	0.9677	0.7377	yes	no
B8IJ81	UREG_METNO	No assigned EC number	0.6327	0.9462	0.8627	yes	no
B2HVS4	UREG_ACIBC	No assigned EC number	0.6069	0.9247	0.8431	yes	no
Q3AVR7	UREG_SYNS9	No assigned EC number	0.6091	0.9301	0.8606	yes	no
Q9HUS0	UREG_PSEAE	No assigned EC number	0.6242	0.9247	0.8431	yes	no
Q473Q6	UREG_CUPPJ	No assigned EC number	0.6242	0.9247	0.8229	yes	no
B0VSB5	UREG_ACIBS	No assigned EC number	0.6069	0.9247	0.8431	yes	no
A1KBB1	UREG_AZOSB	No assigned EC number	0.6184	0.9247	0.8309	yes	no
B0UBI3	UREG_METS4	No assigned EC number	0.6214	0.9462	0.8627	yes	no
A7HHN3	UREG_ANADF	No assigned EC number	0.7032	0.9784	0.7711	yes	no
B2JF70	UREG_BURP8	No assigned EC number	0.6081	0.9139	0.7981	yes	no
A6UC29	UREG_SINMW	No assigned EC number	0.6279	0.9193	0.8423	yes	no
Q3J773	UREG_NITOC	No assigned EC number	0.5953	0.9247	0.8472	yes	no
A4XQ16	UREG_PSEMY	No assigned EC number	0.6127	0.9247	0.8431	yes	no
B1M3X4	UREG1_METRJ	No assigned EC number	0.6045	0.9462	0.8585	yes	no
B7I8T8	UREG_ACIB5	No assigned EC number	0.6069	0.9247	0.8431	yes	no
B7GXU0	UREG_ACIB3	No assigned EC number	0.6069	0.9247	0.8431	yes	no
A0L6F5	UREG_MAGSM	No assigned EC number	0.6011	0.9247	0.8514	yes	no
Q0KCP3	UREG_CUPNH	No assigned EC number	0.6140	0.9139	0.8133	yes	no
Q1H0F5	UREG_METFK	No assigned EC number	0.6300	0.9247	0.8472	yes	no
Q9FAS2	UREG_VIBPH	No assigned EC number	0.5930	0.9193	0.8066	yes	no
C1DMZ7	UREG_AZOVD	No assigned EC number	0.6358	0.9247	0.8431	yes	no
A6VD02	UREG_PSEA7	No assigned EC number	0.6127	0.9247	0.8431	yes	no
B7V1V6	UREG_PSEA8	No assigned EC number	0.6242	0.9247	0.8431	yes	no
Q92MY5	UREG_RHIME	No assigned EC number	0.6257	0.9139	0.8374	yes	no
C3MGH8	UREG_RHISN	No assigned EC number	0.6140	0.9139	0.8374	yes	no
A5W4B2	UREG_PSEP1	No assigned EC number	0.5804	0.9301	0.8357	yes	no
C5CY05	UREG_VARPS	No assigned EC number	0.6023	0.9139	0.7870	yes	no

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	186
TIGR00101	199	TIGR00101, ureG, urease accessory protein UreG	5e-78
COG0378	202	COG0378, HypB, Ni2+-binding GTPase involved in reg	2e-62
pfam02492	178	pfam02492, cobW, CobW/HypB/UreG, nucleotide-bindin	9e-33
TIGR00073	208	TIGR00073, hypB, hydrogenase accessory protein Hyp	1e-12

>gnl|CDD|129208 TIGR00101, ureG, urease accessory protein UreG

 Score =  231 bits (590), Expect = 5e-78
 Identities = 103/172 (59%), Positives = 129/172 (75%), Gaps = 1/172 (0%)

Query: 3   ALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINL 62
           AL + LR KY LA +TNDI+T+ED EFL++N ALP ERI  VETGGCPH AIRED S+NL
Sbjct: 20  ALTRALRQKYQLAVITNDIYTQEDAEFLVKNSALPPERILGVETGGCPHTAIREDASMNL 79

Query: 63  GPLEELSNLF-KADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQA 121
             + E+   F   +++  ESGGDNL+A FS ELAD  I++IDV+ GDKIPRKGGPGIT++
Sbjct: 80  EAVAEMEARFPPLEMVFIESGGDNLSATFSPELADLTIFVIDVAAGDKIPRKGGPGITRS 139

Query: 122 DLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHI 173
           DLLVINK DLA  +GADL VMERDA +MR   PFIF  +K   G++ +++ I
Sbjct: 140 DLLVINKIDLAPMVGADLGVMERDAKKMRGEKPFIFTNLKTKEGLDTVIDWI 191

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 [Central intermediary metabolism, Nitrogen metabolism]. Length = 199

>gnl|CDD|223455 COG0378, HypB, Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

 Score =  191 bits (487), Expect = 2e-62
 Identities = 84/177 (47%), Positives = 106/177 (59%), Gaps = 12/177 (6%)

Query: 2   LALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETG-GCPHAAIREDISI 60
               + L+D+Y +A +T DI+TKED + L +    P E I  VETG GC H     D S+
Sbjct: 31  EKTLRALKDEYKIAVITGDIYTKEDADRLRKL---PGEPIIGVETGKGC-H----LDASM 82

Query: 61  NLGPLEELSNLF-KADLLLCESGGDNLAANFSRELAD-YIIYIIDVSGGDKIPRKGGPGI 118
           NL  +EEL   F   DLL  ES G NL   FS +L D   + +IDV+ G+ IPRKGGPGI
Sbjct: 83  NLEAIEELVLDFPDLDLLFIESVG-NLVCPFSPDLGDHLRVVVIDVTEGEDIPRKGGPGI 141

Query: 119 TQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQ 175
            +ADLLVINKTDLA  +GADL VM RDA  +    P IF  +K G G++E +  I  
Sbjct: 142 FKADLLVINKTDLAPYVGADLEVMARDAKEVNPEAPIIFTNLKTGEGLDEWLRFIEP 198

Length = 202

>gnl|CDD|217066 pfam02492, cobW, CobW/HypB/UreG, nucleotide-binding domain

 Score =  115 bits (289), Expect = 9e-33
 Identities = 56/170 (32%), Positives = 76/170 (44%), Gaps = 21/170 (12%)

Query: 1   MLALCKFLRDKYSLAAVTNDIF-TKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDIS 59
           +  L +  R+   +A + ND   T  D E L   GAL    I  +  G       RED+S
Sbjct: 17  LEHLLEKNREGLKIAVIVNDFGETGIDAELLRETGAL----IVELNNGCICCTL-REDLS 71

Query: 60  INLGPLEELSNLFKADLLLCESGG----------DNLAANFSRELADYIIYIIDVSG--G 107
           + L  L EL    + DLL  E+ G                 S    D ++ ++DV+   G
Sbjct: 72  MVLEALLELKE--RLDLLFIETTGLACPAPVAQTFLSPELRSDLGLDGVVTVVDVAETEG 129

Query: 108 DKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIF 157
           + IP K    I  ADL+VINKTDLA A+ ADL  +E D  R+    P I 
Sbjct: 130 EDIPEKAPDQIAFADLIVINKTDLAPAV-ADLEKLEADLRRLNPEAPIIP 178

This domain is found in HypB, a hydrogenase expression / formation protein, and UreG a urease accessory protein. Both these proteins contain a P-loop nucleotide binding motif. HypB has GTPase activity and is a guanine nucleotide binding protein. It is not known whether UreG binds GTP or some other nucleotide. Both enzymes are involved in nickel binding. HypB can store nickel and is required for nickel dependent hydrogenase expression. UreG is required for functional incorporation of the urease nickel metallocenter. GTP hydrolysis may required by these proteins for nickel incorporation into other nickel proteins. This family of domains also contains P47K, a Pseudomonas chlororaphis protein needed for nitrile hydratase expression, and the cobW gene product, which may be involved in cobalamin biosynthesis in Pseudomonas denitrificans. Length = 178

>gnl|CDD|232811 TIGR00073, hypB, hydrogenase accessory protein HypB

 Score = 63.6 bits (155), Expect = 1e-12
 Identities = 54/172 (31%), Positives = 82/172 (47%), Gaps = 13/172 (7%)

Query: 7   FLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLE 66
            L+D+  +A +  D+ TK D E L + GA        + TG   H     D  +    LE
Sbjct: 45  NLKDEVKIAVIEGDVITKFDAERLRKYGAPAI----QINTGKECHL----DAHMVAHALE 96

Query: 67  ELSNLFKADLLLCESGGDNLAANFSREL-ADYIIYIIDVSGGDKIPRKGGPGITQ-ADLL 124
           +L      DLL  E+ G NL      +L     + ++ V+ GD  P K  PG+ + ADL+
Sbjct: 97  DLPLD-DIDLLFIENVG-NLVCPADFDLGEHMRVVLLSVTEGDDKPLKY-PGMFKEADLI 153

Query: 125 VINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA 176
           VINK DLA A+G D+  M+ DA ++      I   +K G G++E +  +   
Sbjct: 154 VINKADLAEAVGFDVEKMKADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQ 205

A GTP hydrolase for assembly of nickel metallocenter of hydrogenase. A similar protein, ureG, is an accessory protein for urease, which also uses nickel. hits scoring 75 and above are safe as orthologs. [SS 1/05/04 I changed the role_ID and process GO from protein folding to to protein modification, since a protein folding role has not been established, but HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.] [Protein fate, Protein modification and repair]. Length = 208

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	186
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	100.0
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	99.97
COG0523	323	Putative GTPases (G3E family) [General function pr	99.97
TIGR00101	199	ureG urease accessory protein UreG. This model rep	99.96
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	99.95
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	99.94
PRK11537	318	putative GTP-binding protein YjiA; Provisional	99.93
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	99.93
KOG2743	391	consensus Cobalamin synthesis protein [Coenzyme tr	99.92
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	99.87
PRK09435	332	membrane ATPase/protein kinase; Provisional	99.87
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	99.84
cd03112	158	CobW_like The function of this protein family is u	99.8
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	99.58
COG1160	444	Predicted GTPases [General function prediction onl	99.45
COG1159	298	Era GTPase [General function prediction only]	99.21
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.12
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.07
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.04
PRK00093	435	GTP-binding protein Der; Reviewed	99.03
PRK15494	339	era GTPase Era; Provisional	99.03
PRK00089	292	era GTPase Era; Reviewed	99.02
PRK13768	253	GTPase; Provisional	99.01
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.0
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.0
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	98.99
cd00881	189	GTP_translation_factor GTP translation factor fami	98.98
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	98.93
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	98.92
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	98.92
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	98.91
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.9
PRK03003	472	GTP-binding protein Der; Reviewed	98.89
cd03114	148	ArgK-like The function of this protein family is u	98.89
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	98.89
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	98.88
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	98.87
PTZ00099	176	rab6; Provisional	98.87
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	98.84
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	98.84
KOG0462	650	consensus Elongation factor-type GTP-binding prote	98.83
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	98.83
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	98.83
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	98.82
PRK12299	335	obgE GTPase CgtA; Reviewed	98.81
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	98.79
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	98.78
COG0486	454	ThdF Predicted GTPase [General function prediction	98.78
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	98.77
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.77
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	98.77
PRK12298	390	obgE GTPase CgtA; Reviewed	98.77
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	98.76
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.76
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	98.76
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.76
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	98.75
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	98.75
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.75
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	98.74
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	98.73
PRK09866	741	hypothetical protein; Provisional	98.73
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	98.72
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	98.72
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	98.71
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	98.69
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	98.68
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	98.67
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	98.67
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	98.65
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	98.64
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	98.64
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	98.64
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	98.63
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	98.63
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	98.63
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	98.63
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	98.63
cd01881	176	Obg_like The Obg-like subfamily consists of five w	98.62
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	98.62
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	98.62
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	98.62
PLN00223	181	ADP-ribosylation factor; Provisional	98.62
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	98.61
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.61
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	98.61
smart00178	184	SAR Sar1p-like members of the Ras-family of small	98.61
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	98.6
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	98.6
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	98.59
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	98.59
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	98.59
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	98.59
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	98.59
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	98.59
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	98.59
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	98.59
PTZ00133	182	ADP-ribosylation factor; Provisional	98.58
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	98.58
PRK12296	500	obgE GTPase CgtA; Reviewed	98.58
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	98.58
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	98.57
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	98.57
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	98.57
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	98.57
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	98.57
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	98.56
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	98.56
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	98.56
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	98.56
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	98.56
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	98.56
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	98.56
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	98.55
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	98.55
PLN03118	211	Rab family protein; Provisional	98.54
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	98.54
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	98.54
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	98.54
PRK04213	201	GTP-binding protein; Provisional	98.54
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	98.54
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	98.53
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.53
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	98.53
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	98.52
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	98.51
COG1160	444	Predicted GTPases [General function prediction onl	98.51
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	98.51
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	98.5
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	98.5
PRK12297	424	obgE GTPase CgtA; Reviewed	98.5
PTZ00369	189	Ras-like protein; Provisional	98.5
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	98.5
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	98.49
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	98.49
CHL00189	742	infB translation initiation factor 2; Provisional	98.49
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	98.49
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	98.48
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	98.48
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	98.48
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	98.47
COG2262	411	HflX GTPases [General function prediction only]	98.47
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	98.46
PRK05433	600	GTP-binding protein LepA; Provisional	98.46
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	98.46
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	98.45
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	98.45
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	98.44
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	98.44
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	98.44
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	98.44
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	98.44
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	98.43
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	98.43
PRK04000	411	translation initiation factor IF-2 subunit gamma;	98.43
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	98.43
PRK12289	352	GTPase RsgA; Reviewed	98.42
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	98.42
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	98.41
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	98.41
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.41
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.4
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	98.4
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	98.4
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	98.39
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	98.39
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	98.39
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	98.38
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	98.38
PRK05306	787	infB translation initiation factor IF-2; Validated	98.38
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	98.37
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	98.37
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	98.36
PRK14845	1049	translation initiation factor IF-2; Provisional	98.36
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	98.36
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	98.36
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	98.36
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	98.36
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	98.36
PRK11058	426	GTPase HflX; Provisional	98.35
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	98.35
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	98.35
PLN03110	216	Rab GTPase; Provisional	98.34
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	98.34
PRK03003	472	GTP-binding protein Der; Reviewed	98.33
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	98.31
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	98.3
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	98.29
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	98.28
PRK12736	394	elongation factor Tu; Reviewed	98.27
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	98.27
PRK01889	356	GTPase RsgA; Reviewed	98.26
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	98.26
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	98.26
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	98.25
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	98.25
PRK12317	425	elongation factor 1-alpha; Reviewed	98.25
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	98.24
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.23
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	98.22
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	98.21
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.21
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.2
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	98.2
PRK00098	298	GTPase RsgA; Reviewed	98.19
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	98.19
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	98.19
PRK00049	396	elongation factor Tu; Reviewed	98.18
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	98.18
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	98.18
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	98.17
PRK10218	607	GTP-binding protein; Provisional	98.17
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.17
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	98.16
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	98.16
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	98.15
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	98.15
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	98.13
PRK00093	435	GTP-binding protein Der; Reviewed	98.13
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	98.09
CHL00071	409	tufA elongation factor Tu	98.09
PLN03127	447	Elongation factor Tu; Provisional	98.09
COG0536	369	Obg Predicted GTPase [General function prediction	98.09
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	98.08
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.07
PRK12735	396	elongation factor Tu; Reviewed	98.06
PLN03108	210	Rab family protein; Provisional	98.06
COG3276	447	SelB Selenocysteine-specific translation elongatio	98.05
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	98.05
KOG1145	683	consensus Mitochondrial translation initiation fac	98.04
PTZ00141	446	elongation factor 1- alpha; Provisional	98.03
PRK04004	586	translation initiation factor IF-2; Validated	98.02
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	98.01
PRK12288	347	GTPase RsgA; Reviewed	97.97
TIGR00485	394	EF-Tu translation elongation factor TU. This align	97.96
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	97.93
PRK13796	365	GTPase YqeH; Provisional	97.9
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	97.88
PLN00043	447	elongation factor 1-alpha; Provisional	97.87
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	97.87
PRK14974	336	cell division protein FtsY; Provisional	97.84
PRK12740	668	elongation factor G; Reviewed	97.84
COG1217	603	TypA Predicted membrane GTPase involved in stress	97.81
KOG0394	210	consensus Ras-related GTPase [General function pre	97.8
COG0218	200	Predicted GTPase [General function prediction only	97.79
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	97.77
COG2403	449	Predicted GTPase [General function prediction only	97.77
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	97.75
PRK12739	691	elongation factor G; Reviewed	97.74
KOG0461	522	consensus Selenocysteine-specific elongation facto	97.74
PRK00007	693	elongation factor G; Reviewed	97.72
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	97.72
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	97.71
PLN03126	478	Elongation factor Tu; Provisional	97.68
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	97.68
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	97.67
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	97.65
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	97.62
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	97.62
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.61
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	97.61
PRK10416	318	signal recognition particle-docking protein FtsY;	97.57
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	97.56
PRK00741	526	prfC peptide chain release factor 3; Provisional	97.54
cd01896	233	DRG The developmentally regulated GTP-binding prot	97.54
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	97.53
PRK13351	687	elongation factor G; Reviewed	97.52
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	97.5
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	97.49
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	97.46
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	97.43
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	97.37
COG1162	301	Predicted GTPases [General function prediction onl	97.34
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	97.34
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	97.29
TIGR00503	527	prfC peptide chain release factor 3. This translat	97.28
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	97.27
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	97.25
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	97.24
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	97.21
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	97.19
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	97.01
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	96.92
COG5258	527	GTPBP1 GTPase [General function prediction only]	96.92
COG2229	187	Predicted GTPase [General function prediction only	96.91
KOG0395	196	consensus Ras-related GTPase [General function pre	96.89
COG1084	346	Predicted GTPase [General function prediction only	96.88
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	96.83
COG1163	365	DRG Predicted GTPase [General function prediction	96.82
COG1161	322	Predicted GTPases [General function prediction onl	96.75
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	96.75
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	96.69
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	96.6
COG0050	394	TufB GTPases - translation elongation factors [Tra	96.59
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	96.58
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	96.57
KOG2484	435	consensus GTPase [General function prediction only	96.56
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.54
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	96.52
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	96.47
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	96.34
PRK09602	396	translation-associated GTPase; Reviewed	96.29
KOG0460	449	consensus Mitochondrial translation elongation fac	96.2
PRK07560	731	elongation factor EF-2; Reviewed	96.18
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	96.17
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	96.16
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	96.09
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	96.02
KOG0466	466	consensus Translation initiation factor 2, gamma s	96.0
KOG4252	246	consensus GTP-binding protein [Signal transduction	95.77
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	95.67
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	95.57
KOG3883	198	consensus Ras family small GTPase [Signal transduc	95.47
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	95.36
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	95.22
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	95.19
KOG2423	572	consensus Nucleolar GTPase [General function predi	95.04
COG1100	219	GTPase SAR1 and related small G proteins [General	94.9
PRK10867	433	signal recognition particle protein; Provisional	94.85
PLN00116	843	translation elongation factor EF-2 subunit; Provis	94.78
cd03115	173	SRP The signal recognition particle (SRP) mediates	94.6
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	94.5
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	94.49
PTZ00416	836	elongation factor 2; Provisional	94.47
cd04105	203	SR_beta Signal recognition particle receptor, beta	94.29
PRK00771	437	signal recognition particle protein Srp54; Provisi	94.22
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	93.91
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	93.79
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	93.76
KOG0465	721	consensus Mitochondrial elongation factor [Transla	93.36
PRK14489	366	putative bifunctional molybdopterin-guanine dinucl	93.32
PRK14494	229	putative molybdopterin-guanine dinucleotide biosyn	93.2
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	93.18
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	92.93
TIGR00959	428	ffh signal recognition particle protein. This mode	92.87
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	92.84
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	92.71
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	92.49
KOG0780	483	consensus Signal recognition particle, subunit Srp	92.49
KOG1143	591	consensus Predicted translation elongation factor	92.39
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	92.28
cd03110	179	Fer4_NifH_child This protein family's function is	92.22
KOG0090	238	consensus Signal recognition particle receptor, be	92.19
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	92.18
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	91.94
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	91.84
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	91.75
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	91.52
PF08438	109	MMR_HSR1_C: GTPase of unknown function C-terminal;	91.1
KOG0410	410	consensus Predicted GTP binding protein [General f	90.45
KOG0467	887	consensus Translation elongation factor 2/ribosome	89.89
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	89.3
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	89.21
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	88.8
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	88.75
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	88.13
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	88.09
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	87.97
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	87.83
KOG2485	335	consensus Conserved ATP/GTP binding protein [Gener	86.95
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	86.9
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	86.81
TIGR03172	232	probable selenium-dependent hydroxylase accessory	86.46
PRK14491	597	putative bifunctional molybdopterin-guanine dinucl	85.49
PLN00023	334	GTP-binding protein; Provisional	84.95
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	83.89
KOG1487	358	consensus GTP-binding protein DRG1 (ODN superfamil	83.21
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	82.56
KOG2486	320	consensus Predicted GTPase [General function predi	81.86
KOG0463	641	consensus GTP-binding protein GP-1 [General functi	81.85
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	81.6

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=100.00  E-value=8.1e-33  Score=211.57  Aligned_cols=165  Identities=47%  Similarity=0.705  Sum_probs=147.4

Q ss_pred             CHHHHHHHhcCCcEEEEEcccCCchhHHHHHh-cCCCCcCceEeccCCC-cccCCcccccccCcchhHhhhhhc-CCcEE
Q 029893            1 MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMR-NGALPEERIRAVETGG-CPHAAIREDISINLGPLEELSNLF-KADLL   77 (186)
Q Consensus         1 ~~~~~~~l~~~~~vaVi~nd~g~~iD~~~i~~-~~~~~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l~~l~~~~-~~D~i   77 (186)
                      |+++++.|++++++|||.||+-+.-|++++.+ .|.    +++.+.+|- | |+    |.++.+.++.+|..+. ..|++
T Consensus        30 ie~~~~~L~~~~~~aVI~~Di~t~~Da~~l~~~~g~----~i~~v~TG~~C-H~----da~m~~~ai~~l~~~~~~~Dll  100 (202)
T COG0378          30 IEKTLRALKDEYKIAVITGDIYTKEDADRLRKLPGE----PIIGVETGKGC-HL----DASMNLEAIEELVLDFPDLDLL  100 (202)
T ss_pred             HHHHHHHHHhhCCeEEEeceeechhhHHHHHhCCCC----eeEEeccCCcc-CC----cHHHHHHHHHHHhhcCCcCCEE
Confidence            46889999988999999999999999999998 554    799999995 7 97    7777779999887554 37999


Q ss_pred             EEecCCCeeEEeeeeecCc-eEEEEEeCCCCCCCccC-CCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCE
Q 029893           78 LCESGGDNLAANFSRELAD-YIIYIIDVSGGDKIPRK-GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPF  155 (186)
Q Consensus        78 iIEtsG~~l~~~~~~~~ad-~~v~VvDa~~~~~~~~~-~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i  155 (186)
                      |||+.| |+++|+++++.| +.|+|+|+++|++.+.+ +|..+. ||++|+||+||++.....++.+.+..++.||.+|+
T Consensus       101 ~iEs~G-NL~~~~sp~L~d~~~v~VidvteGe~~P~K~gP~i~~-aDllVInK~DLa~~v~~dlevm~~da~~~np~~~i  178 (202)
T COG0378         101 FIESVG-NLVCPFSPDLGDHLRVVVIDVTEGEDIPRKGGPGIFK-ADLLVINKTDLAPYVGADLEVMARDAKEVNPEAPI  178 (202)
T ss_pred             EEecCc-ceecccCcchhhceEEEEEECCCCCCCcccCCCceeE-eeEEEEehHHhHHHhCccHHHHHHHHHHhCCCCCE
Confidence            999999 999999999887 88999999999999998 665555 99999999999998667789999999999999999


Q ss_pred             EEEeccCCCCHHHHHHHHHHH
Q 029893          156 IFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       156 ~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      +++|++||+|+++|++|+...
T Consensus       179 i~~n~ktg~G~~~~~~~i~~~  199 (202)
T COG0378         179 IFTNLKTGEGLDEWLRFIEPQ  199 (202)
T ss_pred             EEEeCCCCcCHHHHHHHHHhh
Confidence            999999999999999999865

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=99.97  E-value=1.9e-30  Score=211.78  Aligned_cols=165  Identities=22%  Similarity=0.229  Sum_probs=136.9

Q ss_pred             HHHHHHHhcCCcEEEEEcccCCchhHHHHHhcCCCCcCceEeccCCCcccCCcccccccCcchhHhhhhhcCCcEEEEec
Q 029893            2 LALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCES   81 (186)
Q Consensus         2 ~~~~~~l~~~~~vaVi~nd~g~~iD~~~i~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~~~l~~l~~~~~~D~iiIEt   81 (186)
                      .++++.+....++|||.||+++..|+++|+..|.    +++++++||+||+ .+   .+..+++..|. ..+.|++|||+
T Consensus       122 ~~l~~~l~~~~~~~VI~gD~~t~~Da~rI~~~g~----pvvqi~tG~~Chl-~a---~mv~~Al~~L~-~~~~d~liIEn  192 (290)
T PRK10463        122 TETLMRLKDSVPCAVIEGDQQTVNDAARIRATGT----PAIQVNTGKGCHL-DA---QMIADAAPRLP-LDDNGILFIEN  192 (290)
T ss_pred             HHHHHHhccCCCEEEECCCcCcHHHHHHHHhcCC----cEEEecCCCCCcC-cH---HHHHHHHHHHh-hcCCcEEEEEC
Confidence            5667777766899999999995559999998876    6899999995554 12   33336777764 56889999999


Q ss_pred             CCCeeEEeeeeec-CceEEEEEeCCCCCCCccCCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEec
Q 029893           82 GGDNLAANFSREL-ADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQV  160 (186)
Q Consensus        82 sG~~l~~~~~~~~-ad~~v~VvDa~~~~~~~~~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa  160 (186)
                      +| ++++|..+++ .+..++++++.++++++.+|+.+++.||++|+||+||++....+++.+.+.+++++|.++|+++||
T Consensus       193 vG-nLvcPa~fdlge~~~v~vlsV~eg~dkplKyp~~f~~ADIVVLNKiDLl~~~~~dle~~~~~lr~lnp~a~I~~vSA  271 (290)
T PRK10463        193 VG-NLVCPASFDLGEKHKVAVLSVTEGEDKPLKYPHMFAAASLMLLNKVDLLPYLNFDVEKCIACAREVNPEIEIILISA  271 (290)
T ss_pred             CC-CccCCCccchhhceeEEEEECccccccchhccchhhcCcEEEEEhHHcCcccHHHHHHHHHHHHhhCCCCcEEEEEC
Confidence            99 6778876655 356679999999988888999999999999999999997422567888889999999999999999


Q ss_pred             cCCCCHHHHHHHHHHH
Q 029893          161 KHGLGVEEIVNHILQA  176 (186)
Q Consensus       161 ~~g~gi~~l~~~i~~~  176 (186)
                      ++|+|+++|++|+.+.
T Consensus       272 ~tGeGld~L~~~L~~~  287 (290)
T PRK10463        272 TSGEGMDQWLNWLETQ  287 (290)
T ss_pred             CCCCCHHHHHHHHHHh
Confidence            9999999999999874

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=99.97  E-value=7.4e-32  Score=223.97  Aligned_cols=155  Identities=25%  Similarity=0.324  Sum_probs=119.2

Q ss_pred             HHHHHHHhcCCcEEEEEcccC-CchhH-HHHHhcCCCCcCceEeccCCC-cccCCcccccccCcchhHhhhh-hcCCcEE
Q 029893            2 LALCKFLRDKYSLAAVTNDIF-TKEDG-EFLMRNGALPEERIRAVETGG-CPHAAIREDISINLGPLEELSN-LFKADLL   77 (186)
Q Consensus         2 ~~~~~~l~~~~~vaVi~nd~g-~~iD~-~~i~~~~~~~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l~~l~~-~~~~D~i   77 (186)
                      +|++++.. ++|+|||+|||| ++||+ .++.+.+.    ++.||+||| ||++  |+|+..   ++..|.+ +..||+|
T Consensus        19 ~~lL~~~~-g~kiAVIVNEfGEvgID~~~~l~~~~e----~~~El~nGCICCT~--r~dl~~---~~~~L~~~~~~~D~i   88 (323)
T COG0523          19 NHLLANRD-GKKIAVIVNEFGEVGIDGGALLSDTGE----EVVELTNGCICCTV--RDDLLP---ALERLLRRRDRPDRL   88 (323)
T ss_pred             HHHHhccC-CCcEEEEEecCccccccCCCccccCCc----cEEEeCCceEEEec--cchhHH---HHHHHHhccCCCCEE
Confidence            45555444 699999999999 99995 77776544    799999999 9994  877764   4444444 4579999


Q ss_pred             EEecCCCeeEEe------eee--ec-----CceEEEEEeCCCCCCCc----cCCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           78 LCESGGDNLAAN------FSR--EL-----ADYIIYIIDVSGGDKIP----RKGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        78 iIEtsG~~l~~~------~~~--~~-----ad~~v~VvDa~~~~~~~----~~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      +|||||  ++.|      +..  ..     -|.+|+|||+.+.....    ..+..|++.||+||+||+|++++  ++++
T Consensus        89 vIEtTG--lA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia~AD~ivlNK~Dlv~~--~~l~  164 (323)
T COG0523          89 VIETTG--LADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAEDQLAFADVIVLNKTDLVDA--EELE  164 (323)
T ss_pred             EEeCCC--CCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHHHHHHhCcEEEEecccCCCH--HHHH
Confidence            999999  4433      211  11     26689999998865422    33557899999999999999998  6788


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVN  171 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~  171 (186)
                      .+++.++++||.|+|+.+|. .+.+..+++.
T Consensus       165 ~l~~~l~~lnp~A~i~~~~~-~~~~~~~ll~  194 (323)
T COG0523         165 ALEARLRKLNPRARIIETSY-GDVDLAELLD  194 (323)
T ss_pred             HHHHHHHHhCCCCeEEEccc-cCCCHHHhhc
Confidence            99999999999999999997 5666665554

>TIGR00101 ureG urease accessory protein UreG

Probab=99.96  E-value=1.9e-29  Score=197.36  Aligned_cols=174  Identities=55%  Similarity=0.847  Sum_probs=140.7

Q ss_pred             HHHHHHHhcCCcEEEEEcccCCchhHHHHHhcCCCCcCceEec-cCCC-cccCCcccccccCcchhHhhhhh-cCCcEEE
Q 029893            2 LALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAV-ETGG-CPHAAIREDISINLGPLEELSNL-FKADLLL   78 (186)
Q Consensus         2 ~~~~~~l~~~~~vaVi~nd~g~~iD~~~i~~~~~~~~~~~~~l-~~Gc-cc~l~~r~d~~~~~~~l~~l~~~-~~~D~ii   78 (186)
                      .++++.+....+++++.||++...|+.++.+.+..+.++++++ .+|| ||.  +|+|+...+.+|.++..+ .++|++|
T Consensus        19 ~~l~~~l~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~--~~~~~~~~~~~L~~l~~~~~~~D~ii   96 (199)
T TIGR00101        19 EALTRALRQKYQLAVITNDIYTQEDAEFLVKNSALPPERILGVETGGCPHTA--IREDASMNLEAVAEMEARFPPLEMVF   96 (199)
T ss_pred             HHHHHhhCcCCcEEEEeCCcCChhHHHHHHHcCCCCcCceehhhcCCCccce--eccCHHHHHHHHHHHHhcCCCCCEEE
Confidence            3455666655789999999998789998887776565667765 5677 554  588887666777777533 4799999


Q ss_pred             EecCCCeeEEeeeeecCceEEEEEeCCCCCCCccCCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEE
Q 029893           79 CESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFA  158 (186)
Q Consensus        79 IEtsG~~l~~~~~~~~ad~~v~VvDa~~~~~~~~~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~  158 (186)
                      |||+|+++.+++.+..+|.+|+|+|+.+++..+..+..|+..||++++||+|+.+...++++.+.+.++.+||.++++++
T Consensus        97 IEt~G~~l~~~~~~~l~~~~i~vvD~~~~~~~~~~~~~qi~~ad~~~~~k~d~~~~~~~~~~~~~~~~~~~~~~~~i~~~  176 (199)
T TIGR00101        97 IESGGDNLSATFSPELADLTIFVIDVAAGDKIPRKGGPGITRSDLLVINKIDLAPMVGADLGVMERDAKKMRGEKPFIFT  176 (199)
T ss_pred             EECCCCCcccccchhhhCcEEEEEEcchhhhhhhhhHhHhhhccEEEEEhhhccccccccHHHHHHHHHHhCCCCCEEEE
Confidence            99999777666666668999999999998876655567899999999999999863225788888899999999999999


Q ss_pred             eccCCCCHHHHHHHHHHHH
Q 029893          159 QVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       159 Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ||++|+|+++|++++.+++
T Consensus       177 Sa~~g~gi~el~~~i~~~~  195 (199)
T TIGR00101       177 NLKTKEGLDTVIDWIEHYA  195 (199)
T ss_pred             ECCCCCCHHHHHHHHHhhc
Confidence            9999999999999998764

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.

>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt

Probab=99.95  E-value=9.2e-29  Score=190.34  Aligned_cols=142  Identities=26%  Similarity=0.382  Sum_probs=104.3

Q ss_pred             HHHHHHHhcCCcEEEEEcccC-CchhHHHHHhcCCCCcCceEeccCCC-cccCCcccccccCcchhHhhhhhc--CCcEE
Q 029893            2 LALCKFLRDKYSLAAVTNDIF-TKEDGEFLMRNGALPEERIRAVETGG-CPHAAIREDISINLGPLEELSNLF--KADLL   77 (186)
Q Consensus         2 ~~~~~~l~~~~~vaVi~nd~g-~~iD~~~i~~~~~~~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l~~l~~~~--~~D~i   77 (186)
                      .++++...+++|+|||+|||| +++|+.++++.|.    .+++|++|| ||++  ++|+.   .++.++...+  +||+|
T Consensus        18 ~~ll~~~~~~~~~~vI~ne~g~~~iD~~~l~~~~~----~v~~l~~gcicc~~--~~~~~---~~l~~l~~~~~~~~d~I   88 (178)
T PF02492_consen   18 NHLLKRNRQGERVAVIVNEFGEVNIDAELLQEDGV----PVVELNNGCICCTL--RDDLV---EALRRLLREYEERPDRI   88 (178)
T ss_dssp             HHHHHHHTTTS-EEEEECSTTSTHHHHHHHHTTT-----EEEEECTTTESS-T--TS-HH---HHHHHHCCCCHGC-SEE
T ss_pred             HHHHHHhcCCceeEEEEccccccccchhhhcccce----EEEEecCCCccccc--HHHHH---HHHHHHHHhcCCCcCEE
Confidence            456664445699999999999 9999999998766    699999999 9985  55554   6777777666  89999


Q ss_pred             EEecCCCeeEEeeee---------e-cCceEEEEEeCCCCCC---CccCCCCCCCceeEEEEecCCCCCcccc-cHHHHH
Q 029893           78 LCESGGDNLAANFSR---------E-LADYIIYIIDVSGGDK---IPRKGGPGITQADLLVINKTDLASAIGA-DLAVME  143 (186)
Q Consensus        78 iIEtsG~~l~~~~~~---------~-~ad~~v~VvDa~~~~~---~~~~~~~~~~~adiivlNK~Dl~~~~~~-~~~~~~  143 (186)
                      |||++|  ++.|...         . .-+.+|+|+|+.+...   ....+..|++.||++|+||+|++++  + .+++++
T Consensus        89 iIE~sG--~a~p~~l~~~~~~~~~~~~~~~iI~vVDa~~~~~~~~~~~~~~~Qi~~ADvIvlnK~D~~~~--~~~i~~~~  164 (178)
T PF02492_consen   89 IIETSG--LADPAPLILQDPPLKEDFRLDSIITVVDATNFDELENIPELLREQIAFADVIVLNKIDLVSD--EQKIERVR  164 (178)
T ss_dssp             EEEEEC--SSGGGGHHHHSHHHHHHESESEEEEEEEGTTHGGHTTHCHHHHHHHCT-SEEEEE-GGGHHH--H--HHHHH
T ss_pred             EECCcc--ccccchhhhccccccccccccceeEEeccccccccccchhhhhhcchhcCEEEEeccccCCh--hhHHHHHH
Confidence            999999  4433322         0 1266899999976532   2233456899999999999999988  5 458999


Q ss_pred             HHHHhhCCCCCEE
Q 029893          144 RDALRMRDGGPFI  156 (186)
Q Consensus       144 ~~l~~~~p~a~i~  156 (186)
                      +.++++||.++|+
T Consensus       165 ~~ir~lnp~a~Iv  177 (178)
T PF02492_consen  165 EMIRELNPKAPIV  177 (178)
T ss_dssp             HHHHHH-TTSEEE
T ss_pred             HHHHHHCCCCEEe
Confidence            9999999999987

Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=99.94  E-value=2.5e-26  Score=180.60  Aligned_cols=165  Identities=32%  Similarity=0.429  Sum_probs=125.8

Q ss_pred             HHHHHHHhcCCcEEEEEcccCCchhHHHHHhcCCCCcCceEeccCCC-cccCCcccccccCcchhHhhhhhcCCcEEEEe
Q 029893            2 LALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGG-CPHAAIREDISINLGPLEELSNLFKADLLLCE   80 (186)
Q Consensus         2 ~~~~~~l~~~~~vaVi~nd~g~~iD~~~i~~~~~~~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l~~l~~~~~~D~iiIE   80 (186)
                      .++++++..+.++||+.||++.++|..++++.|.    +++++++|| ||..  ..++   .+++..+. ..++|+||||
T Consensus        40 ~~l~~~~~~~~~v~v~~~~~~~~~D~~~~~~~~~----~~~~l~~gcic~~~--~~~~---~~~l~~~~-~~~~d~IiIE  109 (207)
T TIGR00073        40 EKLIDNLKDEVKIAVIEGDVITKFDAERLRKYGA----PAIQINTGKECHLD--AHMV---AHALEDLP-LDDIDLLFIE  109 (207)
T ss_pred             HHHHHHHhcCCeEEEEECCCCCcccHHHHHHcCC----cEEEEcCCCcccCC--hHHH---HHHHHHhc-cCCCCEEEEe
Confidence            5666766555899999999998899999988765    689999999 7632  2222   14454443 3478999999


Q ss_pred             cCCCeeEEeeeee-cCceEEEEEeCCCCCCCccCCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEe
Q 029893           81 SGGDNLAANFSRE-LADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQ  159 (186)
Q Consensus        81 tsG~~l~~~~~~~-~ad~~v~VvDa~~~~~~~~~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~S  159 (186)
                      |+| .+..+.++. ..+..++|+|+.+++.....++.++..|+++++||+|+.+.......++.+.+++.+|.+|++++|
T Consensus       110 t~G-~l~~~~~~~~~~~~~i~Vvd~~~~d~~~~~~~~~~~~a~iiv~NK~Dl~~~~~~~~~~~~~~l~~~~~~~~i~~~S  188 (207)
T TIGR00073       110 NVG-NLVCPADFDLGEHMRVVLLSVTEGDDKPLKYPGMFKEADLIVINKADLAEAVGFDVEKMKADAKKINPEAEIILMS  188 (207)
T ss_pred             cCC-CcCCCcccccccCeEEEEEecCcccchhhhhHhHHhhCCEEEEEHHHccccchhhHHHHHHHHHHhCCCCCEEEEE
Confidence            999 333343332 246678899999887666666667788999999999998642234566777788888999999999


Q ss_pred             ccCCCCHHHHHHHHHHHH
Q 029893          160 VKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       160 a~~g~gi~~l~~~i~~~~  177 (186)
                      |++|.|++++++++.++.
T Consensus       189 a~~g~gv~~l~~~i~~~~  206 (207)
T TIGR00073       189 LKTGEGLDEWLEFLEGQV  206 (207)
T ss_pred             CCCCCCHHHHHHHHHHhh
Confidence            999999999999998764

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=99.93  E-value=8e-27  Score=194.19  Aligned_cols=142  Identities=20%  Similarity=0.315  Sum_probs=105.9

Q ss_pred             HHHHHHHhcCCcEEEEEcccC-CchhHHHHHhcCCCCcCceEeccCCC-cccCCcccccccCcchhHhhhhh-----cCC
Q 029893            2 LALCKFLRDKYSLAAVTNDIF-TKEDGEFLMRNGALPEERIRAVETGG-CPHAAIREDISINLGPLEELSNL-----FKA   74 (186)
Q Consensus         2 ~~~~~~l~~~~~vaVi~nd~g-~~iD~~~i~~~~~~~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l~~l~~~-----~~~   74 (186)
                      ++++++ ..++|+|||+|||| +++|+.++.+.+.    ++.+|+||| ||++  ++|+.   +++.++.+.     .+|
T Consensus        22 ~~ll~~-~~~~riaVi~NEfG~v~iD~~ll~~~~~----~v~eL~~GCiCCs~--~~~l~---~~l~~l~~~~~~~~~~~   91 (318)
T PRK11537         22 RHILNE-QHGYKIAVIENEFGEVSVDDQLIGDRAT----QIKTLTNGCICCSR--SNELE---DALLDLLDNLDKGNIQF   91 (318)
T ss_pred             HHHHhc-ccCCcccccccCcCCccccHHHHhCcCc----eEEEECCCEEEEcc--CchHH---HHHHHHHHHHhccCCCC
Confidence            344433 23589999999999 9999999976433    689999999 9985  66665   566665432     269


Q ss_pred             cEEEEecCCCeeEEe------ee--eec-----CceEEEEEeCCCCCCCccC---CCCCCCceeEEEEecCCCCCccccc
Q 029893           75 DLLLCESGGDNLAAN------FS--REL-----ADYIIYIIDVSGGDKIPRK---GGPGITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        75 D~iiIEtsG~~l~~~------~~--~~~-----ad~~v~VvDa~~~~~~~~~---~~~~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      |+|+|||||+  +.|      +.  ...     -+.+|+|+|+.++......   ...|++.||+||+||+|++++  . 
T Consensus        92 d~IvIEttG~--a~p~~i~~~~~~~~~l~~~~~l~~vvtvvDa~~~~~~~~~~~~~~~Qi~~AD~IvlnK~Dl~~~--~-  166 (318)
T PRK11537         92 DRLVIECTGM--ADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVGYADRILLTKTDVAGE--A-  166 (318)
T ss_pred             CEEEEECCCc--cCHHHHHHHHhcChhhcccEEeccEEEEEEhhhhhhhccccHHHHHHHHhCCEEEEeccccCCH--H-
Confidence            9999999994  322      10  111     2568999999886543322   235789999999999999976  3 


Q ss_pred             HHHHHHHHHhhCCCCCEEEEe
Q 029893          139 LAVMERDALRMRDGGPFIFAQ  159 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~S  159 (186)
                       +++.+.++++||.|+++.++
T Consensus       167 -~~~~~~l~~lnp~a~i~~~~  186 (318)
T PRK11537        167 -EKLRERLARINARAPVYTVV  186 (318)
T ss_pred             -HHHHHHHHHhCCCCEEEEec
Confidence             67888999999999999876

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=99.93  E-value=1.5e-25  Score=188.19  Aligned_cols=153  Identities=23%  Similarity=0.275  Sum_probs=111.5

Q ss_pred             CCcEEEEEcccC-CchhHHHHHhcCCC--CcCceEeccCCC-cccCCcccccccCcchhHhhhh-hcCCcEEEEecCCCe
Q 029893           11 KYSLAAVTNDIF-TKEDGEFLMRNGAL--PEERIRAVETGG-CPHAAIREDISINLGPLEELSN-LFKADLLLCESGGDN   85 (186)
Q Consensus        11 ~~~vaVi~nd~g-~~iD~~~i~~~~~~--~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l~~l~~-~~~~D~iiIEtsG~~   85 (186)
                      ++|+|||+|||| ++||+.++...+..  ..+++++|+||| ||++  ++|+.   .++.+|.. ..+||+|+|||||++
T Consensus        30 ~~~iavi~Ne~G~~~ID~~ll~~~~~~~~~~~~v~el~nGCiCCs~--~~dl~---~~l~~l~~~~~~~d~IvIEtsG~a  104 (341)
T TIGR02475        30 GRRIAVIVNEFGDLGIDGEILKACGIEGCSEENIVELANGCICCTV--ADDFI---PTMTKLLARRQRPDHILIETSGLA  104 (341)
T ss_pred             CCcEEEEECCCccccchHHHHhccccccCCcceEEEeCCCCccccC--cHHHH---HHHHHHHhccCCCCEEEEeCCCCC
Confidence            589999999999 99999999865421  123699999999 9985  66664   67777764 458999999999942


Q ss_pred             ----eEEeee-eec-----CceEEEEEeCCCCCCCc-------------------------cCCCCCCCceeEEEEecCC
Q 029893           86 ----LAANFS-REL-----ADYIIYIIDVSGGDKIP-------------------------RKGGPGITQADLLVINKTD  130 (186)
Q Consensus        86 ----l~~~~~-~~~-----ad~~v~VvDa~~~~~~~-------------------------~~~~~~~~~adiivlNK~D  130 (186)
                          ++..+. +..     -|.+|+|+|+.+.....                         ..+..|++.||+||+||+|
T Consensus       105 ~P~~i~~~~~~~~l~~~~~l~~vvtvVDa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Qi~~AD~IvlnK~D  184 (341)
T TIGR02475       105 LPKPLVQAFQWPEIRSRVTVDGVVTVVDGPAVAAGRFAADPDALDAQRAADDNLDHETPLEELFEDQLACADLVILNKAD  184 (341)
T ss_pred             CHHHHHHHhcCccccceEEeeeEEEEEECchhhhhccccchhhhhhhccccccccccchHHHHHHHHHHhCCEEEEeccc
Confidence                111121 111     26689999997642100                         0113578999999999999


Q ss_pred             CCCcccccHHHHHHHHHhhCCC-CCEEEEeccCCCCHHHHHH
Q 029893          131 LASAIGADLAVMERDALRMRDG-GPFIFAQVKHGLGVEEIVN  171 (186)
Q Consensus       131 l~~~~~~~~~~~~~~l~~~~p~-a~i~~~Sa~~g~gi~~l~~  171 (186)
                      ++++  ++++.+++.++++||. ++++.++ ........|+.
T Consensus       185 l~~~--~~l~~~~~~l~~~~~~~a~i~~~~-~~~v~~~~ll~  223 (341)
T TIGR02475       185 LLDA--AGLARVRAEIAAELPRAVKIVEAS-HGEVDARVLLG  223 (341)
T ss_pred             cCCH--HHHHHHHHHHHHhCCCCCEEEEcc-cCCCCHHHHhC
Confidence            9998  7899999999997774 5888776 33456666655

A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).

>KOG2743 consensus Cobalamin synthesis protein [Coenzyme transport and metabolism]

Probab=99.92  E-value=1.1e-26  Score=187.47  Aligned_cols=159  Identities=19%  Similarity=0.230  Sum_probs=116.7

Q ss_pred             HHHHHhc---CCcEEEEEcccC--CchhHHHHHhcCC-CCcCceEeccCCC-cccCCcccccccCcchhHhhhhhc-CCc
Q 029893            4 LCKFLRD---KYSLAAVTNDIF--TKEDGEFLMRNGA-LPEERIRAVETGG-CPHAAIREDISINLGPLEELSNLF-KAD   75 (186)
Q Consensus         4 ~~~~l~~---~~~vaVi~nd~g--~~iD~~~i~~~~~-~~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l~~l~~~~-~~D   75 (186)
                      |++++..   ++|+|||.||||  +.++..++...+. -.-+++++|+||| ||++  |+++.   .+|.++.+++ +||
T Consensus        73 LLn~Il~~~hgKRIAVIlNEfGes~die~sl~~~~~gg~lyEewv~L~NGClCCtV--k~~gv---raie~lvqkkGkfD  147 (391)
T KOG2743|consen   73 LLNYILTGQHGKRIAVILNEFGESSDIEKSLAVSQEGGELYEEWVELRNGCLCCTV--KDNGV---RAIENLVQKKGKFD  147 (391)
T ss_pred             HHHHHHccCCCceEEEEhhhcccchhhhHHHHhccccchHHHHHHHhcCCeEEEEe--cchHH---HHHHHHHhcCCCcc
Confidence            4455442   499999999999  5889998876522 1135799999999 9985  65553   7888887754 899


Q ss_pred             EEEEecCCCe----eEEeeeeec-------CceEEEEEeCCCCCC-----CccCC----CCCCCceeEEEEecCCCCCcc
Q 029893           76 LLLCESGGDN----LAANFSREL-------ADYIIYIIDVSGGDK-----IPRKG----GPGITQADLLVINKTDLASAI  135 (186)
Q Consensus        76 ~iiIEtsG~~----l~~~~~~~~-------ad~~v~VvDa~~~~~-----~~~~~----~~~~~~adiivlNK~Dl~~~~  135 (186)
                      +|++||||++    ++.+|+.+.       -|.+|+|+|+.+...     .+..+    ..|+..||-|++||+||+++ 
T Consensus       148 ~IllETTGlAnPaPia~~Fw~dd~l~sdVkLDGIVTvvD~K~~~~~Lde~k~~g~i~EA~~QiA~AD~II~NKtDli~~-  226 (391)
T KOG2743|consen  148 HILLETTGLANPAPIASMFWLDDELGSDVKLDGIVTVVDAKHILKHLDEEKPDGLINEATRQIALADRIIMNKTDLVSE-  226 (391)
T ss_pred             eEEEeccCCCCcHHHHHHHhhhhhhcCceeeeeEEEEEehhhHHhhhcccCcccchHHHHHHHhhhheeeeccccccCH-
Confidence            9999999942    223344332       277899999987532     22222    24789999999999999999 


Q ss_pred             cccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHH
Q 029893          136 GADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIV  170 (186)
Q Consensus       136 ~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~  170 (186)
                       +++..++++++++|.-|++++|- .....+++++
T Consensus       227 -e~~~~l~q~I~~INslA~m~~Tk-y~~vdlsnvL  259 (391)
T KOG2743|consen  227 -EEVKKLRQRIRSINSLAQMIETK-YSRVDLSNVL  259 (391)
T ss_pred             -HHHHHHHHHHHHhhhHHHhhhhh-hccccHHHhc
Confidence             89999999999999988888764 2233455554

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=99.87  E-value=1.6e-21  Score=158.07  Aligned_cols=175  Identities=19%  Similarity=0.173  Sum_probs=128.5

Q ss_pred             HHHHHHHhcC-CcEEEEEcccCCch-------hHHHHHhcCCCCcCceEeccCCC-cccCCcccccccCcchhHhhhhhc
Q 029893            2 LALCKFLRDK-YSLAAVTNDIFTKE-------DGEFLMRNGALPEERIRAVETGG-CPHAAIREDISINLGPLEELSNLF   72 (186)
Q Consensus         2 ~~~~~~l~~~-~~vaVi~nd~g~~i-------D~~~i~~~~~~~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l~~l~~~~   72 (186)
                      .+|+++|.++ +|||||..|++++.       |..+|++....|..+++++++.+ --.++     ....+++ .+.+..
T Consensus        69 ~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGDRiRM~~~~~~~~vFiRs~~srG~lGGlS-----~at~~~i-~~ldAa  142 (323)
T COG1703          69 EALGRELRERGHRVAVLAVDPSSPFTGGSILGDRIRMQRLAVDPGVFIRSSPSRGTLGGLS-----RATREAI-KLLDAA  142 (323)
T ss_pred             HHHHHHHHHCCcEEEEEEECCCCCCCCccccccHhhHHhhccCCCeEEeecCCCccchhhh-----HHHHHHH-HHHHhc
Confidence            5677888765 99999999999654       88888877656667899999988 33331     1222444 345678


Q ss_pred             CCcEEEEecCCCeeEEeeeeecCceEEEEEeCCCCCCCccCCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhh---
Q 029893           73 KADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRM---  149 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~~~~~~ad~~v~VvDa~~~~~~~~~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~---  149 (186)
                      +||+|||||+|+......-...+|.+++|.-+..|++.+......++.+|++|+||.|+-+.. .....+...++..   
T Consensus       143 G~DvIIVETVGvGQsev~I~~~aDt~~~v~~pg~GD~~Q~iK~GimEiaDi~vINKaD~~~A~-~a~r~l~~al~~~~~~  221 (323)
T COG1703         143 GYDVIIVETVGVGQSEVDIANMADTFLVVMIPGAGDDLQGIKAGIMEIADIIVINKADRKGAE-KAARELRSALDLLREV  221 (323)
T ss_pred             CCCEEEEEecCCCcchhHHhhhcceEEEEecCCCCcHHHHHHhhhhhhhheeeEeccChhhHH-HHHHHHHHHHHhhccc
Confidence            999999999994432222223578888888888889888878888999999999999965541 1112223223222   


Q ss_pred             ----CCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhcc
Q 029893          150 ----RDGGPFIFAQVKHGLGVEEIVNHILQAWEASTGK  183 (186)
Q Consensus       150 ----~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~~  183 (186)
                          .+..|++.|||.+|+|+++|++.+..++...+..
T Consensus       222 ~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~~~~~s  259 (323)
T COG1703         222 WRENGWRPPVVTTSALEGEGIDELWDAIEDHRKFLTES  259 (323)
T ss_pred             ccccCCCCceeEeeeccCCCHHHHHHHHHHHHHHHHhc
Confidence                1356999999999999999999999999987764

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=99.87  E-value=1.7e-21  Score=162.62  Aligned_cols=173  Identities=20%  Similarity=0.199  Sum_probs=120.0

Q ss_pred             HHHHHHHhc-CCcEEEEEcccCCch-------hHHHHHhcCCCCcCceEeccCCCcccCCcccccccCc-chhHhhhhhc
Q 029893            2 LALCKFLRD-KYSLAAVTNDIFTKE-------DGEFLMRNGALPEERIRAVETGGCPHAAIREDISINL-GPLEELSNLF   72 (186)
Q Consensus         2 ~~~~~~l~~-~~~vaVi~nd~g~~i-------D~~~i~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~-~~l~~l~~~~   72 (186)
                      .+++..++. +++++||.+|+++.+       |..++.+.+..|...+++  .++||++.   ++...+ +++. +....
T Consensus        74 ~~l~~~l~~~g~~v~vi~~Dp~s~~~~gallgd~~r~~~~~~~~~~~~r~--~~~~~~l~---~~a~~~~~~~~-~~~~~  147 (332)
T PRK09435         74 EALGMHLIEQGHKVAVLAVDPSSTRTGGSILGDKTRMERLSRHPNAFIRP--SPSSGTLG---GVARKTRETML-LCEAA  147 (332)
T ss_pred             HHHHHHHHHCCCeEEEEEeCCCccccchhhhchHhHHHhhcCCCCeEEEe--cCCccccc---chHHHHHHHHH-HHhcc
Confidence            356667776 489999999998553       777777654434323444  45578862   222323 4444 34467


Q ss_pred             CCcEEEEecCCCeeEEeeeeecCceEEEEEeCCCCCCCccCCCCCCCceeEEEEecCCCCCcccccHHHHHHHHH----h
Q 029893           73 KADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDAL----R  148 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~~~~~~ad~~v~VvDa~~~~~~~~~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~----~  148 (186)
                      ++|+|||||+|+..........+|++++|+++..+++.+.....+++.+|++|+||+|+.+.  ...+.....++    .
T Consensus       148 g~d~viieT~Gv~qs~~~i~~~aD~vlvv~~p~~gd~iq~~k~gi~E~aDIiVVNKaDl~~~--~~a~~~~~el~~~L~l  225 (332)
T PRK09435        148 GYDVILVETVGVGQSETAVAGMVDFFLLLQLPGAGDELQGIKKGIMELADLIVINKADGDNK--TAARRAAAEYRSALRL  225 (332)
T ss_pred             CCCEEEEECCCCccchhHHHHhCCEEEEEecCCchHHHHHHHhhhhhhhheEEeehhcccch--hHHHHHHHHHHHHHhc
Confidence            99999999999653333333468999999887777776554556788999999999999875  33333333333    2


Q ss_pred             hC-----CCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          149 MR-----DGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       149 ~~-----p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      ..     +..||+++||++|.|+++|++.+.++++....
T Consensus       226 ~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~~l~~  264 (332)
T PRK09435        226 LRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRAALTA  264 (332)
T ss_pred             ccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhcc
Confidence            22     12699999999999999999999999886553

>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=99.84  E-value=1.3e-21  Score=156.40  Aligned_cols=174  Identities=20%  Similarity=0.177  Sum_probs=113.6

Q ss_pred             HHHHHHHhcC-CcEEEEEcccCCch-------hHHHHHhcCCCCcCceEeccCCC-cccCCcccccccCcchhHhhhhhc
Q 029893            2 LALCKFLRDK-YSLAAVTNDIFTKE-------DGEFLMRNGALPEERIRAVETGG-CPHAAIREDISINLGPLEELSNLF   72 (186)
Q Consensus         2 ~~~~~~l~~~-~~vaVi~nd~g~~i-------D~~~i~~~~~~~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l~~l~~~~   72 (186)
                      .++++++++. +|||||..|+++++       |..+|+++...|..+++++++.+ .-.++     ..+.+++ .+.+..
T Consensus        47 ~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlLGDRiRM~~~~~d~~vfIRS~atRG~lGGls-----~~t~~~v-~ll~aa  120 (266)
T PF03308_consen   47 DALIRELRERGKRVAVLAVDPSSPFTGGALLGDRIRMQELSRDPGVFIRSMATRGSLGGLS-----RATRDAV-RLLDAA  120 (266)
T ss_dssp             HHHHHHHHHTT--EEEEEE-GGGGCC---SS--GGGCHHHHTSTTEEEEEE---SSHHHHH-----HHHHHHH-HHHHHT
T ss_pred             HHHHHHHhhcCCceEEEEECCCCCCCCCcccccHHHhcCcCCCCCEEEeecCcCCCCCCcc-----HhHHHHH-HHHHHc
Confidence            5677778764 99999999999655       77777765333556899999887 33321     1222444 455678


Q ss_pred             CCcEEEEecCCCeeEEeeeeecCceEEEEEeCCCCCCCccCCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhC--
Q 029893           73 KADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR--  150 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~~~~~~ad~~v~VvDa~~~~~~~~~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~--  150 (186)
                      +||+|||||+|+.....--...+|.+++|+-+..|++.+......++.||++|+||.|+.... ....++...+.-..  
T Consensus       121 G~D~IiiETVGvGQsE~~I~~~aD~~v~v~~Pg~GD~iQ~~KaGimEiaDi~vVNKaD~~gA~-~~~~~l~~~l~l~~~~  199 (266)
T PF03308_consen  121 GFDVIIIETVGVGQSEVDIADMADTVVLVLVPGLGDEIQAIKAGIMEIADIFVVNKADRPGAD-RTVRDLRSMLHLLRER  199 (266)
T ss_dssp             T-SEEEEEEESSSTHHHHHHTTSSEEEEEEESSTCCCCCTB-TTHHHH-SEEEEE--SHHHHH-HHHHHHHHHHHHCSTS
T ss_pred             CCCEEEEeCCCCCccHHHHHHhcCeEEEEecCCCccHHHHHhhhhhhhccEEEEeCCChHHHH-HHHHHHHHHHhhcccc
Confidence            999999999994322111124579999999999999998888888999999999999965441 12233343333221  


Q ss_pred             ---CCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          151 ---DGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       151 ---p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                         +..||+.+||.+|+|+++|++.|.++....+.
T Consensus       200 ~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~~~~l~~  234 (266)
T PF03308_consen  200 EDGWRPPVLKTSALEGEGIDELWEAIDEHRDYLKE  234 (266)
T ss_dssp             CTSB--EEEEEBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             ccCCCCCEEEEEeCCCCCHHHHHHHHHHHHHHHHH
Confidence               24699999999999999999999998876654

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.

>cd03112 CobW_like The function of this protein family is unkown

Probab=99.80  E-value=2.1e-20  Score=141.29  Aligned_cols=113  Identities=26%  Similarity=0.324  Sum_probs=81.6

Q ss_pred             CCcEEEEEcccC-CchhHHHHHhcCCCCcCceEeccCCC-cccCCcccccccCcchh-Hhhhh-hcCCcEEEEecCCCee
Q 029893           11 KYSLAAVTNDIF-TKEDGEFLMRNGALPEERIRAVETGG-CPHAAIREDISINLGPL-EELSN-LFKADLLLCESGGDNL   86 (186)
Q Consensus        11 ~~~vaVi~nd~g-~~iD~~~i~~~~~~~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l-~~l~~-~~~~D~iiIEtsG~~l   86 (186)
                      +.++++|+||+| .++|+..+.+.+.    .+++|++|| ||++  ++|+...+..+ .++.. ..+||+|||||+|+  
T Consensus        26 ~~~~~~i~~~~G~~~~d~~~~~~~~~----~v~~l~~GCiCC~~--~~~l~~~l~~l~~~~~~~~~~~d~I~IEt~G~--   97 (158)
T cd03112          26 GRKIAVIENEFGEVGIDNQLVVDTDE----EIIEMNNGCICCTV--RGDLIRALLDLLERLDAGKIAFDRIVIETTGL--   97 (158)
T ss_pred             CCcEEEEecCCCccchhHHHHhCCCc----eEEEeCCCEeEeeC--chhHHHHHHHHHHHHHhccCCCCEEEEECCCc--
Confidence            589999999999 8999999986543    689999999 9986  66665433221 23222 35899999999994  


Q ss_pred             EEee-------------eeecCceEEEEEeCCCCCCCc---cCCCCCCCceeEEEEecCCC
Q 029893           87 AANF-------------SRELADYIIYIIDVSGGDKIP---RKGGPGITQADLLVINKTDL  131 (186)
Q Consensus        87 ~~~~-------------~~~~ad~~v~VvDa~~~~~~~---~~~~~~~~~adiivlNK~Dl  131 (186)
                      +.|.             .....+.+++++|+.++....   ..+..|++.||+||+||+|+
T Consensus        98 ~~p~~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~~~~~~~~~~~~~Qi~~ad~ivlnk~dl  158 (158)
T cd03112          98 ADPGPVAQTFFMDEELAERYLLDGVITLVDAKHANQHLDQQTEAQSQIAFADRILLNKTDL  158 (158)
T ss_pred             CCHHHHHHHHhhchhhhcceeeccEEEEEEhhHhHHHhhccHHHHHHHHHCCEEEEecccC
Confidence            2111             011247789999998764422   22456889999999999996

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.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=99.58  E-value=1.4e-14  Score=120.03  Aligned_cols=172  Identities=21%  Similarity=0.186  Sum_probs=100.3

Q ss_pred             HHHHHHHhc-CCcEEEEEcccCCch-------hHHHHHhcCCCCcCceEeccCCCcccCCcccccccCcchhHhhhhhcC
Q 029893            2 LALCKFLRD-KYSLAAVTNDIFTKE-------DGEFLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFK   73 (186)
Q Consensus         2 ~~~~~~l~~-~~~vaVi~nd~g~~i-------D~~~i~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~~~l~~l~~~~~   73 (186)
                      .+++..+.. +++++||.+|+..++       |..++......|...+++++++|  ++.   .+......+..+.+..+
T Consensus        52 ~~l~~~~~~~~~~v~~i~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~---~~~~~~~~~~~~l~~~g  126 (300)
T TIGR00750        52 EALGMELRRRGLKVAVIAVDPSSPFTGGSILGDRTRMQRLATDPGAFIRSMPTRG--HLG---GLSQATRELILLLDAAG  126 (300)
T ss_pred             HHHHHHHHHCCCeEEEEecCCCCCcchhhhcccchhhhhcccCCCceeeecCccc--ccc---chhHHHHHHHHHHHhCC
Confidence            345555655 489999999988543       33344332222222566665532  110   00111122223345679


Q ss_pred             CcEEEEecCCCeeEEeeeeecCceEEEEEeCCCCCCCccCCCCCCCceeEEEEecCCCCCcccccHHHHH----HHHHh-
Q 029893           74 ADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVME----RDALR-  148 (186)
Q Consensus        74 ~D~iiIEtsG~~l~~~~~~~~ad~~v~VvDa~~~~~~~~~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~----~~l~~-  148 (186)
                      +|+|||||+|.+.........+|.++++.+...+++.........+.++++|+||+|+.+.  .......    ..+.. 
T Consensus       127 ~D~viidT~G~~~~e~~i~~~aD~i~vv~~~~~~~el~~~~~~l~~~~~ivv~NK~Dl~~~--~~~~~~~~~~~~~l~~l  204 (300)
T TIGR00750       127 YDVIIVETVGVGQSEVDIANMADTFVVVTIPGTGDDLQGIKAGLMEIADIYVVNKADGEGA--TNVTIARLMLALALEEI  204 (300)
T ss_pred             CCEEEEeCCCCchhhhHHHHhhceEEEEecCCccHHHHHHHHHHhhhccEEEEEcccccch--hHHHHHHHHHHHHHhhc
Confidence            9999999999432111112346777777666555543222233467789999999999865  2221111    11111 


Q ss_pred             --h--CCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          149 --M--RDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       149 --~--~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                        .  .+..+++++||++|+|+++|++++.++....
T Consensus       205 ~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~~~~  240 (300)
T TIGR00750       205 RRREDGWRPPVLTTSAVEGRGIDELWDAIEEHKTFL  240 (300)
T ss_pred             cccccCCCCCEEEEEccCCCCHHHHHHHHHHHHHHH
Confidence              1  1234799999999999999999998876533

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.45  E-value=1.2e-13  Score=117.94  Aligned_cols=120  Identities=20%  Similarity=0.273  Sum_probs=90.2

Q ss_pred             chhHhhhhhcCCcEEEEecCCCe----eE---Eeee-------eecCceEEEEEeCCCCCCCccC----CCCCCCceeEE
Q 029893           63 GPLEELSNLFKADLLLCESGGDN----LA---ANFS-------RELADYIIYIIDVSGGDKIPRK----GGPGITQADLL  124 (186)
Q Consensus        63 ~~l~~l~~~~~~D~iiIEtsG~~----l~---~~~~-------~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adii  124 (186)
                      +++....+..+-.|.+|+|+|++    +.   .-|+       ++.++++++|+|++++...++.    +......|.+|
T Consensus       215 D~I~~~~e~~~~~~~liDTAGiRrk~ki~e~~E~~Sv~rt~~aI~~a~vvllviDa~~~~~~qD~~ia~~i~~~g~~~vI  294 (444)
T COG1160         215 DSIDIEFERDGRKYVLIDTAGIRRKGKITESVEKYSVARTLKAIERADVVLLVIDATEGISEQDLRIAGLIEEAGRGIVI  294 (444)
T ss_pred             cceeeeEEECCeEEEEEECCCCCcccccccceEEEeehhhHhHHhhcCEEEEEEECCCCchHHHHHHHHHHHHcCCCeEE
Confidence            56665555668889999999963    11   1121       2357999999999998654432    33345679999


Q ss_pred             EEecCCCCCcccccHHHHHHHHHhhC---CCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          125 VINKTDLASAIGADLAVMERDALRMR---DGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       125 vlNK~Dl~~~~~~~~~~~~~~l~~~~---p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      |+||||+++......+.++..+++..   .++|++++||++|.|++++++.+.+.+..++.
T Consensus       295 vvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a~i~~iSA~~~~~i~~l~~~i~~~~~~~~~  355 (444)
T COG1160         295 VVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIVFISALTGQGLDKLFEAIKEIYECATR  355 (444)
T ss_pred             EEEccccCCchhhHHHHHHHHHHHHhccccCCeEEEEEecCCCChHHHHHHHHHHHHHhcc
Confidence            99999998763345566767776654   57999999999999999999999999888765

>COG1159 Era GTPase [General function prediction only]

Probab=99.21  E-value=3.4e-11  Score=98.15  Aligned_cols=111  Identities=14%  Similarity=0.126  Sum_probs=84.0

Q ss_pred             hhhhcCCcEEEEecCCCeeE-----------EeeeeecCceEEEEEeCCCCCCCccCC-CCC---CCceeEEEEecCCCC
Q 029893           68 LSNLFKADLLLCESGGDNLA-----------ANFSRELADYIIYIIDVSGGDKIPRKG-GPG---ITQADLLVINKTDLA  132 (186)
Q Consensus        68 l~~~~~~D~iiIEtsG~~l~-----------~~~~~~~ad~~v~VvDa~~~~~~~~~~-~~~---~~~adiivlNK~Dl~  132 (186)
                      .........|||+|+|+.--           +..+...+|++++|+|+.++....+.+ ..+   ...+.++++||+|..
T Consensus        48 I~t~~~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl~dvDlilfvvd~~~~~~~~d~~il~~lk~~~~pvil~iNKID~~  127 (298)
T COG1159          48 IVTTDNAQIIFVDTPGIHKPKHALGELMNKAARSALKDVDLILFVVDADEGWGPGDEFILEQLKKTKTPVILVVNKIDKV  127 (298)
T ss_pred             EEEcCCceEEEEeCCCCCCcchHHHHHHHHHHHHHhccCcEEEEEEeccccCCccHHHHHHHHhhcCCCeEEEEEccccC
Confidence            33345889999999996311           011234679999999998854332211 112   345899999999999


Q ss_pred             Cccccc-HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          133 SAIGAD-LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       133 ~~~~~~-~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      ++  .. +..+.+.++...|+..++++||++|.|++.|++.+.+++|+.
T Consensus       128 ~~--~~~l~~~~~~~~~~~~f~~ivpiSA~~g~n~~~L~~~i~~~Lpeg  174 (298)
T COG1159         128 KP--KTVLLKLIAFLKKLLPFKEIVPISALKGDNVDTLLEIIKEYLPEG  174 (298)
T ss_pred             Cc--HHHHHHHHHHHHhhCCcceEEEeeccccCCHHHHHHHHHHhCCCC
Confidence            87  45 567778888888999999999999999999999999999875

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

Probab=99.12  E-value=3.6e-10  Score=83.71  Aligned_cols=96  Identities=17%  Similarity=0.148  Sum_probs=72.7

Q ss_pred             EEEecCCCeeEEeee-------eecCceEEEEEeCCCCCC-CccCCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHh
Q 029893           77 LLCESGGDNLAANFS-------RELADYIIYIIDVSGGDK-IPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALR  148 (186)
Q Consensus        77 iiIEtsG~~l~~~~~-------~~~ad~~v~VvDa~~~~~-~~~~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~  148 (186)
                      -+|+|+|--+..|..       ...||++++|.|+++... .+-.+...+..+.+-|+||+|+.+.. +++++.+++++.
T Consensus        39 ~~IDTPGEyiE~~~~y~aLi~ta~dad~V~ll~dat~~~~~~pP~fa~~f~~pvIGVITK~Dl~~~~-~~i~~a~~~L~~  117 (143)
T PF10662_consen   39 NTIDTPGEYIENPRFYHALIVTAQDADVVLLLQDATEPRSVFPPGFASMFNKPVIGVITKIDLPSDD-ANIERAKKWLKN  117 (143)
T ss_pred             cEEECChhheeCHHHHHHHHHHHhhCCEEEEEecCCCCCccCCchhhcccCCCEEEEEECccCccch-hhHHHHHHHHHH
Confidence            459999943433321       125799999999998654 34455566788999999999999321 678888888877


Q ss_pred             hCCCCCEEEEeccCCCCHHHHHHHHH
Q 029893          149 MRDGGPFIFAQVKHGLGVEEIVNHIL  174 (186)
Q Consensus       149 ~~p~a~i~~~Sa~~g~gi~~l~~~i~  174 (186)
                      ... .+||++|+.+|+|+++|.++|.
T Consensus       118 aG~-~~if~vS~~~~eGi~eL~~~L~  142 (143)
T PF10662_consen  118 AGV-KEIFEVSAVTGEGIEELKDYLE  142 (143)
T ss_pred             cCC-CCeEEEECCCCcCHHHHHHHHh
Confidence            643 4789999999999999999986

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

>TIGR00436 era GTP-binding protein Era

Probab=99.07  E-value=3e-10  Score=92.72  Aligned_cols=106  Identities=11%  Similarity=0.047  Sum_probs=73.1

Q ss_pred             CCcEEEEecCCCeeE-Ee----------eeeecCceEEEEEeCCCCCCCccC---CCCCCCceeEEEEecCCCCCccccc
Q 029893           73 KADLLLCESGGDNLA-AN----------FSRELADYIIYIIDVSGGDKIPRK---GGPGITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~-~~----------~~~~~ad~~v~VvDa~~~~~~~~~---~~~~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      +..++|++|+|..-. ..          ..+..+|++++|+|++........   .......+.++|+||+|+.+.  ..
T Consensus        47 ~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~aDvvl~VvD~~~~~~~~~~i~~~l~~~~~p~ilV~NK~Dl~~~--~~  124 (270)
T TIGR00436        47 ASQIIFIDTPGFHEKKHSLNRLMMKEARSAIGGVDLILFVVDSDQWNGDGEFVLTKLQNLKRPVVLTRNKLDNKFK--DK  124 (270)
T ss_pred             CcEEEEEECcCCCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCCchHHHHHHHHHhcCCCEEEEEECeeCCCH--HH
Confidence            456899999994211 00          012457999999999876433211   111235688999999999865  34


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      .......+....+..+++++||++|.|+++|++++.+.+|+.
T Consensus       125 ~~~~~~~~~~~~~~~~v~~iSA~~g~gi~~L~~~l~~~l~~~  166 (270)
T TIGR00436       125 LLPLIDKYAILEDFKDIVPISALTGDNTSFLAAFIEVHLPEG  166 (270)
T ss_pred             HHHHHHHHHhhcCCCceEEEecCCCCCHHHHHHHHHHhCCCC
Confidence            433334444445566999999999999999999999988754

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

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.04  E-value=7.9e-10  Score=95.53  Aligned_cols=108  Identities=21%  Similarity=0.305  Sum_probs=76.0

Q ss_pred             cCCcEEEEecCCCeeEE-------ee-------eeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCC-
Q 029893           72 FKADLLLCESGGDNLAA-------NF-------SRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLA-  132 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~-------~~-------~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~-  132 (186)
                      .+..+.+++|+|..-..       .+       .+..+|++++|+|+.++......    .......+.++|+||||+. 
T Consensus       218 ~~~~~~liDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilV~D~~~~~~~~~~~~~~~~~~~~~~iiiv~NK~Dl~~  297 (429)
T TIGR03594       218 NGKKYLLIDTAGIRRKGKVTEGVEKYSVLRTLKAIERADVVLLVLDATEGITEQDLRIAGLILEAGKALVIVVNKWDLVK  297 (429)
T ss_pred             CCcEEEEEECCCccccccchhhHHHHHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHHcCCcEEEEEECcccCC
Confidence            35579999999942100       01       12457999999999987543221    1112346899999999998 


Q ss_pred             CcccccHHHHHHHHHhhC---CCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          133 SAIGADLAVMERDALRMR---DGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       133 ~~~~~~~~~~~~~l~~~~---p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      +.  ...+.+.+.++...   ++++++++||++|.|++++++++.+.+..+.
T Consensus       298 ~~--~~~~~~~~~~~~~~~~~~~~~vi~~SA~~g~~v~~l~~~i~~~~~~~~  347 (429)
T TIGR03594       298 DE--KTREEFKKELRRKLPFLDFAPIVFISALTGQGVDKLLDAIDEVYENAN  347 (429)
T ss_pred             CH--HHHHHHHHHHHHhcccCCCCceEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            33  44556666665543   4689999999999999999999998777554

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=99.03  E-value=8.6e-10  Score=95.54  Aligned_cols=108  Identities=22%  Similarity=0.325  Sum_probs=76.5

Q ss_pred             cCCcEEEEecCCCeeEE-------ee-------eeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCC
Q 029893           72 FKADLLLCESGGDNLAA-------NF-------SRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLAS  133 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~-------~~-------~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~  133 (186)
                      .+.++.+++|+|+.-..       .+       ....+|++++|+|++++......    +......+.++++||||+.+
T Consensus       219 ~~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilViD~~~~~~~~~~~i~~~~~~~~~~~ivv~NK~Dl~~  298 (435)
T PRK00093        219 DGQKYTLIDTAGIRRKGKVTEGVEKYSVIRTLKAIERADVVLLVIDATEGITEQDLRIAGLALEAGRALVIVVNKWDLVD  298 (435)
T ss_pred             CCeeEEEEECCCCCCCcchhhHHHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCcEEEEEECccCCC
Confidence            46679999999952100       00       12357999999999987543221    11223568999999999986


Q ss_pred             cccccHHHHHHHHHhhC---CCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          134 AIGADLAVMERDALRMR---DGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       134 ~~~~~~~~~~~~l~~~~---p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      +  ...+.+.+.++...   +++|++++||++|.|++++++.+.+.+..+.
T Consensus       299 ~--~~~~~~~~~~~~~l~~~~~~~i~~~SA~~~~gv~~l~~~i~~~~~~~~  347 (435)
T PRK00093        299 E--KTMEEFKKELRRRLPFLDYAPIVFISALTGQGVDKLLEAIDEAYENAN  347 (435)
T ss_pred             H--HHHHHHHHHHHHhcccccCCCEEEEeCCCCCCHHHHHHHHHHHHHHHc
Confidence            5  44555555555433   5689999999999999999999988777654

>PRK15494 era GTPase Era; Provisional

Probab=99.03  E-value=6e-10  Score=93.91  Aligned_cols=106  Identities=15%  Similarity=0.118  Sum_probs=74.7

Q ss_pred             cCCcEEEEecCCCeeE-E---e-------eeeecCceEEEEEeCCCCCCCcc-C---CCCCCCceeEEEEecCCCCCccc
Q 029893           72 FKADLLLCESGGDNLA-A---N-------FSRELADYIIYIIDVSGGDKIPR-K---GGPGITQADLLVINKTDLASAIG  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~-~---~-------~~~~~ad~~v~VvDa~~~~~~~~-~---~~~~~~~adiivlNK~Dl~~~~~  136 (186)
                      .+..++|++|+|..-. .   .       ..+..+|++++|+|+........ .   .......+.++|+||+|+.+.  
T Consensus        98 ~~~qi~~~DTpG~~~~~~~l~~~~~r~~~~~l~~aDvil~VvD~~~s~~~~~~~il~~l~~~~~p~IlViNKiDl~~~--  175 (339)
T PRK15494         98 KDTQVILYDTPGIFEPKGSLEKAMVRCAWSSLHSADLVLLIIDSLKSFDDITHNILDKLRSLNIVPIFLLNKIDIESK--  175 (339)
T ss_pred             CCeEEEEEECCCcCCCcccHHHHHHHHHHHHhhhCCEEEEEEECCCCCCHHHHHHHHHHHhcCCCEEEEEEhhcCccc--
Confidence            3567899999994100 0   0       01346899999999876432211 1   112234577899999999754  


Q ss_pred             ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          137 ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       137 ~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                       ....+.+.++..++..+++++||++|.|++++++++.+.+++.
T Consensus       176 -~~~~~~~~l~~~~~~~~i~~iSAktg~gv~eL~~~L~~~l~~~  218 (339)
T PRK15494        176 -YLNDIKAFLTENHPDSLLFPISALSGKNIDGLLEYITSKAKIS  218 (339)
T ss_pred             -cHHHHHHHHHhcCCCcEEEEEeccCccCHHHHHHHHHHhCCCC
Confidence             3556666676667778999999999999999999999887754

>PRK00089 era GTPase Era; Reviewed

Probab=99.02  E-value=5e-10  Score=92.19  Aligned_cols=107  Identities=16%  Similarity=0.200  Sum_probs=75.7

Q ss_pred             cCCcEEEEecCCCeeEEe-----------eeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCccc
Q 029893           72 FKADLLLCESGGDNLAAN-----------FSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIG  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~-----------~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~  136 (186)
                      .+.+++|++|+|..-...           .....+|++++|+|+.+......    ........+.++|+||+|+.+.. 
T Consensus        51 ~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~~~D~il~vvd~~~~~~~~~~~i~~~l~~~~~pvilVlNKiDl~~~~-  129 (292)
T PRK00089         51 DDAQIIFVDTPGIHKPKRALNRAMNKAAWSSLKDVDLVLFVVDADEKIGPGDEFILEKLKKVKTPVILVLNKIDLVKDK-  129 (292)
T ss_pred             CCceEEEEECCCCCCchhHHHHHHHHHHHHHHhcCCEEEEEEeCCCCCChhHHHHHHHHhhcCCCEEEEEECCcCCCCH-
Confidence            457899999999421100           01235799999999987322111    11112356899999999998431 


Q ss_pred             ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          137 ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       137 ~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      .++....+.+.+..+..+++++||++|.|++++++++.+.+++
T Consensus       130 ~~l~~~~~~l~~~~~~~~i~~iSA~~~~gv~~L~~~L~~~l~~  172 (292)
T PRK00089        130 EELLPLLEELSELMDFAEIVPISALKGDNVDELLDVIAKYLPE  172 (292)
T ss_pred             HHHHHHHHHHHhhCCCCeEEEecCCCCCCHHHHHHHHHHhCCC
Confidence            4555566666666677899999999999999999999988764

>PRK13768 GTPase; Provisional

Probab=99.01  E-value=1.4e-09  Score=88.09  Aligned_cols=112  Identities=19%  Similarity=0.200  Sum_probs=75.3

Q ss_pred             hhHhhhhhcCCcEEEEecCCCeeEEeee-----------ee--cCceEEEEEeCCCCCCCcc----CCC-----CCCCce
Q 029893           64 PLEELSNLFKADLLLCESGGDNLAANFS-----------RE--LADYIIYIIDVSGGDKIPR----KGG-----PGITQA  121 (186)
Q Consensus        64 ~l~~l~~~~~~D~iiIEtsG~~l~~~~~-----------~~--~ad~~v~VvDa~~~~~~~~----~~~-----~~~~~a  121 (186)
                      .+....+..+.|+++++++|.  ..++.           ..  ..+++++|+|+..+.....    .+.     .....+
T Consensus        87 ~l~~~l~~~~~~~~~~d~~g~--~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~~~~~  164 (253)
T PRK13768         87 EIKEEIESLDADYVLVDTPGQ--MELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLRLGLP  164 (253)
T ss_pred             HHHHHHHhcCCCEEEEeCCcH--HHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHHHcCCC
Confidence            333333445779999999992  22110           11  1678999999976543211    000     134668


Q ss_pred             eEEEEecCCCCCcccccHHHHHHH----------------------------HHhhCCCCCEEEEeccCCCCHHHHHHHH
Q 029893          122 DLLVINKTDLASAIGADLAVMERD----------------------------ALRMRDGGPFIFAQVKHGLGVEEIVNHI  173 (186)
Q Consensus       122 diivlNK~Dl~~~~~~~~~~~~~~----------------------------l~~~~p~a~i~~~Sa~~g~gi~~l~~~i  173 (186)
                      .++|+||+|+.+.  .+.+...+.                            +++.++..+++++|+++++|+++|+++|
T Consensus       165 ~i~v~nK~D~~~~--~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I  242 (253)
T PRK13768        165 QIPVLNKADLLSE--EELERILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAI  242 (253)
T ss_pred             EEEEEEhHhhcCc--hhHHHHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHH
Confidence            9999999999876  344333332                            3344666799999999999999999999


Q ss_pred             HHHHHH
Q 029893          174 LQAWEA  179 (186)
Q Consensus       174 ~~~~~~  179 (186)
                      .+.++.
T Consensus       243 ~~~l~~  248 (253)
T PRK13768        243 QEVFCG  248 (253)
T ss_pred             HHHcCC
Confidence            998764

>cd04163 Era Era subfamily

Probab=99.00  E-value=1.1e-09  Score=81.04  Aligned_cols=104  Identities=16%  Similarity=0.180  Sum_probs=73.9

Q ss_pred             cCCcEEEEecCCCeeEEe-----------eeeecCceEEEEEeCCCCCCCccC-C---CCCCCceeEEEEecCCCCCccc
Q 029893           72 FKADLLLCESGGDNLAAN-----------FSRELADYIIYIIDVSGGDKIPRK-G---GPGITQADLLVINKTDLASAIG  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~-----------~~~~~ad~~v~VvDa~~~~~~~~~-~---~~~~~~adiivlNK~Dl~~~~~  136 (186)
                      .+.++++++|+|..-...           .....+|.+++|+|+.+....... .   ....+.+.++|+||+|+.... 
T Consensus        49 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~i~~v~d~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-  127 (168)
T cd04163          49 DDAQIIFVDTPGIHKPKKKLGERMVKAAWSALKDVDLVLFVVDASEPIGEGDEFILELLKKSKTPVILVLNKIDLVKDK-  127 (168)
T ss_pred             CCeEEEEEECCCCCcchHHHHHHHHHHHHHHHHhCCEEEEEEECCCccCchHHHHHHHHHHhCCCEEEEEEchhccccH-
Confidence            467899999999421100           012346899999999886322111 1   112346899999999998431 


Q ss_pred             ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          137 ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       137 ~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      .........++..++..+++++|++++.|++++++++.+.
T Consensus       128 ~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~l~~~l~~~  167 (168)
T cd04163         128 EDLLPLLEKLKELGPFAEIFPISALKGENVDELLEEIVKY  167 (168)
T ss_pred             HHHHHHHHHHHhccCCCceEEEEeccCCChHHHHHHHHhh
Confidence            4566667777777777899999999999999999998765

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.

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.00  E-value=2.2e-09  Score=80.85  Aligned_cols=101  Identities=18%  Similarity=0.270  Sum_probs=69.2

Q ss_pred             EEecCCCeeEEe-e------eeecCceEEEEEeCCCCCCCccCC-CC-CCCceeEEEEecCCCCCcccccHHHHHHHHHh
Q 029893           78 LCESGGDNLAAN-F------SRELADYIIYIIDVSGGDKIPRKG-GP-GITQADLLVINKTDLASAIGADLAVMERDALR  148 (186)
Q Consensus        78 iIEtsG~~l~~~-~------~~~~ad~~v~VvDa~~~~~~~~~~-~~-~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~  148 (186)
                      +++|+|.....+ +      .+..+|++++|+|++.++...... .. ....+.++++||+|+.+.   ..+.+.+.+++
T Consensus        41 ~iDtpG~~~~~~~~~~~~~~~~~~ad~il~v~d~~~~~s~~~~~~~~~~~~~~ii~v~nK~Dl~~~---~~~~~~~~~~~  117 (158)
T PRK15467         41 DIDTPGEYFSHPRWYHALITTLQDVDMLIYVHGANDPESRLPAGLLDIGVSKRQIAVISKTDMPDA---DVAATRKLLLE  117 (158)
T ss_pred             cccCCccccCCHHHHHHHHHHHhcCCEEEEEEeCCCcccccCHHHHhccCCCCeEEEEEccccCcc---cHHHHHHHHHH
Confidence            589999311111 1      123579999999998775432111 01 124578999999998653   44556666666


Q ss_pred             hCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          149 MRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       149 ~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      .....|++++||++|+|++++++++.+..+..-
T Consensus       118 ~~~~~p~~~~Sa~~g~gi~~l~~~l~~~~~~~~  150 (158)
T PRK15467        118 TGFEEPIFELNSHDPQSVQQLVDYLASLTKQEE  150 (158)
T ss_pred             cCCCCCEEEEECCCccCHHHHHHHHHHhchhhh
Confidence            654569999999999999999999998886443

>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=98.99  E-value=2.7e-10  Score=87.97  Aligned_cols=106  Identities=17%  Similarity=0.220  Sum_probs=70.3

Q ss_pred             hcCCcEEEEecCCCe--eEEe-eeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCcccccHHHHH
Q 029893           71 LFKADLLLCESGGDN--LAAN-FSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASAIGADLAVME  143 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~--l~~~-~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~~~~~~~~~~  143 (186)
                      .....+.||+|+|-.  .... .....+|.+++|+|+.++...+..    .......+-++++||+|+...   +..+..
T Consensus        67 ~~~~~i~~iDtPG~~~f~~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~~~~~p~ivvlNK~D~~~~---~~~~~~  143 (188)
T PF00009_consen   67 ENNRKITLIDTPGHEDFIKEMIRGLRQADIAILVVDANDGIQPQTEEHLKILRELGIPIIVVLNKMDLIEK---ELEEII  143 (188)
T ss_dssp             ESSEEEEEEEESSSHHHHHHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHHHHHTT-SEEEEEETCTSSHH---HHHHHH
T ss_pred             ccccceeecccccccceeecccceecccccceeeeecccccccccccccccccccccceEEeeeeccchhh---hHHHHH
Confidence            456789999999921  0000 112357999999999987543221    122345679999999999943   444433


Q ss_pred             HHHH-----hh--CC--CCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          144 RDAL-----RM--RD--GGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       144 ~~l~-----~~--~p--~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      +.++     ..  .+  ..|++++||++|.|+++|++.+.+++|.
T Consensus       144 ~~~~~~l~~~~~~~~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~P~  188 (188)
T PF00009_consen  144 EEIKEKLLKEYGENGEEIVPVIPISALTGDGIDELLEALVELLPS  188 (188)
T ss_dssp             HHHHHHHHHHTTSTTTSTEEEEEEBTTTTBTHHHHHHHHHHHS--
T ss_pred             HHHHHHhccccccCccccceEEEEecCCCCCHHHHHHHHHHhCcC
Confidence            3333     22  11  3689999999999999999999998873

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 ....

>cd00881 GTP_translation_factor GTP translation factor family

Probab=98.98  E-value=9.3e-10  Score=83.69  Aligned_cols=104  Identities=17%  Similarity=0.196  Sum_probs=70.2

Q ss_pred             CCcEEEEecCCCee-EEe--eeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccccHHH----
Q 029893           73 KADLLLCESGGDNL-AAN--FSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGADLAV----  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~~~--~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~~~~----  141 (186)
                      +.+++|+||+|..- ...  .....+|.+++|+|+.++.....    .+......+.++|+||+|+..+  .....    
T Consensus        61 ~~~~~liDtpG~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~i~iv~nK~D~~~~--~~~~~~~~~  138 (189)
T cd00881          61 DRRVNFIDTPGHEDFSSEVIRGLSVSDGAILVVDANEGVQPQTREHLRIAREGGLPIIVAINKIDRVGE--EDLEEVLRE  138 (189)
T ss_pred             CEEEEEEeCCCcHHHHHHHHHHHHhcCEEEEEEECCCCCcHHHHHHHHHHHHCCCCeEEEEECCCCcch--hcHHHHHHH
Confidence            67899999999310 000  11235799999999987643211    1112245689999999999874  33333    


Q ss_pred             HHHHHHhhC------------CCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          142 MERDALRMR------------DGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       142 ~~~~l~~~~------------p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      +.+.++...            ...+++++||++|.|++++++++.+.+|
T Consensus       139 ~~~~~~~~~~~~~~~~~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l~  187 (189)
T cd00881         139 IKELLGLIGFISTKEEGTRNGLLVPIVPGSALTGIGVEELLEAIVEHLP  187 (189)
T ss_pred             HHHHHccccccchhhhhcccCCcceEEEEecccCcCHHHHHHHHHhhCC
Confidence            333333321            2579999999999999999999988765

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.

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

Probab=98.93  E-value=3.3e-09  Score=79.34  Aligned_cols=105  Identities=15%  Similarity=0.199  Sum_probs=69.1

Q ss_pred             cCCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccccHHHHHH
Q 029893           72 FKADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGADLAVMER  144 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~  144 (186)
                      .+.++.|++|+|..- .  ....+..+|.+++|+|++++.....    ........+.++|+||+|+.+.   ..+.+..
T Consensus        48 ~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~d~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~---~~~~~~~  124 (168)
T cd01887          48 KIPGITFIDTPGHEAFTNMRARGASLTDIAILVVAADDGVMPQTIEAIKLAKAANVPFIVALNKIDKPNA---NPERVKN  124 (168)
T ss_pred             CcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEEECCCCccHHHHHHHHHHHHcCCCEEEEEEceecccc---cHHHHHH
Confidence            467899999999310 0  0112345799999999987643211    1112345689999999999754   1222222


Q ss_pred             HHHh--------hCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          145 DALR--------MRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       145 ~l~~--------~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      .++.        .....+++++||++|.|++++++++.++...
T Consensus       125 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  167 (168)
T cd01887         125 ELSELGLQGEDEWGGDVQIVPTSAKTGEGIDDLLEAILLLAEK  167 (168)
T ss_pred             HHHHhhccccccccCcCcEEEeecccCCCHHHHHHHHHHhhhc
Confidence            2221        1224689999999999999999999887643

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.

>cd01895 EngA2 EngA2 subfamily

Probab=98.92  E-value=4.6e-09  Score=78.39  Aligned_cols=105  Identities=20%  Similarity=0.247  Sum_probs=70.6

Q ss_pred             cCCcEEEEecCCCeeE----E---ee-------eeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCC
Q 029893           72 FKADLLLCESGGDNLA----A---NF-------SRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLAS  133 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~----~---~~-------~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~  133 (186)
                      .+.++.+++|+|..-.    .   .+       ....+|++++|+|+.++.....    .+......+.++++||+|+.+
T Consensus        48 ~~~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~  127 (174)
T cd01895          48 DGKKYTLIDTAGIRRKGKVEEGIEKYSVLRTLKAIERADVVLLVIDATEGITEQDLRIAGLILEEGKALVIVVNKWDLVE  127 (174)
T ss_pred             CCeeEEEEECCCCccccchhccHHHHHHHHHHHHHhhcCeEEEEEeCCCCcchhHHHHHHHHHhcCCCEEEEEeccccCC
Confidence            4677999999994210    0   00       1124689999999987643211    111123568899999999986


Q ss_pred             cccccHHHHHHHHHhhCC---CCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          134 AIGADLAVMERDALRMRD---GGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       134 ~~~~~~~~~~~~l~~~~p---~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      ......+...+.+++..+   ..+++++||++|.|++++++++.+.
T Consensus       128 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~l~~~  173 (174)
T cd01895         128 KDSKTMKEFKKEIRRKLPFLDYAPIVFISALTGQGVDKLFDAIDEV  173 (174)
T ss_pred             ccHHHHHHHHHHHHhhcccccCCceEEEeccCCCCHHHHHHHHHHh
Confidence            521234445555655443   5799999999999999999998764

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=98.92  E-value=5.5e-09  Score=76.47  Aligned_cols=96  Identities=15%  Similarity=0.129  Sum_probs=63.2

Q ss_pred             EEEecCCCeeEEe--e-----eeecCceEEEEEeCCCCCCCcc-CCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHh
Q 029893           77 LLCESGGDNLAAN--F-----SRELADYIIYIIDVSGGDKIPR-KGGPGITQADLLVINKTDLASAIGADLAVMERDALR  148 (186)
Q Consensus        77 iiIEtsG~~l~~~--~-----~~~~ad~~v~VvDa~~~~~~~~-~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~  148 (186)
                      .+++|+|......  +     .+..+|++++|+|++++..... .+......+.++|+||+|+.+.. ...+...+..++
T Consensus        38 ~~iDt~G~~~~~~~~~~~~~~~~~~ad~vilv~d~~~~~s~~~~~~~~~~~~p~ilv~NK~Dl~~~~-~~~~~~~~~~~~  116 (142)
T TIGR02528        38 GAIDTPGEYVENRRLYSALIVTAADADVIALVQSATDPESRFPPGFASIFVKPVIGLVTKIDLAEAD-VDIERAKELLET  116 (142)
T ss_pred             eeecCchhhhhhHHHHHHHHHHhhcCCEEEEEecCCCCCcCCChhHHHhccCCeEEEEEeeccCCcc-cCHHHHHHHHHH
Confidence            5788888311000  1     1346899999999988765322 22222345889999999997531 233444444444


Q ss_pred             hCCCCCEEEEeccCCCCHHHHHHHHH
Q 029893          149 MRDGGPFIFAQVKHGLGVEEIVNHIL  174 (186)
Q Consensus       149 ~~p~a~i~~~Sa~~g~gi~~l~~~i~  174 (186)
                      . ...+++++||++|.|++++++++.
T Consensus       117 ~-~~~~~~~~Sa~~~~gi~~l~~~l~  141 (142)
T TIGR02528       117 A-GAEPIFEISSVDEQGLEALVDYLN  141 (142)
T ss_pred             c-CCCcEEEEecCCCCCHHHHHHHHh
Confidence            3 234899999999999999999874

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.

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

Probab=98.91  E-value=1.5e-09  Score=84.93  Aligned_cols=104  Identities=13%  Similarity=0.159  Sum_probs=66.6

Q ss_pred             CcEEEEecCCCe-eEEee--eeecCceEEEEEeCCCCC-CCc-cCC---CCCCC-ceeEEEEecCCCCCcccccHHHHHH
Q 029893           74 ADLLLCESGGDN-LAANF--SRELADYIIYIIDVSGGD-KIP-RKG---GPGIT-QADLLVINKTDLASAIGADLAVMER  144 (186)
Q Consensus        74 ~D~iiIEtsG~~-l~~~~--~~~~ad~~v~VvDa~~~~-~~~-~~~---~~~~~-~adiivlNK~Dl~~~~~~~~~~~~~  144 (186)
                      .-+.|++|.|-. +...+  ....+|.+++|+|+.++. ... ...   ....+ .+.++|+||+|+.++  .......+
T Consensus        83 ~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~~~~~iiivvNK~Dl~~~--~~~~~~~~  160 (203)
T cd01888          83 RHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIMGLKHIIIVQNKIDLVKE--EQALENYE  160 (203)
T ss_pred             cEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHcCCCcEEEEEEchhccCH--HHHHHHHH
Confidence            568999999921 10111  112469999999998742 111 100   11122 246889999999875  33333333


Q ss_pred             HHHhhC-----CCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          145 DALRMR-----DGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       145 ~l~~~~-----p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      .+++..     ...+++++||++|+|+++|++++.+.+|+
T Consensus       161 ~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l~~  200 (203)
T cd01888         161 QIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKIPT  200 (203)
T ss_pred             HHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhCCC
Confidence            333322     35689999999999999999999987765

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.90  E-value=3.1e-09  Score=97.51  Aligned_cols=109  Identities=18%  Similarity=0.120  Sum_probs=76.4

Q ss_pred             cCCcEEEEecCCCee----E--Ee-e-------eeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCC
Q 029893           72 FKADLLLCESGGDNL----A--AN-F-------SRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLAS  133 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l----~--~~-~-------~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~  133 (186)
                      .+.++.|++|+|+.-    .  .. +       .++.+|++++|+|++++......    .......+.++|+||||+.+
T Consensus       496 ~~~~~~liDTaG~~~~~~~~~~~e~~~~~r~~~~i~~advvilViDat~~~s~~~~~i~~~~~~~~~piIiV~NK~DL~~  575 (712)
T PRK09518        496 DGEDWLFIDTAGIKRRQHKLTGAEYYSSLRTQAAIERSELALFLFDASQPISEQDLKVMSMAVDAGRALVLVFNKWDLMD  575 (712)
T ss_pred             CCCEEEEEECCCcccCcccchhHHHHHHHHHHHHhhcCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEEchhcCC
Confidence            466788999999420    0  01 1       12457999999999887543211    11123568999999999987


Q ss_pred             cccccHHHHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          134 AIGADLAVMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       134 ~~~~~~~~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      +  ...+.+.+.++..   .++++++++||++|.|++++++.+.+.++.+..
T Consensus       576 ~--~~~~~~~~~~~~~l~~~~~~~ii~iSAktg~gv~~L~~~i~~~~~~~~~  625 (712)
T PRK09518        576 E--FRRQRLERLWKTEFDRVTWARRVNLSAKTGWHTNRLAPAMQEALESWDQ  625 (712)
T ss_pred             h--hHHHHHHHHHHHhccCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhcc
Confidence            5  3444444444432   357899999999999999999999999887654

>PRK03003 GTP-binding protein Der; Reviewed

Probab=98.89  E-value=2.6e-09  Score=93.71  Aligned_cols=109  Identities=21%  Similarity=0.155  Sum_probs=73.6

Q ss_pred             cCCcEEEEecCCCee----E--Ee-e-------eeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCC
Q 029893           72 FKADLLLCESGGDNL----A--AN-F-------SRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLAS  133 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l----~--~~-~-------~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~  133 (186)
                      .+..+.|++|+|+.-    .  .. +       .+..+|++++|+|++++......    .......+.++|+||+|+.+
T Consensus       257 ~~~~~~l~DTaG~~~~~~~~~~~e~~~~~~~~~~i~~ad~vilV~Da~~~~s~~~~~~~~~~~~~~~piIiV~NK~Dl~~  336 (472)
T PRK03003        257 GGKTWRFVDTAGLRRRVKQASGHEYYASLRTHAAIEAAEVAVVLIDASEPISEQDQRVLSMVIEAGRALVLAFNKWDLVD  336 (472)
T ss_pred             CCEEEEEEECCCccccccccchHHHHHHHHHHHHHhcCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECcccCC
Confidence            355678999999420    0  00 1       12457999999999886543211    11113468899999999986


Q ss_pred             cccccHHHHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          134 AIGADLAVMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       134 ~~~~~~~~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      +  .........+.+.   .+++|++++||++|.|++++++.+.+.++.++.
T Consensus       337 ~--~~~~~~~~~i~~~l~~~~~~~~~~~SAk~g~gv~~lf~~i~~~~~~~~~  386 (472)
T PRK03003        337 E--DRRYYLEREIDRELAQVPWAPRVNISAKTGRAVDKLVPALETALESWDT  386 (472)
T ss_pred             h--hHHHHHHHHHHHhcccCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhcc
Confidence            4  2333333333321   246899999999999999999999998887664

>cd03114 ArgK-like The function of this protein family is unkown

Probab=98.89  E-value=3.3e-09  Score=79.29  Aligned_cols=123  Identities=24%  Similarity=0.250  Sum_probs=73.1

Q ss_pred             HHHHHHhc-CCcEEEEEcccCC-chhHHHHH------hcCCCCcCceEeccCCCcccCCcccccccCcchhHhhhhhcCC
Q 029893            3 ALCKFLRD-KYSLAAVTNDIFT-KEDGEFLM------RNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKA   74 (186)
Q Consensus         3 ~~~~~l~~-~~~vaVi~nd~g~-~iD~~~i~------~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~~~l~~l~~~~~~   74 (186)
                      ++...+.+ +.|+.++-.|++. .-.+..+.      +....+.-.+..+..|+-++.     .........+..+..++
T Consensus        18 ~l~~~~~~~g~~v~ii~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~   92 (148)
T cd03114          18 ALITALRARGKRVAVLAIDPSSPFSGGAILGDRIRMERHASDPGVFIRSLATRGFLGG-----LSRATPEVIRVLDAAGF   92 (148)
T ss_pred             HHHHHHHHCCCEEEEEEeCCCCCCcccchhcCceEhhheecCCCceEEEcCCcCcccc-----cchhHHHHHHHHHhcCC
Confidence            44555554 4999999999873 22122221      110001113445544442221     11112222234445689


Q ss_pred             cEEEEecCCCeeEEeeeeecCceEEEEEeCCCCCCCccCCCCCCCceeEEEEecCC
Q 029893           75 DLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTD  130 (186)
Q Consensus        75 D~iiIEtsG~~l~~~~~~~~ad~~v~VvDa~~~~~~~~~~~~~~~~adiivlNK~D  130 (186)
                      |+|||||+|++-........+|.+++|..+...+.....+..+++.||++++||+|
T Consensus        93 D~iiIDtaG~~~~~~~~~~~Ad~~ivv~tpe~~D~y~~~k~~~~~~~~~~~~~k~~  148 (148)
T cd03114          93 DVIIVETVGVGQSEVDIASMADTTVVVMAPGAGDDIQAIKAGIMEIADIVVVNKAD  148 (148)
T ss_pred             CEEEEECCccChhhhhHHHhCCEEEEEECCCchhHHHHhhhhHhhhcCEEEEeCCC
Confidence            99999999943211112345799999998887777777777889999999999998

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.

>cd01890 LepA LepA subfamily

Probab=98.89  E-value=4.8e-09  Score=79.55  Aligned_cols=104  Identities=22%  Similarity=0.216  Sum_probs=66.8

Q ss_pred             cCCcEEEEecCCCee-EE--eeeeecCceEEEEEeCCCCCCCcc--CC--CCCCCceeEEEEecCCCCCcccccHHHHHH
Q 029893           72 FKADLLLCESGGDNL-AA--NFSRELADYIIYIIDVSGGDKIPR--KG--GPGITQADLLVINKTDLASAIGADLAVMER  144 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~~--~~~~~~ad~~v~VvDa~~~~~~~~--~~--~~~~~~adiivlNK~Dl~~~~~~~~~~~~~  144 (186)
                      .++.+.|++|+|..- ..  ...+..+|.+++|+|++.+.....  .+  ......+.++|+||+|+.+.  . .....+
T Consensus        65 ~~~~~~l~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~~~~~~iiiv~NK~Dl~~~--~-~~~~~~  141 (179)
T cd01890          65 QEYLLNLIDTPGHVDFSYEVSRSLAACEGALLLVDATQGVEAQTLANFYLALENNLEIIPVINKIDLPSA--D-PERVKQ  141 (179)
T ss_pred             CcEEEEEEECCCChhhHHHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHHHcCCCEEEEEECCCCCcC--C-HHHHHH
Confidence            467788999999310 00  012345899999999987643211  01  11124578999999998754  1 222223


Q ss_pred             HHHhhC--CCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          145 DALRMR--DGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       145 ~l~~~~--p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .+.+..  +..+++++||++|+|++++++++.+.+|
T Consensus       142 ~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~  177 (179)
T cd01890         142 QIEDVLGLDPSEAILVSAKTGLGVEDLLEAIVERIP  177 (179)
T ss_pred             HHHHHhCCCcccEEEeeccCCCCHHHHHHHHHhhCC
Confidence            333322  3346999999999999999999987654

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.

>cd01889 SelB_euk SelB subfamily

Probab=98.88  E-value=4.8e-09  Score=81.09  Aligned_cols=105  Identities=18%  Similarity=0.289  Sum_probs=69.0

Q ss_pred             cCCcEEEEecCCCe-eEEee--eeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCccccc----HH
Q 029893           72 FKADLLLCESGGDN-LAANF--SRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGAD----LA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~~~--~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~----~~  140 (186)
                      .+..+.|++|+|.. +...+  ....+|.+++|+|+.++.....    ........+.++++||+|+.+.  ..    .+
T Consensus        66 ~~~~~~i~DtpG~~~~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~~~~~~~~~~iiv~NK~Dl~~~--~~~~~~~~  143 (192)
T cd01889          66 ENLQITLVDCPGHASLIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLVIGEILCKKLIVVLNKIDLIPE--EERERKIE  143 (192)
T ss_pred             cCceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHHHHHHcCCCEEEEEECcccCCH--HHHHHHHH
Confidence            36789999999931 11111  1124689999999987643221    1111134578999999999864  22    23


Q ss_pred             HHHHHHHhh-----CCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          141 VMERDALRM-----RDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       141 ~~~~~l~~~-----~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ++.+.++..     +...+++++||++|+|+++|++++....+
T Consensus       144 ~~~~~l~~~~~~~~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~  186 (192)
T cd01889         144 KMKKKLQKTLEKTRFKNSPIIPVSAKPGGGEAELGKDLNNLIV  186 (192)
T ss_pred             HHHHHHHHHHHhcCcCCCCEEEEeccCCCCHHHHHHHHHhccc
Confidence            333333322     34579999999999999999999987544

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

>cd00880 Era_like Era (E

Probab=98.87  E-value=1.1e-08  Score=74.43  Aligned_cols=102  Identities=23%  Similarity=0.260  Sum_probs=71.7

Q ss_pred             CCcEEEEecCCCeeEEee----------eeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCccccc
Q 029893           73 KADLLLCESGGDNLAANF----------SRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~~----------~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      ..++.+++|.|..-....          ....+|.+++++|+.........    .......+.++|+||+|+...  ..
T Consensus        44 ~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~il~v~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nK~D~~~~--~~  121 (163)
T cd00880          44 LGPVVLIDTPGIDEAGGLGREREELARRVLERADLILFVVDADLRADEEEEKLLELLRERGKPVLLVLNKIDLLPE--EE  121 (163)
T ss_pred             CCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCeEEEEEEccccCCh--hh
Confidence            679999999994211100          12346899999999887543222    223356789999999999876  34


Q ss_pred             HHHHH---HHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          139 LAVME---RDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       139 ~~~~~---~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      .....   .......+..+++++||+++.|++++++++.+.
T Consensus       122 ~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~l~~~l~~~  162 (163)
T cd00880         122 EEELLELRLLILLLLLGLPVIAVSALTGEGIDELREALIEA  162 (163)
T ss_pred             HHHHHHHHHhhcccccCCceEEEeeeccCCHHHHHHHHHhh
Confidence            43332   223344567899999999999999999998764

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

>PTZ00099 rab6; Provisional

Probab=98.87  E-value=1.2e-08  Score=78.34  Aligned_cols=109  Identities=17%  Similarity=0.079  Sum_probs=71.4

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--CCC------CCCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--KGG------PGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~~~------~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ....+.|.+|+|..--   .+..++.+|++++|+|.++......  .+.      ..-..+.++|.||+||.+......+
T Consensus        27 ~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~  106 (176)
T PTZ00099         27 GPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDLRKVTYE  106 (176)
T ss_pred             EEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccCCCHH
Confidence            4678999999993110   1123457899999999988532110  110      0113467899999999753212333


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      +.....+..  ..+++++||++|.|++++|+++.+.+++-++
T Consensus       107 e~~~~~~~~--~~~~~e~SAk~g~nV~~lf~~l~~~l~~~~~  146 (176)
T PTZ00099        107 EGMQKAQEY--NTMFHETSAKAGHNIKVLFKKIAAKLPNLDN  146 (176)
T ss_pred             HHHHHHHHc--CCEEEEEECCCCCCHHHHHHHHHHHHHhccc
Confidence            333333333  3478999999999999999999998876443

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=98.84  E-value=6.7e-09  Score=79.73  Aligned_cols=107  Identities=16%  Similarity=0.169  Sum_probs=68.8

Q ss_pred             cCCcEEEEecCCCe-eE--EeeeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDN-LA--ANFSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~--~~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+..+.+.+|+|.. ..  ....+..+|.+++|+|+++.....         ..+......+.++|+||+|+.+.  ...
T Consensus        50 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~~--~~~  127 (183)
T cd04152          50 KGITFHFWDVGGQEKLRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPNA--LSV  127 (183)
T ss_pred             CceEEEEEECCCcHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCcccc--CCH
Confidence            45778899999931 10  011234689999999998753211         01122235689999999999754  233


Q ss_pred             HHHHHHHH--hhC--CCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          140 AVMERDAL--RMR--DGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       140 ~~~~~~l~--~~~--p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      +.....+.  ...  ...+++++||++|+|++++++++.+.+.+.
T Consensus       128 ~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~l~~~l~~~  172 (183)
T cd04152         128 SEVEKLLALHELSASTPWHVQPACAIIGEGLQEGLEKLYEMILKR  172 (183)
T ss_pred             HHHHHHhCccccCCCCceEEEEeecccCCCHHHHHHHHHHHHHHH
Confidence            33333322  121  124689999999999999999988766433

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.

>cd04165 GTPBP1_like GTPBP1-like

Probab=98.84  E-value=7.1e-09  Score=82.57  Aligned_cols=104  Identities=15%  Similarity=0.139  Sum_probs=68.8

Q ss_pred             hcCCcEEEEecCCCe-eE-Eee-ee--ecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccccHHH
Q 029893           71 LFKADLLLCESGGDN-LA-ANF-SR--ELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~-l~-~~~-~~--~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ..+.-+.||+|+|.. .. ... ..  ..+|++++|+|+.++.....    .+......+.++|+||+|+.++  .....
T Consensus        81 ~~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~~d~~~l~~l~~~~ip~ivvvNK~D~~~~--~~~~~  158 (224)
T cd04165          81 KSSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGIIGMTKEHLGLALALNIPVFVVVTKIDLAPA--NILQE  158 (224)
T ss_pred             eCCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEECccccCH--HHHHH
Confidence            446788999999931 00 011 11  24699999999988654321    1222345678999999999876  44444


Q ss_pred             HHHHHHhh----------------------------CCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          142 MERDALRM----------------------------RDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       142 ~~~~l~~~----------------------------~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      ..+.+++.                            ....|++.+||.+|+|+++|+++|...
T Consensus       159 ~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~~l  221 (224)
T cd04165         159 TLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLNLL  221 (224)
T ss_pred             HHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHHhc
Confidence            44433321                            123599999999999999999988654

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

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=98.83  E-value=6.8e-09  Score=90.58  Aligned_cols=103  Identities=28%  Similarity=0.372  Sum_probs=76.6

Q ss_pred             CcEEEEecCCCeeEEeeeee------cCceEEEEEeCCCCCCCccCC----CCCCCceeEEEEecCCCCCcccccHHHHH
Q 029893           74 ADLLLCESGGDNLAANFSRE------LADYIIYIIDVSGGDKIPRKG----GPGITQADLLVINKTDLASAIGADLAVME  143 (186)
Q Consensus        74 ~D~iiIEtsG~~l~~~~~~~------~ad~~v~VvDa~~~~~~~~~~----~~~~~~adiivlNK~Dl~~~~~~~~~~~~  143 (186)
                      +-+=+|+|.| .+  .|+.+      .++.+++||||.+|.+.+..+    .-+...+.|.|+||+|+.++   +.+++.
T Consensus       125 ylLNLIDTPG-Hv--DFs~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe~~L~iIpVlNKIDlp~a---dpe~V~  198 (650)
T KOG0462|consen  125 YLLNLIDTPG-HV--DFSGEVSRSLAACDGALLVVDASQGVQAQTVANFYLAFEAGLAIIPVLNKIDLPSA---DPERVE  198 (650)
T ss_pred             eEEEeecCCC-cc--cccceehehhhhcCceEEEEEcCcCchHHHHHHHHHHHHcCCeEEEeeeccCCCCC---CHHHHH
Confidence            5566889999 22  22221      248899999999997654321    12234578999999999876   566777


Q ss_pred             HHHHhhC--CCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          144 RDALRMR--DGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       144 ~~l~~~~--p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      ..+...+  |.++++.+|||+|.|++++++.|.+..|.-+.
T Consensus       199 ~q~~~lF~~~~~~~i~vSAK~G~~v~~lL~AII~rVPpP~~  239 (650)
T KOG0462|consen  199 NQLFELFDIPPAEVIYVSAKTGLNVEELLEAIIRRVPPPKG  239 (650)
T ss_pred             HHHHHHhcCCccceEEEEeccCccHHHHHHHHHhhCCCCCC
Confidence            7777654  77899999999999999999999988775544

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

Probab=98.83  E-value=1.7e-08  Score=75.71  Aligned_cols=101  Identities=18%  Similarity=0.220  Sum_probs=65.5

Q ss_pred             cCCcEEEEecCCCeeEEeee-------------eecCceEEEEEeCCCCCCCc-c---C----CCCCC-CceeEEEEecC
Q 029893           72 FKADLLLCESGGDNLAANFS-------------RELADYIIYIIDVSGGDKIP-R---K----GGPGI-TQADLLVINKT  129 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~~~-------------~~~ad~~v~VvDa~~~~~~~-~---~----~~~~~-~~adiivlNK~  129 (186)
                      .+..+.|++|+|.. ..+..             ...+|.+++|+|+++..... .   .    ..... ..+.++|+||+
T Consensus        45 ~~~~~~i~Dt~G~~-~~~~~~~~~~~~~~~~~~~~~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~~~~pvilv~NK~  123 (168)
T cd01897          45 KYLRWQVIDTPGLL-DRPLEERNTIEMQAITALAHLRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLFKNKPVIVVLNKI  123 (168)
T ss_pred             CceEEEEEECCCcC-CccccCCchHHHHHHHHHHhccCcEEEEEeCCcccccchHHHHHHHHHHHhhcCcCCeEEEEEcc
Confidence            35789999999941 00100             01257889999998643210 0   0    11111 56899999999


Q ss_pred             CCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          130 DLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       130 Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      |+.+.  .......+ .... +..+++++||++|.|++++++++.+.+
T Consensus       124 Dl~~~--~~~~~~~~-~~~~-~~~~~~~~Sa~~~~gi~~l~~~l~~~~  167 (168)
T cd01897         124 DLLTF--EDLSEIEE-EEEL-EGEEVLKISTLTEEGVDEVKNKACELL  167 (168)
T ss_pred             ccCch--hhHHHHHH-hhhh-ccCceEEEEecccCCHHHHHHHHHHHh
Confidence            99865  33333222 2222 356899999999999999999988754

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=98.83  E-value=6.9e-09  Score=77.71  Aligned_cols=102  Identities=20%  Similarity=0.239  Sum_probs=67.4

Q ss_pred             cCCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+..+.+++|+|.. ...  ...+..+|.+++|+|+.+......         ........+.++++||+|+.+.  ...
T Consensus        48 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~--~~~  125 (167)
T cd04160          48 GNARLKFWDLGGQESLRSLWDKYYAECHAIIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDA--LSV  125 (167)
T ss_pred             CCEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccC--CCH
Confidence            36889999999931 100  112345799999999977532110         0111134689999999999765  444


Q ss_pred             HHHHHHHHhh----C-CCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          140 AVMERDALRM----R-DGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       140 ~~~~~~l~~~----~-p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      ++....++..    . ...+++++||++|.|+++++++|.+
T Consensus       126 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~  166 (167)
T cd04160         126 EEIKEVFQDKAEEIGRRDCLVLPVSALEGTGVREGIEWLVE  166 (167)
T ss_pred             HHHHHHhccccccccCCceEEEEeeCCCCcCHHHHHHHHhc
Confidence            4444444332    1 2358999999999999999999864

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.

>cd04171 SelB SelB subfamily

Probab=98.82  E-value=1.2e-08  Score=75.85  Aligned_cols=101  Identities=16%  Similarity=0.151  Sum_probs=64.3

Q ss_pred             CCcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCCCcc----CCCCCCCc-eeEEEEecCCCCCcccccH----H
Q 029893           73 KADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDKIPR----KGGPGITQ-ADLLVINKTDLASAIGADL----A  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~-adiivlNK~Dl~~~~~~~~----~  140 (186)
                      +..+.+++|+|.. ....  ..+..+|++++|+|+.++.....    ........ +.++++||+|+.++  ...    +
T Consensus        50 ~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~V~d~~~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~--~~~~~~~~  127 (164)
T cd04171          50 GKRLGFIDVPGHEKFIKNMLAGAGGIDLVLLVVAADEGIMPQTREHLEILELLGIKRGLVVLTKADLVDE--DWLELVEE  127 (164)
T ss_pred             CcEEEEEECCChHHHHHHHHhhhhcCCEEEEEEECCCCccHhHHHHHHHHHHhCCCcEEEEEECccccCH--HHHHHHHH
Confidence            4578899999931 0000  12345899999999976421110    01111233 78999999999865  222    2


Q ss_pred             HHHHHHHhh-CCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          141 VMERDALRM-RDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       141 ~~~~~l~~~-~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      ++.+.++.. ....+++++||++|.|++++++++.+
T Consensus       128 ~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~  163 (164)
T cd04171         128 EIRELLAGTFLADAPIFPVSAVTGEGIEELKEYLDE  163 (164)
T ss_pred             HHHHHHHhcCcCCCcEEEEeCCCCcCHHHHHHHHhh
Confidence            333334332 13469999999999999999998864

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

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=98.81  E-value=4e-08  Score=82.76  Aligned_cols=106  Identities=20%  Similarity=0.346  Sum_probs=70.0

Q ss_pred             CCcEEEEecCCCeeEE--------ee--eeecCceEEEEEeCCCCCCCc---------cCCCC-CCCceeEEEEecCCCC
Q 029893           73 KADLLLCESGGDNLAA--------NF--SRELADYIIYIIDVSGGDKIP---------RKGGP-GITQADLLVINKTDLA  132 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~--------~~--~~~~ad~~v~VvDa~~~~~~~---------~~~~~-~~~~adiivlNK~Dl~  132 (186)
                      ...++|++++|+.-.+        .|  .++.++++++|+|+++.+...         ..+.. ....+.++|+||+|+.
T Consensus       205 ~~~~~i~D~PGli~ga~~~~gLg~~flrhie~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~  284 (335)
T PRK12299        205 YKSFVIADIPGLIEGASEGAGLGHRFLKHIERTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLL  284 (335)
T ss_pred             CcEEEEEeCCCccCCCCccccHHHHHHHHhhhcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccC
Confidence            4568999999941100        11  123478999999998654210         11211 2357899999999998


Q ss_pred             CcccccHH--HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          133 SAIGADLA--VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       133 ~~~~~~~~--~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      ++  ....  ......+..  ..+++++||++++|++++++++.+.++..+.
T Consensus       285 ~~--~~~~~~~~~~~~~~~--~~~i~~iSAktg~GI~eL~~~L~~~l~~~~~  332 (335)
T PRK12299        285 DE--EEEREKRAALELAAL--GGPVFLISAVTGEGLDELLRALWELLEEARR  332 (335)
T ss_pred             Cc--hhHHHHHHHHHHHhc--CCCEEEEEcCCCCCHHHHHHHHHHHHHhhhc
Confidence            65  2222  122222222  3689999999999999999999998887654

>cd01894 EngA1 EngA1 subfamily

Probab=98.79  E-value=1.9e-08  Score=74.06  Aligned_cols=99  Identities=23%  Similarity=0.312  Sum_probs=66.4

Q ss_pred             cCCcEEEEecCCCeeEEe-----------eeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCccc
Q 029893           72 FKADLLLCESGGDNLAAN-----------FSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIG  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~-----------~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~  136 (186)
                      .+..+.|++|+|..-..+           .....+|++++|+|+.++.....    .+......+.++|+||+|+.+.  
T Consensus        43 ~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~--  120 (157)
T cd01894          43 GGREFILIDTGGIEPDDEGISKEIREQAELAIEEADVILFVVDGREGLTPADEEIAKYLRKSKKPVILVVNKVDNIKE--  120 (157)
T ss_pred             CCeEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCCEEEEEEeccccCCccHHHHHHHHHhcCCCEEEEEECcccCCh--
Confidence            357899999999421111           01234799999999977543221    1122235689999999999876  


Q ss_pred             ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          137 ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       137 ~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      ...   ...+... ...+++++|+++|.|++++++++.+.
T Consensus       121 ~~~---~~~~~~~-~~~~~~~~Sa~~~~gv~~l~~~l~~~  156 (157)
T cd01894         121 EDE---AAEFYSL-GFGEPIPISAEHGRGIGDLLDAILEL  156 (157)
T ss_pred             HHH---HHHHHhc-CCCCeEEEecccCCCHHHHHHHHHhh
Confidence            222   2223333 23478999999999999999998764

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.

>cd01898 Obg Obg subfamily

Probab=98.78  E-value=5e-08  Score=73.12  Aligned_cols=101  Identities=21%  Similarity=0.347  Sum_probs=65.0

Q ss_pred             CcEEEEecCCCee-EE---ee------eeecCceEEEEEeCCCC-CCCc---------cCCCC-CCCceeEEEEecCCCC
Q 029893           74 ADLLLCESGGDNL-AA---NF------SRELADYIIYIIDVSGG-DKIP---------RKGGP-GITQADLLVINKTDLA  132 (186)
Q Consensus        74 ~D~iiIEtsG~~l-~~---~~------~~~~ad~~v~VvDa~~~-~~~~---------~~~~~-~~~~adiivlNK~Dl~  132 (186)
                      ..+.|++|+|..- ..   .+      ....+|.+++|+|+++. ....         ..+.. ....+.++|+||+|+.
T Consensus        48 ~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~  127 (170)
T cd01898          48 RSFVVADIPGLIEGASEGKGLGHRFLRHIERTRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLL  127 (170)
T ss_pred             CeEEEEecCcccCcccccCCchHHHHHHHHhCCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcC
Confidence            3789999999410 00   00      11237899999999886 2210         01111 1246789999999998


Q ss_pred             CcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          133 SAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       133 ~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      +.  .................+++++||++|.|++++++++.+.
T Consensus       128 ~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~  169 (170)
T cd01898         128 DE--EELFELLKELLKELWGKPVFPISALTGEGLDELLRKLAEL  169 (170)
T ss_pred             Cc--hhhHHHHHHHHhhCCCCCEEEEecCCCCCHHHHHHHHHhh
Confidence            76  3333323222222124589999999999999999998765

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.

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=98.78  E-value=1.1e-08  Score=87.99  Aligned_cols=111  Identities=23%  Similarity=0.275  Sum_probs=75.8

Q ss_pred             chhHhhhhhcCCcEEEEecCCCeeEEe-----------eeeecCceEEEEEeCCCCCCCc-cC-CC-CCCCceeEEEEec
Q 029893           63 GPLEELSNLFKADLLLCESGGDNLAAN-----------FSRELADYIIYIIDVSGGDKIP-RK-GG-PGITQADLLVINK  128 (186)
Q Consensus        63 ~~l~~l~~~~~~D~iiIEtsG~~l~~~-----------~~~~~ad~~v~VvDa~~~~~~~-~~-~~-~~~~~adiivlNK  128 (186)
                      |.+++-..-.++-+.+++|+|++-...           .....||++++|+|++++.... .. +. ..-..+.++|+||
T Consensus       254 Dviee~i~i~G~pv~l~DTAGiRet~d~VE~iGIeRs~~~i~~ADlvL~v~D~~~~~~~~d~~~~~~~~~~~~~i~v~NK  333 (454)
T COG0486         254 DVIEEDINLNGIPVRLVDTAGIRETDDVVERIGIERAKKAIEEADLVLFVLDASQPLDKEDLALIELLPKKKPIIVVLNK  333 (454)
T ss_pred             ceEEEEEEECCEEEEEEecCCcccCccHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCchhhHHHHHhcccCCCEEEEEec
Confidence            334443345799999999999542111           1223589999999999863221 11 11 1123578999999


Q ss_pred             CCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          129 TDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       129 ~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      +||.++  ......     +..+..+++.+||++|+|++.|.++|.+.+...
T Consensus       334 ~DL~~~--~~~~~~-----~~~~~~~~i~iSa~t~~Gl~~L~~~i~~~~~~~  378 (454)
T COG0486         334 ADLVSK--IELESE-----KLANGDAIISISAKTGEGLDALREAIKQLFGKG  378 (454)
T ss_pred             hhcccc--cccchh-----hccCCCceEEEEecCccCHHHHHHHHHHHHhhc
Confidence            999987  333222     233445899999999999999999999887754

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

Probab=98.77  E-value=2.5e-08  Score=73.75  Aligned_cols=102  Identities=14%  Similarity=0.158  Sum_probs=66.5

Q ss_pred             CCcEEEEecCCCeeEEe---------eee--ecCceEEEEEeCCCCCCCccC--CCCCCCceeEEEEecCCCCCcccccH
Q 029893           73 KADLLLCESGGDNLAAN---------FSR--ELADYIIYIIDVSGGDKIPRK--GGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~---------~~~--~~ad~~v~VvDa~~~~~~~~~--~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      +.++.|++|+|..--..         ..+  ..+|.+++|+|+.+.......  .......+.++|+||+|+.+.  ...
T Consensus        42 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~~~~~~~iiv~NK~Dl~~~--~~~  119 (158)
T cd01879          42 GKEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLIVNVVDATNLERNLYLTLQLLELGLPVVVALNMIDEAEK--RGI  119 (158)
T ss_pred             CeEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEEEEEeeCCcchhHHHHHHHHHHcCCCEEEEEehhhhccc--ccc
Confidence            46899999999421010         011  257999999999875432111  111245689999999999865  222


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ....+.+.... ..+++++||++|.|++++++++.+..
T Consensus       120 ~~~~~~~~~~~-~~~~~~iSa~~~~~~~~l~~~l~~~~  156 (158)
T cd01879         120 KIDLDKLSELL-GVPVVPTSARKGEGIDELKDAIAELA  156 (158)
T ss_pred             hhhHHHHHHhh-CCCeEEEEccCCCCHHHHHHHHHHHh
Confidence            22222332222 36899999999999999999988763

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.

>cd01859 MJ1464 MJ1464

Probab=98.77  E-value=3.7e-08  Score=73.64  Aligned_cols=82  Identities=18%  Similarity=0.256  Sum_probs=57.2

Q ss_pred             cCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHH
Q 029893           94 LADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l  169 (186)
                      .+|++++|+|+.++.....    .+......+.++|+||+|+.++  ....... .+.+. ...+++++||++|.|+++|
T Consensus        12 ~aD~vl~V~D~~~~~~~~~~~l~~~~~~~~~p~iiv~NK~Dl~~~--~~~~~~~-~~~~~-~~~~~~~iSa~~~~gi~~L   87 (156)
T cd01859          12 ESDVVLEVLDARDPELTRSRKLERYVLELGKKLLIVLNKADLVPK--EVLEKWK-SIKES-EGIPVVYVSAKERLGTKIL   87 (156)
T ss_pred             hCCEEEEEeeCCCCcccCCHHHHHHHHhCCCcEEEEEEhHHhCCH--HHHHHHH-HHHHh-CCCcEEEEEccccccHHHH
Confidence            4799999999977543221    1112235688999999999754  3333222 22222 3468999999999999999


Q ss_pred             HHHHHHHHHH
Q 029893          170 VNHILQAWEA  179 (186)
Q Consensus       170 ~~~i~~~~~~  179 (186)
                      ++.+.+.++.
T Consensus        88 ~~~l~~~~~~   97 (156)
T cd01859          88 RRTIKELAKI   97 (156)
T ss_pred             HHHHHHHHhh
Confidence            9999988875

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.

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

Probab=98.77  E-value=2.9e-08  Score=76.23  Aligned_cols=109  Identities=19%  Similarity=0.185  Sum_probs=77.1

Q ss_pred             CCcEEEEecCCCe---eEEeeeeecCceEEEEEeCCCCCCCcc------CCCCCCC--ceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDN---LAANFSRELADYIIYIIDVSGGDKIPR------KGGPGIT--QADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~---l~~~~~~~~ad~~v~VvDa~~~~~~~~------~~~~~~~--~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ...+.|=+|.|--   --+|++++.|+..|+|+|.++.+....      ....+..  .-..+|.||+||.+.+..+.++
T Consensus        53 ~ikfeIWDTAGQERy~slapMYyRgA~AAivvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~~~R~V~~~e  132 (200)
T KOG0092|consen   53 TIKFEIWDTAGQERYHSLAPMYYRGANAAIVVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLLERREVEFEE  132 (200)
T ss_pred             EEEEEEEEcCCcccccccccceecCCcEEEEEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhhhcccccHHH
Confidence            4677888999931   115667889999999999988654211      1111222  1235689999999854355566


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhcc
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTGK  183 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~~  183 (186)
                      ......+  .....++||||||.|++++|..|.+.+|...-.
T Consensus       133 a~~yAe~--~gll~~ETSAKTg~Nv~~if~~Ia~~lp~~~~~  172 (200)
T KOG0092|consen  133 AQAYAES--QGLLFFETSAKTGENVNEIFQAIAEKLPCSDPQ  172 (200)
T ss_pred             HHHHHHh--cCCEEEEEecccccCHHHHHHHHHHhccCcccc
Confidence            6555554  357999999999999999999999988866543

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=98.77  E-value=5.5e-08  Score=83.45  Aligned_cols=104  Identities=21%  Similarity=0.265  Sum_probs=69.5

Q ss_pred             cEEEEecCCCeeEEe--------e--eeecCceEEEEEeCCCCCC--Cc----------cCCC-CCCCceeEEEEecCCC
Q 029893           75 DLLLCESGGDNLAAN--------F--SRELADYIIYIIDVSGGDK--IP----------RKGG-PGITQADLLVINKTDL  131 (186)
Q Consensus        75 D~iiIEtsG~~l~~~--------~--~~~~ad~~v~VvDa~~~~~--~~----------~~~~-~~~~~adiivlNK~Dl  131 (186)
                      .++|++|+|+.-.+.        +  .+..+|++++|+|++..+.  ..          ..+. .....+.++|+||+|+
T Consensus       208 ~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~radvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl  287 (390)
T PRK12298        208 SFVVADIPGLIEGASEGAGLGIRFLKHLERCRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDL  287 (390)
T ss_pred             EEEEEeCCCccccccchhhHHHHHHHHHHhCCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCcc
Confidence            489999999421110        1  1235799999999874311  10          0111 1135689999999999


Q ss_pred             CCcccccHHHHHHHHHhhCCC-CCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          132 ASAIGADLAVMERDALRMRDG-GPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       132 ~~~~~~~~~~~~~~l~~~~p~-a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      .+.  .++....+.+.+..+. .+++++||+++.|+++|++++.+.+++.
T Consensus       288 ~~~--~el~~~l~~l~~~~~~~~~Vi~ISA~tg~GIdeLl~~I~~~L~~~  335 (390)
T PRK12298        288 LDE--EEAEERAKAIVEALGWEGPVYLISAASGLGVKELCWDLMTFIEEN  335 (390)
T ss_pred             CCh--HHHHHHHHHHHHHhCCCCCEEEEECCCCcCHHHHHHHHHHHhhhC
Confidence            865  4444444444443333 4899999999999999999999988764

>cd04158 ARD1 ARD1 subfamily

Probab=98.76  E-value=3.4e-08  Score=74.65  Aligned_cols=107  Identities=16%  Similarity=0.167  Sum_probs=68.9

Q ss_pred             cCCcEEEEecCCCeeEEe---eeeecCceEEEEEeCCCCCCCcc------CCCC--CC-CceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAAN---FSRELADYIIYIIDVSGGDKIPR------KGGP--GI-TQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~---~~~~~ad~~v~VvDa~~~~~~~~------~~~~--~~-~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+..+.+++|+|..-..+   ..+..+|.+++|+|+++......      ....  .. ..+.++|.||+|+...  ...
T Consensus        41 ~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~  118 (169)
T cd04158          41 KNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAGA--LSV  118 (169)
T ss_pred             CCEEEEEEECCCChhcchHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCcccC--CCH
Confidence            467889999999421111   12345799999999987532110      0111  11 2578999999999754  344


Q ss_pred             HHHHHHHHhhC--C--CCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          140 AVMERDALRMR--D--GGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       140 ~~~~~~l~~~~--p--~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      +++.+.++...  .  ..+++++||++|.|++++++++.+.+.+.
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~f~~l~~~~~~~  163 (169)
T cd04158         119 EEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEGLDWLSRQLVAA  163 (169)
T ss_pred             HHHHHHhCCccccCCCcEEEEeCcCCCCCCHHHHHHHHHHHHhhc
Confidence            44444442111  1  23688999999999999999998876543

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

>cd01855 YqeH YqeH

Probab=98.76  E-value=5.5e-08  Score=75.14  Aligned_cols=86  Identities=21%  Similarity=0.178  Sum_probs=57.0

Q ss_pred             eecCceEEEEEeCCCCCCC-ccCC-CCCCCceeEEEEecCCCCCcccccHHHHHHHH-----HhhC-CCCCEEEEeccCC
Q 029893           92 RELADYIIYIIDVSGGDKI-PRKG-GPGITQADLLVINKTDLASAIGADLAVMERDA-----LRMR-DGGPFIFAQVKHG  163 (186)
Q Consensus        92 ~~~ad~~v~VvDa~~~~~~-~~~~-~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l-----~~~~-p~a~i~~~Sa~~g  163 (186)
                      ++.+|++++|+|+.+.... .... ......+.++|+||+|+.+.. ...+......     +..+ +..+++++||++|
T Consensus        32 ~~~ad~il~VvD~~~~~~~~~~~l~~~~~~~~~ilV~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~~vSA~~~  110 (190)
T cd01855          32 SPKKALVVHVVDIFDFPGSLIPRLRLFGGNNPVILVGNKIDLLPKD-KNLVRIKNWLRAKAAAGLGLKPKDVILISAKKG  110 (190)
T ss_pred             ccCCcEEEEEEECccCCCccchhHHHhcCCCcEEEEEEchhcCCCC-CCHHHHHHHHHHHHHhhcCCCcccEEEEECCCC
Confidence            3467999999999875421 1111 112345789999999998652 2222222222     2222 2347999999999


Q ss_pred             CCHHHHHHHHHHHHH
Q 029893          164 LGVEEIVNHILQAWE  178 (186)
Q Consensus       164 ~gi~~l~~~i~~~~~  178 (186)
                      .|+++|++++.+.++
T Consensus       111 ~gi~eL~~~l~~~l~  125 (190)
T cd01855         111 WGVEELINAIKKLAK  125 (190)
T ss_pred             CCHHHHHHHHHHHhh
Confidence            999999999998876

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.

>cd04149 Arf6 Arf6 subfamily

Probab=98.76  E-value=1.9e-08  Score=76.27  Aligned_cols=102  Identities=17%  Similarity=0.153  Sum_probs=66.1

Q ss_pred             cCCcEEEEecCCCe-eE--EeeeeecCceEEEEEeCCCCCCCc---c---CCC---CCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDN-LA--ANFSRELADYIIYIIDVSGGDKIP---R---KGG---PGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~--~~~~~~~ad~~v~VvDa~~~~~~~---~---~~~---~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+..+.+.||+|.. ..  .+..+..+|.+++|+|+++.....   .   ...   ..-..+.++|.||+|+.+.  ...
T Consensus        51 ~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~  128 (168)
T cd04149          51 KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPDA--MKP  128 (168)
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCccC--CCH
Confidence            35778999999931 10  112345689999999998753211   0   010   1123579999999999754  333


Q ss_pred             HHHHHHHH--hhC-CCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          140 AVMERDAL--RMR-DGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       140 ~~~~~~l~--~~~-p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      +++.+.++  ..+ ...+++++||++|+|+++++++|.+
T Consensus       129 ~~i~~~~~~~~~~~~~~~~~~~SAk~g~gv~~~~~~l~~  167 (168)
T cd04149         129 HEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLSS  167 (168)
T ss_pred             HHHHHHcCCCccCCCcEEEEEeeCCCCCChHHHHHHHhc
Confidence            44444432  112 1237899999999999999999864

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

>cd01858 NGP_1 NGP-1

Probab=98.76  E-value=1.4e-08  Score=76.18  Aligned_cols=83  Identities=14%  Similarity=0.069  Sum_probs=58.1

Q ss_pred             ecCceEEEEEeCCCCCCCcc----CCCCC--CCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCH
Q 029893           93 ELADYIIYIIDVSGGDKIPR----KGGPG--ITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGV  166 (186)
Q Consensus        93 ~~ad~~v~VvDa~~~~~~~~----~~~~~--~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi  166 (186)
                      ..+|++++|+|+..+.....    .+...  ...+.++|+||+|+.++  .+.......+++..+.. ++++||+++.|+
T Consensus         7 ~~aD~il~VvD~~~p~~~~~~~i~~~l~~~~~~~p~ilVlNKiDl~~~--~~~~~~~~~~~~~~~~~-~~~iSa~~~~~~   83 (157)
T cd01858           7 DSSDVVIQVLDARDPMGTRCKHVEEYLKKEKPHKHLIFVLNKCDLVPT--WVTARWVKILSKEYPTI-AFHASINNPFGK   83 (157)
T ss_pred             hhCCEEEEEEECCCCccccCHHHHHHHHhccCCCCEEEEEEchhcCCH--HHHHHHHHHHhcCCcEE-EEEeeccccccH
Confidence            45899999999987532211    11111  12578999999999876  44555555555544433 688999999999


Q ss_pred             HHHHHHHHHHHH
Q 029893          167 EEIVNHILQAWE  178 (186)
Q Consensus       167 ~~l~~~i~~~~~  178 (186)
                      ++|++++.++..
T Consensus        84 ~~L~~~l~~~~~   95 (157)
T cd01858          84 GSLIQLLRQFSK   95 (157)
T ss_pred             HHHHHHHHHHHh
Confidence            999999987754

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.

>cd04157 Arl6 Arl6 subfamily

Probab=98.75  E-value=3.4e-08  Score=73.36  Aligned_cols=102  Identities=16%  Similarity=0.108  Sum_probs=65.0

Q ss_pred             cCCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc------c---CCC--CCCCceeEEEEecCCCCCcccc
Q 029893           72 FKADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP------R---KGG--PGITQADLLVINKTDLASAIGA  137 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~------~---~~~--~~~~~adiivlNK~Dl~~~~~~  137 (186)
                      .+..+.+++|+|..- .  ....+..+|.+++|+|+++.....      .   ...  ..-..+.++|+||+|+.+.  .
T Consensus        43 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~--~  120 (162)
T cd04157          43 GNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDA--L  120 (162)
T ss_pred             CCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCC--C
Confidence            467788999999310 0  011234689999999998754210      0   111  1124689999999999865  3


Q ss_pred             cHHHHHHHHH--hhC-CCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          138 DLAVMERDAL--RMR-DGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       138 ~~~~~~~~l~--~~~-p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      ...++...++  ... ...+++++||++|.|+++++++|.+
T Consensus       121 ~~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~gv~~~~~~l~~  161 (162)
T cd04157         121 TAVKITQLLGLENIKDKPWHIFASNALTGEGLDEGVQWLQA  161 (162)
T ss_pred             CHHHHHHHhCCccccCceEEEEEeeCCCCCchHHHHHHHhc
Confidence            3333333332  111 1236899999999999999999864

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

>cd04154 Arl2 Arl2 subfamily

Probab=98.75  E-value=1.9e-08  Score=76.18  Aligned_cols=101  Identities=16%  Similarity=0.139  Sum_probs=66.6

Q ss_pred             CCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ++.+.+++|+|..--.   ...+..+|.+++|+|++.......         ........+.++|+||+|+.+.  ...+
T Consensus        57 ~~~l~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~--~~~~  134 (173)
T cd04154          57 GYKLNIWDVGGQKTLRPYWRNYFESTDALIWVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGA--LSEE  134 (173)
T ss_pred             CEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccC--CCHH
Confidence            5678999999931101   112346899999999987532110         0111134588999999999765  3344


Q ss_pred             HHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          141 VMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       141 ~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      ++.+.++..   ....+++++||++|.|++++++++..
T Consensus       135 ~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~  172 (173)
T cd04154         135 EIREALELDKISSHHWRIQPCSAVTGEGLLQGIDWLVD  172 (173)
T ss_pred             HHHHHhCccccCCCceEEEeccCCCCcCHHHHHHHHhc
Confidence            444444321   23468999999999999999998753

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.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.75  E-value=4.4e-08  Score=73.39  Aligned_cols=79  Identities=16%  Similarity=0.046  Sum_probs=55.0

Q ss_pred             ceEEEEEeCCCCCCCccC-----CCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHH
Q 029893           96 DYIIYIIDVSGGDKIPRK-----GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIV  170 (186)
Q Consensus        96 d~~v~VvDa~~~~~~~~~-----~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~  170 (186)
                      |++++|+|+..+......     .......+.++|+||+|+.++  .+.......+++.. ..+++++||++|.|+++|.
T Consensus         1 Dvvl~VvD~~~p~~~~~~~i~~~~~~~~~~p~IiVlNK~Dl~~~--~~~~~~~~~~~~~~-~~~ii~vSa~~~~gi~~L~   77 (155)
T cd01849           1 DVILEVLDARDPLGTRSPDIERVLIKEKGKKLILVLNKADLVPK--EVLRKWLAYLRHSY-PTIPFKISATNGQGIEKKE   77 (155)
T ss_pred             CEEEEEEeccCCccccCHHHHHHHHhcCCCCEEEEEechhcCCH--HHHHHHHHHHHhhC-CceEEEEeccCCcChhhHH
Confidence            678999999775432211     112235689999999999865  44433333344333 4679999999999999999


Q ss_pred             HHHHHHH
Q 029893          171 NHILQAW  177 (186)
Q Consensus       171 ~~i~~~~  177 (186)
                      +.+.+..
T Consensus        78 ~~i~~~~   84 (155)
T cd01849          78 SAFTKQT   84 (155)
T ss_pred             HHHHHHh
Confidence            9887653

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.

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

Probab=98.74  E-value=2.8e-08  Score=73.07  Aligned_cols=97  Identities=25%  Similarity=0.323  Sum_probs=67.1

Q ss_pred             cCCcEEEEecCCCeeE-Ee----------eeeecCceEEEEEeCCCCCCCcc--CCCCCCCceeEEEEecCCCCCccccc
Q 029893           72 FKADLLLCESGGDNLA-AN----------FSRELADYIIYIIDVSGGDKIPR--KGGPGITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~-~~----------~~~~~ad~~v~VvDa~~~~~~~~--~~~~~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      .+..+.+++|+|..-. ..          .....+|++++|+|+........  .+......+.++|+||+|+.+.  ..
T Consensus        47 ~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~d~~~~~~~~~~~~~~~~~~~~vi~v~nK~D~~~~--~~  124 (157)
T cd04164          47 GGIPVRLIDTAGIRETEDEIEKIGIERAREAIEEADLVLFVIDASRGLDEEDLEILELPADKPIIVVLNKSDLLPD--SE  124 (157)
T ss_pred             CCEEEEEEECCCcCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCCCHHHHHHHHhhcCCCEEEEEEchhcCCc--cc
Confidence            3567899999994211 10          01234799999999986443211  1111345789999999999876  33


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      .       .......+++++||+++.|+++|++++.+.+
T Consensus       125 ~-------~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~  156 (157)
T cd04164         125 L-------LSLLAGKPIIAISAKTGEGLDELKEALLELA  156 (157)
T ss_pred             c-------ccccCCCceEEEECCCCCCHHHHHHHHHHhh
Confidence            2       2233457999999999999999999988754

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.

>cd04151 Arl1 Arl1 subfamily

Probab=98.73  E-value=1.6e-08  Score=75.42  Aligned_cols=102  Identities=17%  Similarity=0.200  Sum_probs=65.4

Q ss_pred             cCCcEEEEecCCCe-eE--EeeeeecCceEEEEEeCCCCCCCc---c------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDN-LA--ANFSRELADYIIYIIDVSGGDKIP---R------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~--~~~~~~~ad~~v~VvDa~~~~~~~---~------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+..+.|++|+|.. ..  ....+..+|.+++|+|+++.....   .      .....-..+.++|+||+|+.+.  ...
T Consensus        41 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~--~~~  118 (158)
T cd04151          41 KNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVDSTDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGA--LSE  118 (158)
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCC--CCH
Confidence            35778999999931 10  111234689999999998743211   0      0011124689999999999765  233


Q ss_pred             HHHHHHHHhhC---CCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          140 AVMERDALRMR---DGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       140 ~~~~~~l~~~~---p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      .++...+....   ...+++++||++|.|++++++++.+
T Consensus       119 ~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  157 (158)
T cd04151         119 AEISEKLGLSELKDRTWSIFKTSAIKGEGLDEGMDWLVN  157 (158)
T ss_pred             HHHHHHhCccccCCCcEEEEEeeccCCCCHHHHHHHHhc
Confidence            33433332111   1247999999999999999999864

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.

>PRK09866 hypothetical protein; Provisional

Probab=98.73  E-value=2.8e-08  Score=88.97  Aligned_cols=103  Identities=13%  Similarity=0.076  Sum_probs=68.9

Q ss_pred             CCcEEEEecCCCeeEE-e-e------eeecCceEEEEEeCCCCCCCcc----CCCCCCC--ceeEEEEecCCCCCccccc
Q 029893           73 KADLLLCESGGDNLAA-N-F------SRELADYIIYIIDVSGGDKIPR----KGGPGIT--QADLLVINKTDLASAIGAD  138 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~-~-~------~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~--~adiivlNK~Dl~~~~~~~  138 (186)
                      ...+|||+|+|+.-.. . +      ....+|++++|+|+..+.....    +......  .+.++|+||+|+.+.....
T Consensus       229 ~~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~DeeIlk~Lkk~~K~~PVILVVNKIDl~dreedd  308 (741)
T PRK09866        229 PGQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISDEEVREAILAVGQSVPLYVLVNKFDQQDRNSDD  308 (741)
T ss_pred             cCCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhHHHHHHHHHhcCCCCCEEEEEEcccCCCcccch
Confidence            4789999999963211 1 1      1235799999999987432111    1112223  3889999999997532122


Q ss_pred             HHHHHHHHHh-----hCCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          139 LAVMERDALR-----MRDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       139 ~~~~~~~l~~-----~~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      .+.+...++.     ..+...|+++||++|.|++.|++.+.+
T Consensus       309 kE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~  350 (741)
T PRK09866        309 ADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELAN  350 (741)
T ss_pred             HHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHh
Confidence            4444444432     335789999999999999999999987

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=98.72  E-value=6.3e-08  Score=75.33  Aligned_cols=109  Identities=19%  Similarity=0.146  Sum_probs=71.3

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc------------CCCCCCCceeEEEEecCCCCCccc
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR------------KGGPGITQADLLVINKTDLASAIG  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~------------~~~~~~~~adiivlNK~Dl~~~~~  136 (186)
                      ....+.|.+|+|..--   .+..+..++.+++|+|.+.......            .....-..|.++|+||+|+.+...
T Consensus        48 ~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~  127 (201)
T cd04107          48 TVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLA  127 (201)
T ss_pred             CEEEEEEEECCCchhhhhhHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccc
Confidence            3567889999993100   1122356899999999987532110            111123457899999999974321


Q ss_pred             ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          137 ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       137 ~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      ...+++.+..+.. ...+++++||++|.|++++++++.+.+....
T Consensus       128 ~~~~~~~~~~~~~-~~~~~~e~Sak~~~~v~e~f~~l~~~l~~~~  171 (201)
T cd04107         128 KDGEQMDQFCKEN-GFIGWFETSAKEGINIEEAMRFLVKNILAND  171 (201)
T ss_pred             cCHHHHHHHHHHc-CCceEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            3344454444443 3368999999999999999999998765543

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.

>cd04136 Rap_like Rap-like subfamily

Probab=98.72  E-value=7.9e-08  Score=71.46  Aligned_cols=102  Identities=14%  Similarity=0.142  Sum_probs=64.3

Q ss_pred             CCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      .+.+-|.+|+|..--.   ...+..+|.+++|+|.++.....         ......-..|.++|+||+|+.+......+
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~  127 (163)
T cd04136          48 QCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVYSITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVSRE  127 (163)
T ss_pred             EEEEEEEECCCccccchHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceecHH
Confidence            4556789999931101   12234579999999987643211         01111124578999999999764212222


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      ......+..+  .+++++||++|.|++++++++.+.
T Consensus       128 ~~~~~~~~~~--~~~~~~Sa~~~~~v~~l~~~l~~~  161 (163)
T cd04136         128 EGQALARQWG--CPFYETSAKSKINVDEVFADLVRQ  161 (163)
T ss_pred             HHHHHHHHcC--CeEEEecCCCCCCHHHHHHHHHHh
Confidence            2222223332  689999999999999999998764

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.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=98.71  E-value=3.6e-08  Score=74.98  Aligned_cols=102  Identities=21%  Similarity=0.175  Sum_probs=66.4

Q ss_pred             cCCcEEEEecCCCe-eE--EeeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDN-LA--ANFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~--~~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+..+.+++++|.. ..  ....+..+|.+++|+|+++......         .....-..+.++++||+|+.+.  ...
T Consensus        57 ~~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~~--~~~  134 (174)
T cd04153          57 KNIRFLMWDIGGQESLRSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKGA--MTP  134 (174)
T ss_pred             CCeEEEEEECCCCHHHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCCC--CCH
Confidence            36789999999931 10  1122356899999999987543210         0111124578999999999764  233


Q ss_pred             HHHHHHHHh---hCCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          140 AVMERDALR---MRDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       140 ~~~~~~l~~---~~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      +++.+.+..   .+...+++++||++|.|+++++++|.+
T Consensus       135 ~~i~~~l~~~~~~~~~~~~~~~SA~~g~gi~e~~~~l~~  173 (174)
T cd04153         135 AEISESLGLTSIRDHTWHIQGCCALTGEGLPEGLDWIAS  173 (174)
T ss_pred             HHHHHHhCcccccCCceEEEecccCCCCCHHHHHHHHhc
Confidence            444444321   122347999999999999999999864

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.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=98.69  E-value=9.5e-08  Score=71.27  Aligned_cols=105  Identities=16%  Similarity=0.152  Sum_probs=67.0

Q ss_pred             CCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCc--cC-------CCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIP--RK-------GGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~--~~-------~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ...+-+++|+|..--.   ...+..+|.+++|+|+.+.....  ..       .......|.++|+||+|+.+......+
T Consensus        47 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~~~  126 (164)
T smart00173       47 VCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVSTE  126 (164)
T ss_pred             EEEEEEEECCCcccchHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceEcHH
Confidence            4567789999931100   11223578999999998743211  00       011124578999999999764212223


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ......+..  ..+++++||++|.|++++++++.+.+..
T Consensus       127 ~~~~~~~~~--~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  163 (164)
T smart00173      127 EGKELARQW--GCPFLETSAKERVNVDEAFYDLVREIRK  163 (164)
T ss_pred             HHHHHHHHc--CCEEEEeecCCCCCHHHHHHHHHHHHhh
Confidence            333333433  3799999999999999999999877653

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

>cd04126 Rab20 Rab20 subfamily

Probab=98.68  E-value=1.2e-07  Score=75.34  Aligned_cols=107  Identities=16%  Similarity=0.097  Sum_probs=68.3

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--C-C-----CCCCCceeEEEEecCCCCC--------
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--K-G-----GPGITQADLLVINKTDLAS--------  133 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~-~-----~~~~~~adiivlNK~Dl~~--------  133 (186)
                      .+.+.|.+|+|-..-   .+..+..+|.+|+|+|+++......  . +     ...-..+.++|.||+||.+        
T Consensus        43 ~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~  122 (220)
T cd04126          43 PYNISIWDTAGREQFHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQE  122 (220)
T ss_pred             EEEEEEEeCCCcccchhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccccccccccc
Confidence            567889999993110   1122456899999999987532110  0 0     0112347899999999975        


Q ss_pred             -----------cccccHHHHHHHHHhhCC------------CCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          134 -----------AIGADLAVMERDALRMRD------------GGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       134 -----------~~~~~~~~~~~~l~~~~p------------~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                                 ......++.....++.+.            ..+++++||++|.|++++|..+.+....
T Consensus       123 ~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~~~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~~~~~~  191 (220)
T cd04126         123 KDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCFETSAKTGYNVDELFEYLFNLVLP  191 (220)
T ss_pred             ccccccccccccccCCHHHHHHHHHHhCccccccccccccccceEEEeeCCCCCCHHHHHHHHHHHHHH
Confidence                       111123344444444331            2589999999999999999998865543

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=98.67  E-value=4.6e-08  Score=72.64  Aligned_cols=105  Identities=14%  Similarity=0.136  Sum_probs=67.2

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCC------ccC---CCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKI------PRK---GGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~------~~~---~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ..+.+.+++|+|...-   .+.....++.+++++|..+....      ...   .......+.++|+||+|+.+......
T Consensus        46 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~  125 (164)
T cd04139          46 EDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVFSITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLEDKRQVSS  125 (164)
T ss_pred             EEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEccccccccccCH
Confidence            3567889999992100   01122346888999998764311      001   11124568899999999976311233


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .......+..  ..+++++||++|+|++++++++.+.+.
T Consensus       126 ~~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~~~~  162 (164)
T cd04139         126 EEAANLARQW--GVPYVETSAKTRQNVEKAFYDLVREIR  162 (164)
T ss_pred             HHHHHHHHHh--CCeEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            3333333433  368999999999999999999987664

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

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=98.67  E-value=6.7e-08  Score=81.18  Aligned_cols=101  Identities=22%  Similarity=0.318  Sum_probs=68.1

Q ss_pred             CcEEEEecCCCeeEE--------ee--eeecCceEEEEEeCCCCC--CCc----------cCCCC-CCCceeEEEEecCC
Q 029893           74 ADLLLCESGGDNLAA--------NF--SRELADYIIYIIDVSGGD--KIP----------RKGGP-GITQADLLVINKTD  130 (186)
Q Consensus        74 ~D~iiIEtsG~~l~~--------~~--~~~~ad~~v~VvDa~~~~--~~~----------~~~~~-~~~~adiivlNK~D  130 (186)
                      ..+.|++++|+.-.+        .|  .++.++++++|+|++..+  +..          ..+.. ....+.++|+||+|
T Consensus       205 ~~~~i~D~PGli~~a~~~~gLg~~flrhierad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~D  284 (329)
T TIGR02729       205 RSFVIADIPGLIEGASEGAGLGHRFLKHIERTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKID  284 (329)
T ss_pred             eEEEEEeCCCcccCCcccccHHHHHHHHHHhhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCcc
Confidence            678999999941000        01  122478999999998642  110          11211 23568999999999


Q ss_pred             CCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          131 LASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       131 l~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      +.++  ...+...+.+.+.. ..+++++||++++|++++++++.+.+
T Consensus       285 L~~~--~~~~~~~~~l~~~~-~~~vi~iSAktg~GI~eL~~~I~~~l  328 (329)
T TIGR02729       285 LLDE--EELAELLKELKKAL-GKPVFPISALTGEGLDELLYALAELL  328 (329)
T ss_pred             CCCh--HHHHHHHHHHHHHc-CCcEEEEEccCCcCHHHHHHHHHHHh
Confidence            9876  44555555554333 25899999999999999999998765

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.

>cd04142 RRP22 RRP22 subfamily

Probab=98.65  E-value=1.9e-07  Score=72.93  Aligned_cols=106  Identities=13%  Similarity=0.006  Sum_probs=67.0

Q ss_pred             CCcEEEEecCCCee----EEe-------eeeecCceEEEEEeCCCCCCCcc--C-------CC--CCCCceeEEEEecCC
Q 029893           73 KADLLLCESGGDNL----AAN-------FSRELADYIIYIIDVSGGDKIPR--K-------GG--PGITQADLLVINKTD  130 (186)
Q Consensus        73 ~~D~iiIEtsG~~l----~~~-------~~~~~ad~~v~VvDa~~~~~~~~--~-------~~--~~~~~adiivlNK~D  130 (186)
                      .+.+.|+||+|..-    ...       ..+..+|++++|+|+++......  .       ..  ..-..|.++|.||+|
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~D  127 (198)
T cd04142          48 VYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRD  127 (198)
T ss_pred             EEEEEEEeCCCcccCCccchhHHHHHHHhhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECcc
Confidence            46788999999420    000       11345799999999987643210  0       00  012358899999999


Q ss_pred             CCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          131 LASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       131 l~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      +........+...+..++. ...+++++||++|.|++++|+.+.+..-.
T Consensus       128 l~~~~~~~~~~~~~~~~~~-~~~~~~e~Sak~g~~v~~lf~~i~~~~~~  175 (198)
T cd04142         128 QQRHRFAPRHVLSVLVRKS-WKCGYLECSAKYNWHILLLFKELLISATT  175 (198)
T ss_pred             ccccccccHHHHHHHHHHh-cCCcEEEecCCCCCCHHHHHHHHHHHhhc
Confidence            9654212222232222222 25799999999999999999988865443

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.

>cd04120 Rab12 Rab12 subfamily

Probab=98.64  E-value=1e-07  Score=74.72  Aligned_cols=105  Identities=22%  Similarity=0.183  Sum_probs=67.5

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc--CC------CCCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR--KG------GPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~--~~------~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+-|.+|+|..- .  .+..++.+|.+++|+|.++......  .+      ...-..+.++|.||+||.+......+.
T Consensus        48 ~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~~  127 (202)
T cd04120          48 KIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREISRQQ  127 (202)
T ss_pred             EEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHH
Confidence            57788999999310 0  1123457899999999988643211  00      001235789999999997542112222


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ..+..++. ...+++++||++|.|++++|+++.+.+.
T Consensus       128 ~~~~a~~~-~~~~~~etSAktg~gV~e~F~~l~~~~~  163 (202)
T cd04120         128 GEKFAQQI-TGMRFCEASAKDNFNVDEIFLKLVDDIL  163 (202)
T ss_pred             HHHHHHhc-CCCEEEEecCCCCCCHHHHHHHHHHHHH
Confidence            33333332 2368999999999999999999987653

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

>cd04175 Rap1 Rap1 subgroup

Probab=98.64  E-value=1.6e-07  Score=70.16  Aligned_cols=103  Identities=14%  Similarity=0.127  Sum_probs=65.2

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      .+.+-|.+|+|..- .  .+..+..+|.+++|+|.+......         ......-..|.++++||+|+.+......+
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~  127 (164)
T cd04175          48 QCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKE  127 (164)
T ss_pred             EEEEEEEECCCcccchhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEcHH
Confidence            45667899999311 0  011234579999999987643211         01111123588999999999764222223


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ......++.+  .+++++||++|.|+++++.++.+.+
T Consensus       128 ~~~~~~~~~~--~~~~~~Sa~~~~~v~~~~~~l~~~l  162 (164)
T cd04175         128 QGQNLARQWG--CAFLETSAKAKINVNEIFYDLVRQI  162 (164)
T ss_pred             HHHHHHHHhC--CEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            3333333332  5899999999999999999998754

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

>cd01863 Rab18 Rab18 subfamily

Probab=98.64  E-value=1.1e-07  Score=70.64  Aligned_cols=101  Identities=19%  Similarity=0.153  Sum_probs=67.2

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ...+.++||+|..--   ....+..+|.+++|+|.++.....         ..+...-..+.++|+||+|+.... ...+
T Consensus        48 ~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~~~-~~~~  126 (161)
T cd01863          48 KVKLAIWDTAGQERFRTLTSSYYRGAQGVILVYDVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKENRE-VTRE  126 (161)
T ss_pred             EEEEEEEECCCchhhhhhhHHHhCCCCEEEEEEECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCcccccc-cCHH
Confidence            467899999993110   111234579999999987653211         112223345789999999998431 2334


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      ...+..+..  ..+++++||++|.|++++++++.+.
T Consensus       127 ~~~~~~~~~--~~~~~~~Sa~~~~gi~~~~~~~~~~  160 (161)
T cd01863         127 EGLKFARKH--NMLFIETSAKTRDGVQQAFEELVEK  160 (161)
T ss_pred             HHHHHHHHc--CCEEEEEecCCCCCHHHHHHHHHHh
Confidence            444444433  4689999999999999999988754

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

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

Probab=98.63  E-value=5.1e-08  Score=73.60  Aligned_cols=103  Identities=12%  Similarity=-0.038  Sum_probs=66.8

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--CCCCC----C-CceeEEEEecCCCCCcccccHHH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--KGGPG----I-TQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~~~~~----~-~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ....+.+.+|+|...-   ....+..+|.+|+|+|.++......  .+...    . ..|.++|.||+|+...  .....
T Consensus        47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~piiiv~nK~Dl~~~--~~~~~  124 (166)
T cd00877          47 GKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMFDVTSRVTYKNVPNWHRDLVRVCGNIPIVLCGNKVDIKDR--KVKAK  124 (166)
T ss_pred             EEEEEEEEECCCChhhccccHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCcEEEEEEchhcccc--cCCHH
Confidence            4578899999993110   1112235799999999987643211  11000    1 5688999999999744  22122


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ..+..+ . ...+++++||++|.|++++++++.+.+.
T Consensus       125 ~~~~~~-~-~~~~~~e~Sa~~~~~v~~~f~~l~~~~~  159 (166)
T cd00877         125 QITFHR-K-KNLQYYEISAKSNYNFEKPFLWLARKLL  159 (166)
T ss_pred             HHHHHH-H-cCCEEEEEeCCCCCChHHHHHHHHHHHH
Confidence            222222 2 2468999999999999999999987654

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=98.63  E-value=1e-07  Score=70.87  Aligned_cols=104  Identities=13%  Similarity=0.085  Sum_probs=67.5

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc---------cCCCC----CCCceeEEEEecCCCCCcc
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP---------RKGGP----GITQADLLVINKTDLASAI  135 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~----~~~~adiivlNK~Dl~~~~  135 (186)
                      ....+-|.+|+|..-   ..+..+..+|.+++|+|+++.....         ..+..    ....+.++|+||+|+.++.
T Consensus        47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  126 (168)
T cd04119          47 KEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHR  126 (168)
T ss_pred             eEEEEEEEECCccHHHHHHHHHHhccCCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhccccc
Confidence            357788999999310   0112234689999999998753211         01111    1345789999999997432


Q ss_pred             cccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          136 GADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       136 ~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ....+......++..  .+++++||++|.|++++++++.+.+
T Consensus       127 ~~~~~~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~l~~~l  166 (168)
T cd04119         127 AVSEDEGRLWAESKG--FKYFETSACTGEGVNEMFQTLFSSI  166 (168)
T ss_pred             ccCHHHHHHHHHHcC--CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            123344444444432  6899999999999999999987654

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

>cd01864 Rab19 Rab19 subfamily

Probab=98.63  E-value=8.7e-08  Score=71.79  Aligned_cols=103  Identities=16%  Similarity=0.050  Sum_probs=66.4

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--CC------CCCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--KG------GPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~~------~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+.|.||+|-..-   ....+..+|.+++|+|+++......  .+      ......+.++|+||+|+.+......+.
T Consensus        51 ~~~l~i~D~~G~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~  130 (165)
T cd01864          51 RVKLQIWDTAGQERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQREVLFEE  130 (165)
T ss_pred             EEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHH
Confidence            367899999992100   0112345799999999987532111  11      011234789999999997652223333


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      ..+..+. ....+++++||++|.|++++++++.+.
T Consensus       131 ~~~~~~~-~~~~~~~e~Sa~~~~~v~~~~~~l~~~  164 (165)
T cd01864         131 ACTLAEK-NGMLAVLETSAKESQNVEEAFLLMATE  164 (165)
T ss_pred             HHHHHHH-cCCcEEEEEECCCCCCHHHHHHHHHHh
Confidence            3333333 334578999999999999999998764

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.

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=98.63  E-value=8.6e-08  Score=71.86  Aligned_cols=102  Identities=15%  Similarity=0.142  Sum_probs=64.0

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc---c------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP---R------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~---~------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ....+.+.+|+|...-   .+..+..+|.+++|+|+++.....   .      .....-..+.++++||+|+.+.  ...
T Consensus        42 ~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~  119 (159)
T cd04150          42 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNA--MSA  119 (159)
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCC--CCH
Confidence            3567889999993110   111245689999999998743211   0      0001113578999999999754  233


Q ss_pred             HHHHHHHH--hh-CCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          140 AVMERDAL--RM-RDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       140 ~~~~~~l~--~~-~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      +++...+.  .. .....++++||++|.|+++++++|.+
T Consensus       120 ~~i~~~~~~~~~~~~~~~~~~~Sak~g~gv~~~~~~l~~  158 (159)
T cd04150         120 AEVTDKLGLHSLRNRNWYIQATCATSGDGLYEGLDWLSN  158 (159)
T ss_pred             HHHHHHhCccccCCCCEEEEEeeCCCCCCHHHHHHHHhc
Confidence            33333331  11 12346789999999999999999864

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

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

Probab=98.63  E-value=1.4e-07  Score=71.95  Aligned_cols=104  Identities=15%  Similarity=0.148  Sum_probs=65.6

Q ss_pred             cCCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc------CC-CC-C-CCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR------KG-GP-G-ITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~------~~-~~-~-~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ....+.|.+|+|..--.   ...+..+|.+|+|+|+++......      .. .. . -..+.++|+||+|+.+.  ...
T Consensus        55 ~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~--~~~  132 (175)
T smart00177       55 KNISFTVWDVGGQDKIRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDA--MKA  132 (175)
T ss_pred             CCEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccC--CCH
Confidence            46789999999931000   112456899999999987532110      00 01 1 13478999999999754  223


Q ss_pred             HHHHHHHHh--h-CCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          140 AVMERDALR--M-RDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       140 ~~~~~~l~~--~-~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      +++...+.-  . .....++++||++|.|+++++++|.+.+
T Consensus       133 ~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~~  173 (175)
T smart00177      133 AEITEKLGLHSIRDRNWYIQPTCATSGDGLYEGLTWLSNNL  173 (175)
T ss_pred             HHHHHHhCccccCCCcEEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            333333221  1 1223577899999999999999998764

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).

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

Probab=98.62  E-value=6.9e-08  Score=72.58  Aligned_cols=102  Identities=23%  Similarity=0.260  Sum_probs=67.0

Q ss_pred             CCcEEEEecCCCeeEE--------ee--eeecCceEEEEEeCCCCC-----CCcc----------CCCC------CCCce
Q 029893           73 KADLLLCESGGDNLAA--------NF--SRELADYIIYIIDVSGGD-----KIPR----------KGGP------GITQA  121 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~--------~~--~~~~ad~~v~VvDa~~~~-----~~~~----------~~~~------~~~~a  121 (186)
                      +..+.|++|+|.....        .+  .+..+|.+++|+|+....     ....          .+..      ....+
T Consensus        43 ~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p  122 (176)
T cd01881          43 GARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKP  122 (176)
T ss_pred             CCeEEEEeccccchhhhcCCCccHHHHHHHhccCEEEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCC
Confidence            6778999999941100        01  123479999999998763     1100          0111      13568


Q ss_pred             eEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          122 DLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       122 diivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      .++|+||+|+.+.  .................+++++||++|.|++++++++...
T Consensus       123 ~ivv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gl~~l~~~l~~~  175 (176)
T cd01881         123 VIYVLNKIDLDDA--EELEEELVRELALEEGAEVVPISAKTEEGLDELIRAIYEL  175 (176)
T ss_pred             eEEEEEchhcCch--hHHHHHHHHHHhcCCCCCEEEEehhhhcCHHHHHHHHHhh
Confidence            9999999999876  3333322122333355789999999999999999988654

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

>cd01892 Miro2 Miro2 subfamily

Probab=98.62  E-value=5.4e-08  Score=73.73  Aligned_cols=103  Identities=19%  Similarity=0.078  Sum_probs=63.4

Q ss_pred             CcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc------CCCCCCCceeEEEEecCCCCCcccccHHHHHH
Q 029893           74 ADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVMER  144 (186)
Q Consensus        74 ~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~------~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~  144 (186)
                      ..+.+-|+.|-..   ..+..+..+|++++|+|+++......      .....-..|.++|+||+|+.+.......... 
T Consensus        54 ~~l~~~d~~g~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~~~~~~~~~-  132 (169)
T cd01892          54 KYLILREVGEDEVAILLNDAELAACDVACLVYDSSDPKSFSYCAEVYKKYFMLGEIPCLFVAAKADLDEQQQRYEVQPD-  132 (169)
T ss_pred             EEEEEEecCCcccccccchhhhhcCCEEEEEEeCCCHHHHHHHHHHHHHhccCCCCeEEEEEEcccccccccccccCHH-
Confidence            4566778888311   11223456899999999977533211      1111124689999999999754211111122 


Q ss_pred             HHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          145 DALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       145 ~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      .+.+.....+++++||++|.|++++++.+.+..
T Consensus       133 ~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~  165 (169)
T cd01892         133 EFCRKLGLPPPLHFSSKLGDSSNELFTKLATAA  165 (169)
T ss_pred             HHHHHcCCCCCEEEEeccCccHHHHHHHHHHHh
Confidence            222223233568999999999999999988764

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.

>cd01878 HflX HflX subfamily

Probab=98.62  E-value=1.4e-07  Score=73.28  Aligned_cols=96  Identities=24%  Similarity=0.282  Sum_probs=63.6

Q ss_pred             CcEEEEecCCCeeEEe------e-----eeecCceEEEEEeCCCCCCCcc-----CCC---CCCCceeEEEEecCCCCCc
Q 029893           74 ADLLLCESGGDNLAAN------F-----SRELADYIIYIIDVSGGDKIPR-----KGG---PGITQADLLVINKTDLASA  134 (186)
Q Consensus        74 ~D~iiIEtsG~~l~~~------~-----~~~~ad~~v~VvDa~~~~~~~~-----~~~---~~~~~adiivlNK~Dl~~~  134 (186)
                      ..+.|+||+|..-..+      +     ....+|.+++|+|+++......     .+.   ..-..+.++|+||+|+.+.
T Consensus        89 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~  168 (204)
T cd01878          89 REVLLTDTVGFIRDLPHQLVEAFRSTLEEVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDD  168 (204)
T ss_pred             ceEEEeCCCccccCCCHHHHHHHHHHHHHHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCCh
Confidence            4899999999310000      1     1234799999999987543211     111   1123578999999999876


Q ss_pred             ccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          135 IGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       135 ~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                        ....   ....  ....+++++||++|.|++++++++.+.
T Consensus       169 --~~~~---~~~~--~~~~~~~~~Sa~~~~gi~~l~~~L~~~  203 (204)
T cd01878         169 --EELE---ERLE--AGRPDAVFISAKTGEGLDELLEAIEEL  203 (204)
T ss_pred             --HHHH---HHhh--cCCCceEEEEcCCCCCHHHHHHHHHhh
Confidence              3322   2222  345689999999999999999998764

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.

>cd04110 Rab35 Rab35 subfamily

Probab=98.62  E-value=2e-07  Score=72.50  Aligned_cols=108  Identities=18%  Similarity=0.124  Sum_probs=68.9

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--CCC----C-CCCceeEEEEecCCCCCcccccHHHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--KGG----P-GITQADLLVINKTDLASAIGADLAVM  142 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~~~----~-~~~~adiivlNK~Dl~~~~~~~~~~~  142 (186)
                      ...+.|++|+|...-   ....+..++.+++|+|+++......  .+.    . .-..+.++|+||+|+.+......+..
T Consensus        54 ~~~l~l~D~~G~~~~~~~~~~~~~~a~~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~piivVgNK~Dl~~~~~~~~~~~  133 (199)
T cd04110          54 RVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNCDDVCKVLVGNKNDDPERKVVETEDA  133 (199)
T ss_pred             EEEEEEEeCCCchhHHHHHHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccccccccCHHHH
Confidence            356788999993110   1112345789999999987543210  010    0 01247799999999976421222333


Q ss_pred             HHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          143 ERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       143 ~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      ....+..+  .+++++||++|.|++++++++.+.+-..+.
T Consensus       134 ~~~~~~~~--~~~~e~Sa~~~~gi~~lf~~l~~~~~~~~~  171 (199)
T cd04110         134 YKFAGQMG--ISLFETSAKENINVEEMFNCITELVLRAKK  171 (199)
T ss_pred             HHHHHHcC--CEEEEEECCCCcCHHHHHHHHHHHHHHhhh
Confidence            33334433  689999999999999999999887765443

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

>PLN00223 ADP-ribosylation factor; Provisional

Probab=98.62  E-value=1.3e-07  Score=72.57  Aligned_cols=105  Identities=14%  Similarity=0.138  Sum_probs=67.8

Q ss_pred             cCCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc------CC--CCC-CCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR------KG--GPG-ITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~------~~--~~~-~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+..+.+.+++|-.--.   +..+..+|.+|+|+|+++.+....      ..  ... -..+-++++||+|+...  ...
T Consensus        59 ~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~--~~~  136 (181)
T PLN00223         59 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNA  136 (181)
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCC--CCH
Confidence            46788999999921000   112456899999999987543210      01  011 13578999999999765  444


Q ss_pred             HHHHHHHHhhC--CC-CCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          140 AVMERDALRMR--DG-GPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       140 ~~~~~~l~~~~--p~-a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      +++.+.+.-.+  +. ..++++||++|+|+++++++|.+.+.
T Consensus       137 ~~~~~~l~l~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~~~  178 (181)
T PLN00223        137 AEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA  178 (181)
T ss_pred             HHHHHHhCccccCCCceEEEeccCCCCCCHHHHHHHHHHHHh
Confidence            55554443111  11 24668999999999999999987653

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=98.61  E-value=4.6e-08  Score=85.52  Aligned_cols=104  Identities=13%  Similarity=0.178  Sum_probs=67.9

Q ss_pred             CcEEEEecCCCe-eEEee--eeecCceEEEEEeCCCC-CCCcc-CC---CCCCCc-eeEEEEecCCCCCcccccHHHHHH
Q 029893           74 ADLLLCESGGDN-LAANF--SRELADYIIYIIDVSGG-DKIPR-KG---GPGITQ-ADLLVINKTDLASAIGADLAVMER  144 (186)
Q Consensus        74 ~D~iiIEtsG~~-l~~~~--~~~~ad~~v~VvDa~~~-~~~~~-~~---~~~~~~-adiivlNK~Dl~~~~~~~~~~~~~  144 (186)
                      ..+.||+|+|-. ...+.  ....+|.+++|+|+.++ ...+. .+   ...+.. +-++++||+|+++.  ...++..+
T Consensus       117 ~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~lgi~~iIVvlNKiDlv~~--~~~~~~~~  194 (460)
T PTZ00327        117 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEIMKLKHIIILQNKIDLVKE--AQAQDQYE  194 (460)
T ss_pred             ceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHHHHcCCCcEEEEEecccccCH--HHHHHHHH
Confidence            357899999921 00111  11246999999999875 22221 11   112333 35789999999875  44444444


Q ss_pred             HHHhh-----CCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          145 DALRM-----RDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       145 ~l~~~-----~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      .+++.     ....+++++||++|.|++.|+++|.+.+|.
T Consensus       195 ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~lp~  234 (460)
T PTZ00327        195 EIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQIPI  234 (460)
T ss_pred             HHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhCCC
Confidence            44332     246799999999999999999999976654

>cd01856 YlqF YlqF

Probab=98.61  E-value=2.5e-07  Score=70.38  Aligned_cols=82  Identities=20%  Similarity=0.198  Sum_probs=56.3

Q ss_pred             ecCceEEEEEeCCCCCCCcc-CCCCC-CCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHH
Q 029893           93 ELADYIIYIIDVSGGDKIPR-KGGPG-ITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIV  170 (186)
Q Consensus        93 ~~ad~~v~VvDa~~~~~~~~-~~~~~-~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~  170 (186)
                      ..+|++++|+|+..+..... ..... ...+.++|+||+|+.++  .......+.++..  ..+++.+||+++.|++++.
T Consensus        18 ~~aD~il~v~D~~~~~~~~~~~i~~~~~~k~~ilVlNK~Dl~~~--~~~~~~~~~~~~~--~~~vi~iSa~~~~gi~~L~   93 (171)
T cd01856          18 KLVDLVIEVRDARIPLSSRNPLLEKILGNKPRIIVLNKADLADP--KKTKKWLKYFESK--GEKVLFVNAKSGKGVKKLL   93 (171)
T ss_pred             hhCCEEEEEeeccCccCcCChhhHhHhcCCCEEEEEehhhcCCh--HHHHHHHHHHHhc--CCeEEEEECCCcccHHHHH
Confidence            35799999999976543221 11111 24578999999999755  3333333333332  3478999999999999999


Q ss_pred             HHHHHHHH
Q 029893          171 NHILQAWE  178 (186)
Q Consensus       171 ~~i~~~~~  178 (186)
                      +.+.+.++
T Consensus        94 ~~l~~~l~  101 (171)
T cd01856          94 KAAKKLLK  101 (171)
T ss_pred             HHHHHHHH
Confidence            99998764

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.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=98.61  E-value=6.3e-08  Score=71.97  Aligned_cols=101  Identities=19%  Similarity=0.211  Sum_probs=64.5

Q ss_pred             CCcEEEEecCCCee-EE--eeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNL-AA--NFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~~--~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      +..+.+.+|+|..- ..  ...+..+|.+++|+|+++......         .....-..+.++|+||+|+...  ...+
T Consensus        43 ~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~  120 (160)
T cd04156          43 HLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGA--LTAE  120 (160)
T ss_pred             ceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccccC--cCHH
Confidence            46788999999311 00  112345799999999987542110         0111124689999999999654  2333


Q ss_pred             HHHHHHH--hhC--CCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          141 VMERDAL--RMR--DGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       141 ~~~~~l~--~~~--p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      ++...++  ...  +..+++++||++|+|+++++++|.+
T Consensus       121 ~i~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~i~~  159 (160)
T cd04156         121 EITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEAFRKLAS  159 (160)
T ss_pred             HHHHHcCCcccCCCCcEEEEecccccCCChHHHHHHHhc
Confidence            4433332  111  2347999999999999999998864

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

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

Probab=98.61  E-value=9.9e-08  Score=73.33  Aligned_cols=103  Identities=17%  Similarity=0.082  Sum_probs=67.5

Q ss_pred             cCCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .++.+.+++++|..-..   ...+..+|.+++|+|+++.+....         .....-..+.++|+||+|+...  ...
T Consensus        59 ~~~~~~~~D~~G~~~~~~~~~~~~~~ad~ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~--~~~  136 (184)
T smart00178       59 GNIKFTTFDLGGHQQARRLWKDYFPEVNGIVYLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPYA--ASE  136 (184)
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCC--CCH
Confidence            46788999999931100   112346899999999987532110         0111134589999999998654  344


Q ss_pred             HHHHHHHHhh----------CCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          140 AVMERDALRM----------RDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       140 ~~~~~~l~~~----------~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      +++.+.+.-.          .+...++++||++|+|++++++|+.+.
T Consensus       137 ~~i~~~l~l~~~~~~~~~~~~~~~~i~~~Sa~~~~g~~~~~~wl~~~  183 (184)
T smart00178      137 DELRYALGLTNTTGSKGKVGVRPLEVFMCSVVRRMGYGEGFKWLSQY  183 (184)
T ss_pred             HHHHHHcCCCcccccccccCCceeEEEEeecccCCChHHHHHHHHhh
Confidence            4555444211          123469999999999999999999753

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

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=98.60  E-value=8.3e-08  Score=81.33  Aligned_cols=97  Identities=25%  Similarity=0.298  Sum_probs=63.6

Q ss_pred             cCCcEEEEecCCC-e-eE----Eee-----eeecCceEEEEEeCCCCCCCcc-----CCCCC---CCceeEEEEecCCCC
Q 029893           72 FKADLLLCESGGD-N-LA----ANF-----SRELADYIIYIIDVSGGDKIPR-----KGGPG---ITQADLLVINKTDLA  132 (186)
Q Consensus        72 ~~~D~iiIEtsG~-~-l~----~~~-----~~~~ad~~v~VvDa~~~~~~~~-----~~~~~---~~~adiivlNK~Dl~  132 (186)
                      .+..+.|++|+|. . +.    ..|     .+..+|++++|+|++++.....     .....   -..+.++|+||+|+.
T Consensus       235 ~~~~i~l~DT~G~~~~l~~~lie~f~~tle~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~  314 (351)
T TIGR03156       235 DGGEVLLTDTVGFIRDLPHELVAAFRATLEEVREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLL  314 (351)
T ss_pred             CCceEEEEecCcccccCCHHHHHHHHHHHHHHHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCC
Confidence            3568999999994 1 00    011     1235799999999987643211     11111   245789999999998


Q ss_pred             CcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          133 SAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       133 ~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      +.  .....    ...  ...+++++||++|.|+++|+++|.+.
T Consensus       315 ~~--~~v~~----~~~--~~~~~i~iSAktg~GI~eL~~~I~~~  350 (351)
T TIGR03156       315 DE--PRIER----LEE--GYPEAVFVSAKTGEGLDLLLEAIAER  350 (351)
T ss_pred             Ch--HhHHH----HHh--CCCCEEEEEccCCCCHHHHHHHHHhh
Confidence            65  33221    111  12468999999999999999998764

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).

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=98.60  E-value=7.6e-08  Score=71.79  Aligned_cols=104  Identities=22%  Similarity=0.238  Sum_probs=66.0

Q ss_pred             cCCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc--cCCCC-----CCCceeEEEEecCCCCCcccccHHH
Q 029893           72 FKADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP--RKGGP-----GITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~~~-----~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ....+.+.+|+|... .  ....+..+|.+++|+|.++.....  ..+..     ....+.++|+||+|+.+........
T Consensus        50 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~  129 (164)
T cd04101          50 NTVELFIFDSAGQELYSDMVSNYWESPSVFILVYDVSNKASFENCSRWVNKVRTASKHMPGVLVGNKMDLADKAEVTDAQ  129 (164)
T ss_pred             CEEEEEEEECCCHHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccccccCCCHHH
Confidence            457899999999311 0  011234579999999998753211  11100     1246889999999997652112122


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      .. .+...+ ..+++++||++|.|++++++.+.+..
T Consensus       130 ~~-~~~~~~-~~~~~~~Sa~~~~gi~~l~~~l~~~~  163 (164)
T cd04101         130 AQ-AFAQAN-QLKFFKTSALRGVGYEEPFESLARAF  163 (164)
T ss_pred             HH-HHHHHc-CCeEEEEeCCCCCChHHHHHHHHHHh
Confidence            22 222222 35799999999999999999988753

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.

>cd04112 Rab26 Rab26 subfamily

Probab=98.59  E-value=1.7e-07  Score=72.32  Aligned_cols=106  Identities=20%  Similarity=0.227  Sum_probs=68.1

Q ss_pred             CCcEEEEecCCCe-eE--EeeeeecCceEEEEEeCCCCCCCc--cCC----C--CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDN-LA--ANFSRELADYIIYIIDVSGGDKIP--RKG----G--PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~----~--~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ...+-|.+|+|.. ..  ....+..+|++++|+|+++.....  ..+    .  ..-..+.++|+||+|+..+.....++
T Consensus        49 ~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~~~~~~  128 (191)
T cd04112          49 KVKLQIWDTAGQERFRSVTHAYYRDAHALLLLYDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMSGERVVKRED  128 (191)
T ss_pred             EEEEEEEeCCCcHHHHHhhHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccchhccccCHHH
Confidence            4677889999931 00  111234579999999998753211  000    0  11245789999999997542122233


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      .....+..  ..+++++||++|.|++++++++.+.+...
T Consensus       129 ~~~l~~~~--~~~~~e~Sa~~~~~v~~l~~~l~~~~~~~  165 (191)
T cd04112         129 GERLAKEY--GVPFMETSAKTGLNVELAFTAVAKELKHR  165 (191)
T ss_pred             HHHHHHHc--CCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            33333332  35899999999999999999999877655

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.

>cd04121 Rab40 Rab40 subfamily

Probab=98.59  E-value=1.9e-07  Score=72.45  Aligned_cols=106  Identities=16%  Similarity=0.085  Sum_probs=70.2

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc--cCCCC-----CCCceeEEEEecCCCCCcccccHHHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP--RKGGP-----GITQADLLVINKTDLASAIGADLAVM  142 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~~~-----~~~~adiivlNK~Dl~~~~~~~~~~~  142 (186)
                      ...+-|.+|+|..- .  .+..+..+|.+++|+|.++.....  ..+..     .-..+.++|.||.||........++.
T Consensus        54 ~~~l~iwDt~G~~~~~~l~~~~~~~ad~illVfD~t~~~Sf~~~~~w~~~i~~~~~~~piilVGNK~DL~~~~~v~~~~~  133 (189)
T cd04121          54 RVKLQLWDTSGQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHAPGVPKILVGNRLHLAFKRQVATEQA  133 (189)
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccchhccCCCHHHH
Confidence            46777899999310 0  112245689999999998754311  01100     01357899999999976422234445


Q ss_pred             HHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          143 ERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       143 ~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      ....++.  ..+++++||++|.|++++|+++.+.+...
T Consensus       134 ~~~a~~~--~~~~~e~SAk~g~~V~~~F~~l~~~i~~~  169 (189)
T cd04121         134 QAYAERN--GMTFFEVSPLCNFNITESFTELARIVLMR  169 (189)
T ss_pred             HHHHHHc--CCEEEEecCCCCCCHHHHHHHHHHHHHHh
Confidence            5555544  35899999999999999999998766543

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

>cd04148 RGK RGK subfamily

Probab=98.59  E-value=1.1e-07  Score=75.35  Aligned_cols=106  Identities=14%  Similarity=0.135  Sum_probs=69.2

Q ss_pred             cCCcEEEEecCCCe-eEEeeeee-cCceEEEEEeCCCCCCCc--c-------CCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDN-LAANFSRE-LADYIIYIIDVSGGDKIP--R-------KGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~~~~~~-~ad~~v~VvDa~~~~~~~--~-------~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ....+.|++|+|.. ......+. .+|.+++|+|+++.....  .       ........+.++|.||+|+.+......+
T Consensus        48 ~~~~l~i~Dt~G~~~~~~~~~~~~~ad~iilV~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~  127 (221)
T cd04148          48 EESTLVVIDHWEQEMWTEDSCMQYQGDAFVVVYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQ  127 (221)
T ss_pred             EEEEEEEEeCCCcchHHHhHHhhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceecHH
Confidence            35678899999932 11122233 689999999998753211  0       1111234688999999999765211222


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ...+ +...+ ..+++++||++|.|++++++++.+.+..
T Consensus       128 ~~~~-~a~~~-~~~~~e~SA~~~~gv~~l~~~l~~~~~~  164 (221)
T cd04148         128 EGRA-CAVVF-DCKFIETSAGLQHNVDELLEGIVRQIRL  164 (221)
T ss_pred             HHHH-HHHHc-CCeEEEecCCCCCCHHHHHHHHHHHHHh
Confidence            2222 22222 3689999999999999999999987753

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

>cd04124 RabL2 RabL2 subfamily

Probab=98.59  E-value=8.4e-08  Score=71.88  Aligned_cols=104  Identities=14%  Similarity=0.054  Sum_probs=67.0

Q ss_pred             cCCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc--cCCCC-----CCCceeEEEEecCCCCCcccccHHH
Q 029893           72 FKADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP--RKGGP-----GITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~~~-----~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ..+.+-+.+|+|... .  .+..+..+|.+++|+|+++.....  ..+..     .-..+.++|+||+|+.+.   ...+
T Consensus        47 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~p~ivv~nK~Dl~~~---~~~~  123 (161)
T cd04124          47 KTILVDFWDTAGQERFQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREYRPEIPCIVVANKIDLDPS---VTQK  123 (161)
T ss_pred             EEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCcEEEEEECccCchh---HHHH
Confidence            356788999999311 0  112235679999999998753311  11110     013588999999998543   1222


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      .....+..  ..+++++||++|.|++++++.+.+...+.
T Consensus       124 ~~~~~~~~--~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~  160 (161)
T cd04124         124 KFNFAEKH--NLPLYYVSAADGTNVVKLFQDAIKLAVSY  160 (161)
T ss_pred             HHHHHHHc--CCeEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            22222222  36899999999999999999998776554

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

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=98.59  E-value=1.3e-07  Score=85.09  Aligned_cols=107  Identities=15%  Similarity=0.144  Sum_probs=70.8

Q ss_pred             CCcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCCCcc----CCCCCCCce-eEEEEecCCCCCcccccHHHHHH
Q 029893           73 KADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDKIPR----KGGPGITQA-DLLVINKTDLASAIGADLAVMER  144 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~a-diivlNK~Dl~~~~~~~~~~~~~  144 (186)
                      +..+.|++++|-. ....  .....+|++++|+|+.++...+.    ........+ -++|+||+|++++  ...+...+
T Consensus        49 ~~~v~~iDtPGhe~f~~~~~~g~~~aD~aILVVDa~~G~~~qT~ehl~il~~lgi~~iIVVlNK~Dlv~~--~~~~~~~~  126 (581)
T TIGR00475        49 DYRLGFIDVPGHEKFISNAIAGGGGIDAALLVVDADEGVMTQTGEHLAVLDLLGIPHTIVVITKADRVNE--EEIKRTEM  126 (581)
T ss_pred             CEEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEECCCCCCH--HHHHHHHH
Confidence            4678899999921 0000  11235799999999998643221    111223455 8999999999876  43333333


Q ss_pred             ----HHHhhC--CCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          145 ----DALRMR--DGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       145 ----~l~~~~--p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                          .++...  +..+++++||++|+|++++++++.+..+...
T Consensus       127 ei~~~l~~~~~~~~~~ii~vSA~tG~GI~eL~~~L~~l~~~~~  169 (581)
T TIGR00475       127 FMKQILNSYIFLKNAKIFKTSAKTGQGIGELKKELKNLLESLD  169 (581)
T ss_pred             HHHHHHHHhCCCCCCcEEEEeCCCCCCchhHHHHHHHHHHhCC
Confidence                333321  3579999999999999999999988776544

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.

>cd04128 Spg1 Spg1p

Probab=98.59  E-value=6.5e-08  Score=74.41  Aligned_cols=107  Identities=17%  Similarity=0.256  Sum_probs=65.7

Q ss_pred             CCcEEEEecCCCe-eE--EeeeeecCceEEEEEeCCCCCCCcc--CCCC------CCCceeEEEEecCCCCCccc-cc--
Q 029893           73 KADLLLCESGGDN-LA--ANFSRELADYIIYIIDVSGGDKIPR--KGGP------GITQADLLVINKTDLASAIG-AD--  138 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~--~~~~~~~ad~~v~VvDa~~~~~~~~--~~~~------~~~~adiivlNK~Dl~~~~~-~~--  138 (186)
                      ...+-|.+|+|.. ..  .+..+..+|++++|+|.++......  .+..      .-..+ ++|+||+||..... .+  
T Consensus        48 ~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~D~t~~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~~~~~~  126 (182)
T cd04128          48 EITFSIWDLGGQREFINMLPLVCNDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLFADLPPEEQE  126 (182)
T ss_pred             EEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhccccccchhhh
Confidence            4678889999931 00  1223456899999999987543211  1100      11234 78999999963210 11  


Q ss_pred             -HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          139 -LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       139 -~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                       .....+.+.+..+ ++++++||++|.|++++++++.+.+...+
T Consensus       127 ~~~~~~~~~a~~~~-~~~~e~SAk~g~~v~~lf~~l~~~l~~~~  169 (182)
T cd04128         127 EITKQARKYAKAMK-APLIFCSTSHSINVQKIFKIVLAKAFDLP  169 (182)
T ss_pred             hhHHHHHHHHHHcC-CEEEEEeCCCCCCHHHHHHHHHHHHHhcC
Confidence             1111122222233 68999999999999999999988776543

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

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

Probab=98.59  E-value=1.8e-07  Score=69.43  Aligned_cols=101  Identities=19%  Similarity=0.197  Sum_probs=68.3

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc------c---CCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP------R---KGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~------~---~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      +..+.++|++|..-.   ....+..+|.+++|+|++......      .   .....-..+.++++||+|+...  ...+
T Consensus        42 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~--~~~~  119 (158)
T cd00878          42 NVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGA--LSVS  119 (158)
T ss_pred             CEEEEEEECCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCccc--cCHH
Confidence            678999999993110   011234579999999998763211      0   1111124588999999999876  4455


Q ss_pred             HHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          141 VMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       141 ~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      ++.+.++..   ....+++++||++|.|+++++++|..
T Consensus       120 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~l~~  157 (158)
T cd00878         120 ELIEKLGLEKILGRRWHIQPCSAVTGDGLDEGLDWLLQ  157 (158)
T ss_pred             HHHHhhChhhccCCcEEEEEeeCCCCCCHHHHHHHHhh
Confidence            555555432   23458999999999999999998864

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

>cd00879 Sar1 Sar1 subfamily

Probab=98.59  E-value=1.4e-07  Score=72.41  Aligned_cols=102  Identities=16%  Similarity=0.113  Sum_probs=66.8

Q ss_pred             CCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      +..+.+++++|..-..   ...+..+|.+++|+|+++.....         .........+.++++||+|+...  ...+
T Consensus        62 ~~~~~l~D~~G~~~~~~~~~~~~~~ad~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~~--~~~~  139 (190)
T cd00879          62 NIKFKTFDLGGHEQARRLWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPGA--VSEE  139 (190)
T ss_pred             CEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCCC--cCHH
Confidence            5678899999921000   11234579999999998643211         01111234689999999999754  3455


Q ss_pred             HHHHHHHhh--------------CCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          141 VMERDALRM--------------RDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       141 ~~~~~l~~~--------------~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      ++.+.++..              ....+++++||++|+|++++++++.++
T Consensus       140 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~e~~~~l~~~  189 (190)
T cd00879         140 ELRQALGLYGTTTGKGVSLKVSGIRPIEVFMCSVVKRQGYGEAFRWLSQY  189 (190)
T ss_pred             HHHHHhCcccccccccccccccCceeEEEEEeEecCCCChHHHHHHHHhh
Confidence            555555321              112468999999999999999999875

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.

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=98.58  E-value=2.1e-07  Score=71.44  Aligned_cols=106  Identities=12%  Similarity=0.089  Sum_probs=66.4

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc------CC-CC--CCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR------KG-GP--GITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~------~~-~~--~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+..+.+.+|+|..--   ....+..+|.+|+|+|+++......      .. ..  .-..+.++|+||.|+.+.  ...
T Consensus        59 ~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~--~~~  136 (182)
T PTZ00133         59 KNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNA--MST  136 (182)
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCC--CCH
Confidence            4578899999993110   1123456899999999976432110      00 01  113478999999999754  233


Q ss_pred             HHHHHHHHhhC-C--CCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          140 AVMERDALRMR-D--GGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       140 ~~~~~~l~~~~-p--~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      +++...+.... +  ..+++++||++|.|++++++++.+.+..
T Consensus       137 ~~i~~~l~~~~~~~~~~~~~~~Sa~tg~gv~e~~~~l~~~i~~  179 (182)
T PTZ00133        137 TEVTEKLGLHSVRQRNWYIQGCCATTAQGLYEGLDWLSANIKK  179 (182)
T ss_pred             HHHHHHhCCCcccCCcEEEEeeeCCCCCCHHHHHHHHHHHHHH
Confidence            33433332110 1  1256789999999999999999876653

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

Probab=98.58  E-value=1.5e-07  Score=71.54  Aligned_cols=108  Identities=16%  Similarity=0.098  Sum_probs=68.5

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      .+.+.+++|+|..--   .......++.+++++|.++.....         .........+.++++||+|+........+
T Consensus        48 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~  127 (180)
T cd04137          48 DYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQRQVSTE  127 (180)
T ss_pred             EEEEEEEECCChHhhHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcCccCHH
Confidence            467789999993100   111123468899999988753211         01111234589999999999754211222


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      ......+..  ..+++++||++|.|++++++++.+.+.....
T Consensus       128 ~~~~~~~~~--~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~~~  167 (180)
T cd04137         128 EGKELAESW--GAAFLESSARENENVEEAFELLIEEIEKVEN  167 (180)
T ss_pred             HHHHHHHHc--CCeEEEEeCCCCCCHHHHHHHHHHHHHHhcC
Confidence            222222322  3689999999999999999999987775543

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

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=98.58  E-value=2.1e-07  Score=81.89  Aligned_cols=106  Identities=16%  Similarity=0.195  Sum_probs=70.0

Q ss_pred             CCcEEEEecCCCee-EE-------ee--eeecCceEEEEEeCCCCC---CC----------ccCCC----------CCCC
Q 029893           73 KADLLLCESGGDNL-AA-------NF--SRELADYIIYIIDVSGGD---KI----------PRKGG----------PGIT  119 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~~-------~~--~~~~ad~~v~VvDa~~~~---~~----------~~~~~----------~~~~  119 (186)
                      +..+.|++++|+.- +.       .+  .++.+|++++|+|++..+   +.          ...+.          ....
T Consensus       205 ~~~f~laDtPGliegas~g~gLg~~fLrhieradvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~  284 (500)
T PRK12296        205 DTRFTVADVPGLIPGASEGKGLGLDFLRHIERCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAE  284 (500)
T ss_pred             CeEEEEEECCCCccccchhhHHHHHHHHHHHhcCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcC
Confidence            45789999999410 00       01  123479999999997532   11          01121          1235


Q ss_pred             ceeEEEEecCCCCCcccccH-HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          120 QADLLVINKTDLASAIGADL-AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       120 ~adiivlNK~Dl~~~~~~~~-~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      .+.++|+||+|+.+.  .++ +.+...+...  ..+++++||++++|+++|+.++.+.++..+.
T Consensus       285 kP~IVVlNKiDL~da--~el~e~l~~~l~~~--g~~Vf~ISA~tgeGLdEL~~~L~ell~~~r~  344 (500)
T PRK12296        285 RPRLVVLNKIDVPDA--RELAEFVRPELEAR--GWPVFEVSAASREGLRELSFALAELVEEARA  344 (500)
T ss_pred             CCEEEEEECccchhh--HHHHHHHHHHHHHc--CCeEEEEECCCCCCHHHHHHHHHHHHHhhhc
Confidence            789999999999765  333 2233334333  3589999999999999999999998877653

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=98.58  E-value=1.1e-07  Score=86.05  Aligned_cols=105  Identities=15%  Similarity=0.171  Sum_probs=68.3

Q ss_pred             CcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCCCccC----CCCCCCce-eEEEEecCCCCCcccccHHHHHHH
Q 029893           74 ADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDKIPRK----GGPGITQA-DLLVINKTDLASAIGADLAVMERD  145 (186)
Q Consensus        74 ~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~a-diivlNK~Dl~~~~~~~~~~~~~~  145 (186)
                      .-+-||+|+|-. ....  .....+|++++|+|+.++...+..    ....+..+ .++|+||+|++++  ...+...+.
T Consensus        51 ~~i~~IDtPGhe~fi~~m~~g~~~~D~~lLVVda~eg~~~qT~ehl~il~~lgi~~iIVVlNKiDlv~~--~~~~~v~~e  128 (614)
T PRK10512         51 RVLGFIDVPGHEKFLSNMLAGVGGIDHALLVVACDDGVMAQTREHLAILQLTGNPMLTVALTKADRVDE--ARIAEVRRQ  128 (614)
T ss_pred             cEEEEEECCCHHHHHHHHHHHhhcCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEECCccCCH--HHHHHHHHH
Confidence            346799999921 0000  112357999999999886433211    11123344 3699999999875  444444444


Q ss_pred             HHhh----C-CCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          146 ALRM----R-DGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       146 l~~~----~-p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      +++.    + ...+++++||++|+|+++|+++|.+..+..
T Consensus       129 i~~~l~~~~~~~~~ii~VSA~tG~gI~~L~~~L~~~~~~~  168 (614)
T PRK10512        129 VKAVLREYGFAEAKLFVTAATEGRGIDALREHLLQLPERE  168 (614)
T ss_pred             HHHHHHhcCCCCCcEEEEeCCCCCCCHHHHHHHHHhhccc
Confidence            4332    2 347999999999999999999998876544

>cd04109 Rab28 Rab28 subfamily

Probab=98.57  E-value=2.3e-07  Score=73.05  Aligned_cols=105  Identities=19%  Similarity=0.134  Sum_probs=67.3

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc--c-------CCCC--CCCceeEEEEecCCCCCccccc
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP--R-------KGGP--GITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~--~-------~~~~--~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      .+.+.|.+|+|...-   .+..+..+|.+++|+|+++.....  .       ....  ....+.++|.||+|+.+.....
T Consensus        49 ~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~  128 (215)
T cd04109          49 NVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVK  128 (215)
T ss_pred             EEEEEEEECCCcHHHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccC
Confidence            467889999993110   111245689999999998753211  0       0111  1123578899999997542222


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      .+...+..+. + ..+++++||++|.|++++++++.+.+..
T Consensus       129 ~~~~~~~~~~-~-~~~~~~iSAktg~gv~~lf~~l~~~l~~  167 (215)
T cd04109         129 DDKHARFAQA-N-GMESCLVSAKTGDRVNLLFQQLAAELLG  167 (215)
T ss_pred             HHHHHHHHHH-c-CCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            2333333333 3 3589999999999999999999887654

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

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=98.57  E-value=1.1e-07  Score=82.14  Aligned_cols=105  Identities=20%  Similarity=0.320  Sum_probs=72.3

Q ss_pred             CcEEEEecCCCeeEEeeeee--c--CceEEEEEeCCCCCCCccC---C-CCCCCceeEEEEecCCCCCcccccHHHHHHH
Q 029893           74 ADLLLCESGGDNLAANFSRE--L--ADYIIYIIDVSGGDKIPRK---G-GPGITQADLLVINKTDLASAIGADLAVMERD  145 (186)
Q Consensus        74 ~D~iiIEtsG~~l~~~~~~~--~--ad~~v~VvDa~~~~~~~~~---~-~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~  145 (186)
                      +-+=+|+|+| .+.-.+...  +  +...++||||++|-+.+.-   | .-....-.+=|+||+||..+   +.+++.+.
T Consensus        76 Y~lnlIDTPG-HVDFsYEVSRSLAACEGalLvVDAsQGveAQTlAN~YlAle~~LeIiPViNKIDLP~A---dpervk~e  151 (603)
T COG0481          76 YVLNLIDTPG-HVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALENNLEIIPVLNKIDLPAA---DPERVKQE  151 (603)
T ss_pred             EEEEEcCCCC-ccceEEEehhhHhhCCCcEEEEECccchHHHHHHHHHHHHHcCcEEEEeeecccCCCC---CHHHHHHH
Confidence            4555799999 443333221  2  2678999999998654321   1 11112235789999999865   56667777


Q ss_pred             HHhhC--CCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          146 ALRMR--DGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       146 l~~~~--p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      +....  +....+.+|||||.|++++++.|.+..|.-++
T Consensus       152 Ie~~iGid~~dav~~SAKtG~gI~~iLe~Iv~~iP~P~g  190 (603)
T COG0481         152 IEDIIGIDASDAVLVSAKTGIGIEDVLEAIVEKIPPPKG  190 (603)
T ss_pred             HHHHhCCCcchheeEecccCCCHHHHHHHHHhhCCCCCC
Confidence            76653  45678899999999999999999988876554

>cd04176 Rap2 Rap2 subgroup

Probab=98.57  E-value=1.5e-07  Score=70.23  Aligned_cols=103  Identities=19%  Similarity=0.159  Sum_probs=64.4

Q ss_pred             CCcEEEEecCCCe-eE--EeeeeecCceEEEEEeCCCCCCCc--cC-------CCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDN-LA--ANFSRELADYIIYIIDVSGGDKIP--RK-------GGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~--~~~~~~~ad~~v~VvDa~~~~~~~--~~-------~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ...+-|.+|+|.. ..  .+..+..+|.+++|+|.++.....  ..       .......+.++|+||+|+.+.......
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~~~  127 (163)
T cd04176          48 PSVLEILDTAGTEQFASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSA  127 (163)
T ss_pred             EEEEEEEECCCcccccchHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCccCHH
Confidence            3456689999921 10  111234579999999998754211  00       111234688999999999754212222


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ......+..  ..+++++||++|.|++++++++.+.+
T Consensus       128 ~~~~~~~~~--~~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd04176         128 EGRALAEEW--GCPFMETSAKSKTMVNELFAEIVRQM  162 (163)
T ss_pred             HHHHHHHHh--CCEEEEecCCCCCCHHHHHHHHHHhc
Confidence            222222222  35899999999999999999987653

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

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=98.57  E-value=1.9e-07  Score=70.93  Aligned_cols=105  Identities=14%  Similarity=0.074  Sum_probs=67.6

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ...+-|.+|+|..- .  .+..+..+|.+++|+|.++......         .....-..|.++|+||+|+.+...-..+
T Consensus        49 ~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v~~~  128 (172)
T cd04141          49 PALLDILDTAGQAEFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQRQVTTE  128 (172)
T ss_pred             EEEEEEEeCCCchhhHHHhHHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcCccCHH
Confidence            46778899999310 0  1112345799999999987643211         0111123588999999999754212222


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      +.....++.  ..+++++||++|.|++++|+++.+.+-.
T Consensus       129 ~~~~~a~~~--~~~~~e~Sa~~~~~v~~~f~~l~~~~~~  165 (172)
T cd04141         129 EGRNLAREF--NCPFFETSAALRHYIDDAFHGLVREIRR  165 (172)
T ss_pred             HHHHHHHHh--CCEEEEEecCCCCCHHHHHHHHHHHHHH
Confidence            333333333  4699999999999999999999876543

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

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

Probab=98.57  E-value=3.2e-07  Score=68.20  Aligned_cols=103  Identities=17%  Similarity=0.131  Sum_probs=65.7

Q ss_pred             CCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCc--cCC-------CCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIP--RKG-------GPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~--~~~-------~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ...+.+++|+|..--.   ...+..+|.+++|+|+++.....  ..+       ...-..+.++++||+|+.+......+
T Consensus        49 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~~  128 (164)
T cd04145          49 WAILDILDTAGQEEFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVSRE  128 (164)
T ss_pred             EEEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceecHH
Confidence            4567789999931000   11234579999999998753211  001       01123578999999999765211223


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ...+..+..  ..+++++||++|.|++++++++.+..
T Consensus       129 ~~~~~~~~~--~~~~~~~Sa~~~~~i~~l~~~l~~~~  163 (164)
T cd04145         129 EGQELARKL--KIPYIETSAKDRLNVDKAFHDLVRVI  163 (164)
T ss_pred             HHHHHHHHc--CCcEEEeeCCCCCCHHHHHHHHHHhh
Confidence            333333432  35899999999999999999987654

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

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=98.56  E-value=4.1e-07  Score=73.86  Aligned_cols=129  Identities=16%  Similarity=0.207  Sum_probs=78.9

Q ss_pred             CCC---cccCCcccccccCcchhHhhhhhc--CCcEEEEecCCCeeEEeeeee---------cC----ceEEEEEeCCCC
Q 029893           46 TGG---CPHAAIREDISINLGPLEELSNLF--KADLLLCESGGDNLAANFSRE---------LA----DYIIYIIDVSGG  107 (186)
Q Consensus        46 ~Gc---cc~l~~r~d~~~~~~~l~~l~~~~--~~D~iiIEtsG~~l~~~~~~~---------~a----d~~v~VvDa~~~  107 (186)
                      ||+   |-++.     ..-++++..+.++.  .+|+++|+|+|  ....|.+.         +|    -++++|+|..+.
T Consensus        88 NGgI~TsLNLF-----~tk~dqv~~~iek~~~~~~~~liDTPG--QIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs  160 (366)
T KOG1532|consen   88 NGGIVTSLNLF-----ATKFDQVIELIEKRAEEFDYVLIDTPG--QIEAFTWSASGSIITETLASSFPTVVVYVVDTPRS  160 (366)
T ss_pred             CcchhhhHHHH-----HHHHHHHHHHHHHhhcccCEEEEcCCC--ceEEEEecCCccchHhhHhhcCCeEEEEEecCCcC
Confidence            777   44442     23345566666554  68899999999  33333221         11    356899998664


Q ss_pred             CCCccC-----CC-C---CCCceeEEEEecCCCCCccc-----ccHHHHHHHHH-------------------hhCCCCC
Q 029893          108 DKIPRK-----GG-P---GITQADLLVINKTDLASAIG-----ADLAVMERDAL-------------------RMRDGGP  154 (186)
Q Consensus       108 ~~~~~~-----~~-~---~~~~adiivlNK~Dl~~~~~-----~~~~~~~~~l~-------------------~~~p~a~  154 (186)
                      ......     |. .   .-+.+-++|.||+|+.+..-     ...+.+.+.+.                   +.+....
T Consensus       161 ~~p~tFMSNMlYAcSilyktklp~ivvfNK~Dv~d~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lr  240 (366)
T KOG1532|consen  161 TSPTTFMSNMLYACSILYKTKLPFIVVFNKTDVSDSEFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLR  240 (366)
T ss_pred             CCchhHHHHHHHHHHHHHhccCCeEEEEecccccccHHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCc
Confidence            322110     10 0   12457899999999987520     12223333333                   2234568


Q ss_pred             EEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          155 FIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       155 i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      .+.+|+.||.|+++++..+.+...++.
T Consensus       241 tv~VSs~tG~G~ddf~~av~~~vdEy~  267 (366)
T KOG1532|consen  241 TVGVSSVTGEGFDDFFTAVDESVDEYE  267 (366)
T ss_pred             eEEEecccCCcHHHHHHHHHHHHHHHH
Confidence            899999999999999998887666554

>cd04122 Rab14 Rab14 subfamily

Probab=98.56  E-value=3.2e-07  Score=68.85  Aligned_cols=103  Identities=17%  Similarity=0.100  Sum_probs=66.8

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc--cCCC------CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP--RKGG------PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~--~~~~------~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ...+.+.+|+|..--   ....+..+|.+++|+|.++.....  ..+.      ..-..+.++|.||+|+.++.....++
T Consensus        50 ~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~~~~~~~  129 (166)
T cd04122          50 KIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTYEE  129 (166)
T ss_pred             EEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCcCHHH
Confidence            467789999993100   112235689999999998754211  0110      01134789999999997653222334


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ..+..+..  ..+++++||++|.|+++++..+.+.+
T Consensus       130 ~~~~~~~~--~~~~~e~Sa~~~~~i~e~f~~l~~~~  163 (166)
T cd04122         130 AKQFADEN--GLLFLECSAKTGENVEDAFLETAKKI  163 (166)
T ss_pred             HHHHHHHc--CCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            44444433  36899999999999999998887654

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

>cd04127 Rab27A Rab27a subfamily

Probab=98.56  E-value=2.2e-07  Score=70.47  Aligned_cols=103  Identities=18%  Similarity=0.150  Sum_probs=66.6

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc--CC-------CCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR--KG-------GPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~--~~-------~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      .+.+-|.+|+|..-   .....++.+|.+++|+|+++......  .+       ...-..+.++|.||+|+.+......+
T Consensus        62 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~  141 (180)
T cd04127          62 RIHLQLWDTAGQERFRSLTTAFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEE  141 (180)
T ss_pred             EEEEEEEeCCChHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHH
Confidence            46788999999210   01122356899999999987532111  11       00113468999999999764222233


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      +..+..++.  ..+++++||++|.|++++++++.+.+
T Consensus       142 ~~~~~~~~~--~~~~~e~Sak~~~~v~~l~~~l~~~~  176 (180)
T cd04127         142 QAKALADKY--GIPYFETSAATGTNVEKAVERLLDLV  176 (180)
T ss_pred             HHHHHHHHc--CCeEEEEeCCCCCCHHHHHHHHHHHH
Confidence            344444443  35899999999999999999998654

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

>cd01884 EF_Tu EF-Tu subfamily

Probab=98.56  E-value=1e-07  Score=74.32  Aligned_cols=94  Identities=13%  Similarity=0.141  Sum_probs=57.5

Q ss_pred             cCCcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCCCccC----CCCCCCce-eEEEEecCCCCCcccccHHH--
Q 029893           72 FKADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDKIPRK----GGPGITQA-DLLVINKTDLASAIGADLAV--  141 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~a-diivlNK~Dl~~~~~~~~~~--  141 (186)
                      .+..+.||+|+|.. ....  .....+|.+++|+|+..+...+..    .......+ .++++||+|+..+. ...+.  
T Consensus        63 ~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~~~iIvviNK~D~~~~~-~~~~~~~  141 (195)
T cd01884          63 ANRHYAHVDCPGHADYIKNMITGAAQMDGAILVVSATDGPMPQTREHLLLARQVGVPYIVVFLNKADMVDDE-ELLELVE  141 (195)
T ss_pred             CCeEEEEEECcCHHHHHHHHHHHhhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCcEEEEEeCCCCCCcH-HHHHHHH
Confidence            46678999999931 0000  112357999999999886433211    11223445 56889999997541 22232  


Q ss_pred             --HHHHHHhh--C-CCCCEEEEeccCCCCH
Q 029893          142 --MERDALRM--R-DGGPFIFAQVKHGLGV  166 (186)
Q Consensus       142 --~~~~l~~~--~-p~a~i~~~Sa~~g~gi  166 (186)
                        +.+.++..  + ..+|++++||++|.++
T Consensus       142 ~~i~~~l~~~g~~~~~v~iipiSa~~g~n~  171 (195)
T cd01884         142 MEVRELLSKYGFDGDNTPIVRGSALKALEG  171 (195)
T ss_pred             HHHHHHHHHhcccccCCeEEEeeCccccCC
Confidence              33333332  2 2489999999999985

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.

>cd04140 ARHI_like ARHI subfamily

Probab=98.56  E-value=2.7e-07  Score=69.28  Aligned_cols=102  Identities=16%  Similarity=0.104  Sum_probs=64.2

Q ss_pred             CCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCc--cC-------CC--CCCCceeEEEEecCCCCCccccc
Q 029893           73 KADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIP--RK-------GG--PGITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~--~~-------~~--~~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      ...+-+++|+|..--.   ...+..+|.+++|+|.++.....  ..       ..  ..-..|.++|.||+|+.+.....
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~  127 (165)
T cd04140          48 ICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVS  127 (165)
T ss_pred             EEEEEEEECCCCCcchHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeec
Confidence            4678899999931101   11234578999999998754321  00       00  01245889999999997642111


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      .+......+.  ...+++++||++|.|++++++++.+.
T Consensus       128 ~~~~~~~~~~--~~~~~~e~SA~~g~~v~~~f~~l~~~  163 (165)
T cd04140         128 SNEGAACATE--WNCAFMETSAKTNHNVQELFQELLNL  163 (165)
T ss_pred             HHHHHHHHHH--hCCcEEEeecCCCCCHHHHHHHHHhc
Confidence            2222222222  34689999999999999999998753

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=98.56  E-value=3.4e-07  Score=71.10  Aligned_cols=104  Identities=13%  Similarity=0.083  Sum_probs=65.9

Q ss_pred             CcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCc-ccccHH
Q 029893           74 ADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASA-IGADLA  140 (186)
Q Consensus        74 ~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~-~~~~~~  140 (186)
                      ..+.|++|+|..- .  ....+..+|.+++|+|+++......         .+...-..+.++|+||+|+.+. .....+
T Consensus        47 ~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~  126 (198)
T cd04147          47 LTLDILDTSGSYSFPAMRKLSIQNSDAFALVYAVDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAK  126 (198)
T ss_pred             EEEEEEECCCchhhhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHH
Confidence            5677899999311 0  1122346899999999987533210         1111234689999999999763 111122


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ...+.. ......+++++||++|.|++++++++.+...
T Consensus       127 ~~~~~~-~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~  163 (198)
T cd04147         127 DALSTV-ELDWNCGFVETSAKDNENVLEVFKELLRQAN  163 (198)
T ss_pred             HHHHHH-HhhcCCcEEEecCCCCCCHHHHHHHHHHHhh
Confidence            222222 2233468999999999999999999987654

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.

>cd01860 Rab5_related Rab5-related subfamily

Probab=98.56  E-value=2.1e-07  Score=69.29  Aligned_cols=104  Identities=18%  Similarity=0.142  Sum_probs=68.2

Q ss_pred             cCCcEEEEecCCCe-eE--EeeeeecCceEEEEEeCCCCCCCc--cCC------CCCCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDN-LA--ANFSRELADYIIYIIDVSGGDKIP--RKG------GPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~------~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ....+.++|++|-. ..  .+.....+|.+++|+|+++.....  ..+      ...-..+.++++||+|+.+......+
T Consensus        48 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~  127 (163)
T cd01860          48 TTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLESKRQVSTE  127 (163)
T ss_pred             EEEEEEEEeCCchHHHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccCcCCHH
Confidence            35667899999921 00  111234579999999998754221  011      01123568999999998854223444


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ......+..+  .+++++||++|.|++++++++.+.+
T Consensus       128 ~~~~~~~~~~--~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd01860         128 EAQEYADENG--LLFFETSAKTGENVNELFTEIAKKL  162 (163)
T ss_pred             HHHHHHHHcC--CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            4444455443  6899999999999999999998765

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

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.55  E-value=2e-07  Score=81.35  Aligned_cols=102  Identities=17%  Similarity=0.214  Sum_probs=72.3

Q ss_pred             cCCcEEEEecCCCeeEEe-ee---eecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccccHHHHH
Q 029893           72 FKADLLLCESGGDNLAAN-FS---RELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGADLAVME  143 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~-~~---~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~  143 (186)
                      ..+-+.||+|+| .-+.+ +.   ...+|++++|||+.+|...+.    .+......|-++.+||+|..+.   ......
T Consensus        53 ~~~~itFiDTPG-HeAFt~mRaRGa~vtDIaILVVa~dDGv~pQTiEAI~hak~a~vP~iVAiNKiDk~~~---np~~v~  128 (509)
T COG0532          53 KIPGITFIDTPG-HEAFTAMRARGASVTDIAILVVAADDGVMPQTIEAINHAKAAGVPIVVAINKIDKPEA---NPDKVK  128 (509)
T ss_pred             CCceEEEEcCCc-HHHHHHHHhcCCccccEEEEEEEccCCcchhHHHHHHHHHHCCCCEEEEEecccCCCC---CHHHHH
Confidence            357899999999 21111 11   124699999999999876543    2334466789999999999865   444455


Q ss_pred             HHHHhh-------CCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          144 RDALRM-------RDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       144 ~~l~~~-------~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ..+.+.       .....++++||++|+|+++|++.+.-.-
T Consensus       129 ~el~~~gl~~E~~gg~v~~VpvSA~tg~Gi~eLL~~ill~a  169 (509)
T COG0532         129 QELQEYGLVPEEWGGDVIFVPVSAKTGEGIDELLELILLLA  169 (509)
T ss_pred             HHHHHcCCCHhhcCCceEEEEeeccCCCCHHHHHHHHHHHH
Confidence            554432       2356899999999999999999776433

>cd01865 Rab3 Rab3 subfamily

Probab=98.55  E-value=2.7e-07  Score=69.26  Aligned_cols=105  Identities=14%  Similarity=0.131  Sum_probs=66.7

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc--cCCCC---C---CCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP--RKGGP---G---ITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~--~~~~~---~---~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ...+.+.+|+|..-   .....+..+|.+++|+|.++.....  ..+..   +   -..+.++|+||+|+.+......+.
T Consensus        49 ~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~~~~~~  128 (165)
T cd01865          49 RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVVSSER  128 (165)
T ss_pred             EEEEEEEECCChHHHHHHHHHHccCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccCcccccCHHH
Confidence            46788999999310   0112235689999999987643211  01100   0   134689999999997652112233


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ..+..+.. + .+++++||++|.|++++++++.+.+..
T Consensus       129 ~~~~~~~~-~-~~~~~~Sa~~~~gv~~l~~~l~~~~~~  164 (165)
T cd01865         129 GRQLADQL-G-FEFFEASAKENINVKQVFERLVDIICD  164 (165)
T ss_pred             HHHHHHHc-C-CEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            33333332 2 479999999999999999999887653

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

>PLN03118 Rab family protein; Provisional

Probab=98.54  E-value=2.8e-07  Score=72.23  Aligned_cols=106  Identities=18%  Similarity=0.107  Sum_probs=68.1

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc----------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR----------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~----------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+.+.|++|+|..--   ....++.+|.+++|+|.++......          .+...-..+.++|+||+|+........
T Consensus        61 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~~  140 (211)
T PLN03118         61 RLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSR  140 (211)
T ss_pred             EEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCH
Confidence            467889999993110   1112345799999999987532110          011122346789999999976522222


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      +......+..  ..+++++||++|.|++++++++.+.+...
T Consensus       141 ~~~~~~~~~~--~~~~~e~SAk~~~~v~~l~~~l~~~~~~~  179 (211)
T PLN03118        141 EEGMALAKEH--GCLFLECSAKTRENVEQCFEELALKIMEV  179 (211)
T ss_pred             HHHHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            3333333332  35899999999999999999998776543

>cd04113 Rab4 Rab4 subfamily

Probab=98.54  E-value=1.9e-07  Score=69.50  Aligned_cols=102  Identities=18%  Similarity=0.113  Sum_probs=66.7

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc--CC------CCCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR--KG------GPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~--~~------~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ...+.|.||+|..- .  .+..+..+|.+++|+|+++......  .+      ...-..+.++++||+|+.+......+.
T Consensus        48 ~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~  127 (161)
T cd04113          48 RVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLADQREVTFLE  127 (161)
T ss_pred             EEEEEEEECcchHHHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcchhccCCHHH
Confidence            46778999999310 0  1112345799999999988543210  11      011235789999999997642222334


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      .....+..+  .+++++||++|.|++++++++.+.
T Consensus       128 ~~~~~~~~~--~~~~~~Sa~~~~~i~~~~~~~~~~  160 (161)
T cd04113         128 ASRFAQENG--LLFLETSALTGENVEEAFLKCARS  160 (161)
T ss_pred             HHHHHHHcC--CEEEEEECCCCCCHHHHHHHHHHh
Confidence            444444433  689999999999999999998763

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=98.54  E-value=3.2e-07  Score=74.13  Aligned_cols=104  Identities=12%  Similarity=0.120  Sum_probs=68.4

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc--c---------CC------CCCCCceeEEEEecCCCC
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP--R---------KG------GPGITQADLLVINKTDLA  132 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~--~---------~~------~~~~~~adiivlNK~Dl~  132 (186)
                      .+.+-|.||+|..-   .....+..+|++++|+|.++.+...  .         +.      ......+.++|+||+|+.
T Consensus        47 ~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~  126 (247)
T cd04143          47 VYQLDILDTSGNHPFPAMRRLSILTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRD  126 (247)
T ss_pred             EEEEEEEECCCChhhhHHHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccch
Confidence            46677899999310   0112234579999999998753211  0         00      011346889999999997


Q ss_pred             CcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          133 SAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       133 ~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      .......+++.+.+... ...+++++||++|.|++++++++.+..
T Consensus       127 ~~~~v~~~ei~~~~~~~-~~~~~~evSAktg~gI~elf~~L~~~~  170 (247)
T cd04143         127 FPREVQRDEVEQLVGGD-ENCAYFEVSAKKNSNLDEMFRALFSLA  170 (247)
T ss_pred             hccccCHHHHHHHHHhc-CCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            53223444555444432 246899999999999999999998755

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

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=98.54  E-value=2.2e-07  Score=81.15  Aligned_cols=98  Identities=23%  Similarity=0.237  Sum_probs=67.2

Q ss_pred             cCCcEEEEecCCCeeEE----------e-eeeecCceEEEEEeCCCCCCCcc--CCCCCCCceeEEEEecCCCCCccccc
Q 029893           72 FKADLLLCESGGDNLAA----------N-FSRELADYIIYIIDVSGGDKIPR--KGGPGITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~----------~-~~~~~ad~~v~VvDa~~~~~~~~--~~~~~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      .+..+.+++|+|..-..          . .....+|++++|+|++++.....  .+...-..+.++|+||+|+.+.  ..
T Consensus       261 ~g~~i~l~DT~G~~~~~~~ie~~gi~~~~~~~~~aD~il~VvD~s~~~s~~~~~~l~~~~~~piiiV~NK~DL~~~--~~  338 (449)
T PRK05291        261 DGIPLRLIDTAGIRETDDEVEKIGIERSREAIEEADLVLLVLDASEPLTEEDDEILEELKDKPVIVVLNKADLTGE--ID  338 (449)
T ss_pred             CCeEEEEEeCCCCCCCccHHHHHHHHHHHHHHHhCCEEEEEecCCCCCChhHHHHHHhcCCCCcEEEEEhhhcccc--ch
Confidence            45678999999942100          0 01234799999999987643211  1111224578999999999865  22


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ..        ..+..+++++||++|.|++++++++.+.++.
T Consensus       339 ~~--------~~~~~~~i~iSAktg~GI~~L~~~L~~~l~~  371 (449)
T PRK05291        339 LE--------EENGKPVIRISAKTGEGIDELREAIKELAFG  371 (449)
T ss_pred             hh--------hccCCceEEEEeeCCCCHHHHHHHHHHHHhh
Confidence            21        1234689999999999999999999988764

>PRK04213 GTP-binding protein; Provisional

Probab=98.54  E-value=4.6e-07  Score=70.22  Aligned_cols=84  Identities=14%  Similarity=0.074  Sum_probs=52.5

Q ss_pred             CceEEEEEeCCCCCCCccCC---------------CCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCC----CCCE
Q 029893           95 ADYIIYIIDVSGGDKIPRKG---------------GPGITQADLLVINKTDLASAIGADLAVMERDALRMRD----GGPF  155 (186)
Q Consensus        95 ad~~v~VvDa~~~~~~~~~~---------------~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p----~a~i  155 (186)
                      ++++++|+|+.........+               ......+.++|+||+|+.+......+++.+.+....+    ..++
T Consensus        91 ~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (201)
T PRK04213         91 ILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLRELGIPPIVAVNKMDKIKNRDEVLDEIAERLGLYPPWRQWQDII  170 (201)
T ss_pred             heEEEEEEeCccccccccccccCCCcHHHHHHHHHHHHcCCCeEEEEECccccCcHHHHHHHHHHHhcCCccccccCCcE
Confidence            47889999986543221111               1113468899999999976511122223222221001    1368


Q ss_pred             EEEeccCCCCHHHHHHHHHHHHHH
Q 029893          156 IFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       156 ~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      +++||++| |++++++++.+.+++
T Consensus       171 ~~~SA~~g-gi~~l~~~l~~~~~~  193 (201)
T PRK04213        171 APISAKKG-GIEELKEAIRKRLHE  193 (201)
T ss_pred             EEEecccC-CHHHHHHHHHHhhcC
Confidence            99999999 999999999987654

>cd04134 Rho3 Rho3 subfamily

Probab=98.54  E-value=3.5e-07  Score=70.51  Aligned_cols=106  Identities=20%  Similarity=0.128  Sum_probs=67.5

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc---cCCCC-----CCCceeEEEEecCCCCCcccc----
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP---RKGGP-----GITQADLLVINKTDLASAIGA----  137 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~---~~~~~-----~~~~adiivlNK~Dl~~~~~~----  137 (186)
                      ..++.|.+|+|..-   ..+..+..+|.+++|+|.++.....   ..+..     .-..+.++|.||+||.+....    
T Consensus        47 ~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~~~~~~piilvgNK~Dl~~~~~~~~~~  126 (189)
T cd04134          47 HIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFSVDSPDSLENVESKWLGEIREHCPGVKLVLVALKCDLREARNERDDL  126 (189)
T ss_pred             EEEEEEEECCCChhccccccccccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccChhhHHHH
Confidence            46788999999411   1223345689999999988754321   01111     114578999999999765210    


Q ss_pred             --------cHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          138 --------DLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       138 --------~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                              ..++..+..++. ...+++++||++|.|++++|+++.+..-.
T Consensus       127 ~~~~~~~v~~~~~~~~~~~~-~~~~~~e~SAk~~~~v~e~f~~l~~~~~~  175 (189)
T cd04134         127 QRYGKHTISYEEGLAVAKRI-NALRYLECSAKLNRGVNEAFTEAARVALN  175 (189)
T ss_pred             hhccCCCCCHHHHHHHHHHc-CCCEEEEccCCcCCCHHHHHHHHHHHHhc
Confidence                    011122222222 23689999999999999999999876653

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.

>cd01893 Miro1 Miro1 subfamily

Probab=98.53  E-value=1.3e-07  Score=71.16  Aligned_cols=106  Identities=18%  Similarity=0.154  Sum_probs=66.2

Q ss_pred             cCCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc---CCCC-----CCCceeEEEEecCCCCCcccc-cH
Q 029893           72 FKADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR---KGGP-----GITQADLLVINKTDLASAIGA-DL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~---~~~~-----~~~~adiivlNK~Dl~~~~~~-~~  139 (186)
                      ...++.+++|+|..-..   ...+..+|.+++|+|+.+......   .+..     ....+.++|+||+|+.+.... ..
T Consensus        45 ~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~~pviiv~nK~Dl~~~~~~~~~  124 (166)
T cd01893          45 ERVPTTIVDTSSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLGVKVPIILVGNKSDLRDGSSQAGL  124 (166)
T ss_pred             CeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhcccccchhHH
Confidence            45788999999932110   112345799999999887543211   1110     124588999999999875211 11


Q ss_pred             HHHHHHHH-hhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          140 AVMERDAL-RMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       140 ~~~~~~l~-~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      +.....+. +.....+++++||++|.|++++++.+.+..
T Consensus       125 ~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~~~~~~  163 (166)
T cd01893         125 EEEMLPIMNEFREIETCVECSAKTLINVSEVFYYAQKAV  163 (166)
T ss_pred             HHHHHHHHHHHhcccEEEEeccccccCHHHHHHHHHHHh
Confidence            22222222 222224899999999999999999887653

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.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.53  E-value=3.4e-07  Score=75.09  Aligned_cols=85  Identities=21%  Similarity=0.189  Sum_probs=58.8

Q ss_pred             ecCceEEEEEeCCCCCCCccC-CCCCC-CceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHH
Q 029893           93 ELADYIIYIIDVSGGDKIPRK-GGPGI-TQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIV  170 (186)
Q Consensus        93 ~~ad~~v~VvDa~~~~~~~~~-~~~~~-~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~  170 (186)
                      ..+|++++|+|+..+...... ....+ ..+.++|+||+|++++  .......+.+++  ...+++++||+++.|+++|.
T Consensus        20 ~~aDvVl~V~Dar~p~~~~~~~i~~~l~~kp~IiVlNK~DL~~~--~~~~~~~~~~~~--~~~~vi~iSa~~~~gi~~L~   95 (276)
T TIGR03596        20 KLVDVVIEVLDARIPLSSRNPMIDEIRGNKPRLIVLNKADLADP--AVTKQWLKYFEE--KGIKALAINAKKGKGVKKII   95 (276)
T ss_pred             hhCCEEEEEEeCCCCCCCCChhHHHHHCCCCEEEEEEccccCCH--HHHHHHHHHHHH--cCCeEEEEECCCcccHHHHH
Confidence            357999999999765332111 11111 4578999999999865  334443334433  23578999999999999999


Q ss_pred             HHHHHHHHHhh
Q 029893          171 NHILQAWEAST  181 (186)
Q Consensus       171 ~~i~~~~~~~~  181 (186)
                      +.+.+.++...
T Consensus        96 ~~i~~~~~~~~  106 (276)
T TIGR03596        96 KAAKKLLKEKN  106 (276)
T ss_pred             HHHHHHHHHhh
Confidence            99998887654

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.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=98.53  E-value=4.7e-07  Score=67.79  Aligned_cols=104  Identities=21%  Similarity=0.206  Sum_probs=66.7

Q ss_pred             CCcEEEEecCCCee-EE--eeeeecCceEEEEEeCCCCCCCcc--CCC------CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL-AA--NFSRELADYIIYIIDVSGGDKIPR--KGG------PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~~--~~~~~~ad~~v~VvDa~~~~~~~~--~~~------~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ...+-++||+|... ..  ...+..+|.+++|+|+++......  .+.      ..-..+.++|.||+|+..+.....++
T Consensus        50 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~  129 (166)
T cd01869          50 TIKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKRVVDYSE  129 (166)
T ss_pred             EEEEEEEECCCcHhHHHHHHHHhCcCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhcccccCCCHHH
Confidence            45678899999311 00  112345899999999987532110  010      01235789999999997652222233


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .....+..  ..+++++||++|.|++++++++.+.+.
T Consensus       130 ~~~~~~~~--~~~~~~~Sa~~~~~v~~~~~~i~~~~~  164 (166)
T cd01869         130 AQEFADEL--GIPFLETSAKNATNVEQAFMTMAREIK  164 (166)
T ss_pred             HHHHHHHc--CCeEEEEECCCCcCHHHHHHHHHHHHH
Confidence            33333332  468999999999999999999987653

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=98.52  E-value=3.3e-07  Score=68.88  Aligned_cols=103  Identities=19%  Similarity=0.126  Sum_probs=67.1

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--CCC------CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--KGG------PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~~~------~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+.+.||+|..--   ....+..+|.+++|+|+++......  .+.      ..-..+.++|.||+|+.+......++
T Consensus        51 ~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~  130 (167)
T cd01867          51 KIKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDMEEKRVVSKEE  130 (167)
T ss_pred             EEEEEEEeCCchHHHHHHHHHHhCCCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHH
Confidence            457788999993110   1112346899999999977543211  010      01234789999999998642223334


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      .....+..  ..+++++||++|.|++++++++.+.+
T Consensus       131 ~~~~~~~~--~~~~~~~Sa~~~~~v~~~~~~i~~~~  164 (167)
T cd01867         131 GEALADEY--GIKFLETSAKANINVEEAFFTLAKDI  164 (167)
T ss_pred             HHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            44444433  35899999999999999999998765

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=98.51  E-value=1.3e-07  Score=70.26  Aligned_cols=102  Identities=18%  Similarity=0.141  Sum_probs=65.9

Q ss_pred             cCCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc--cCCCC-----CCCceeEEEEecCCCCCcccccHHH
Q 029893           72 FKADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP--RKGGP-----GITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~~~-----~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ...++.|.+|+|..- .  ....+..+|.+++|+|+++.....  ..+..     .-..+.++|+||+|+.++.....++
T Consensus        49 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~v~d~~~~~s~~~l~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~v~~~~  128 (162)
T cd04106          49 EDVRLMLWDTAGQEEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAECGDIPMVLVQTKIDLLDQAVITNEE  128 (162)
T ss_pred             CEEEEEEeeCCchHHHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhcccccCCCHHH
Confidence            357889999999210 0  111234679999999987754211  11110     1245789999999997652122333


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      .....+..  ..+++++||++|.|++++++++.+
T Consensus       129 ~~~~~~~~--~~~~~~~Sa~~~~~v~~l~~~l~~  160 (162)
T cd04106         129 AEALAKRL--QLPLFRTSVKDDFNVTELFEYLAE  160 (162)
T ss_pred             HHHHHHHc--CCeEEEEECCCCCCHHHHHHHHHH
Confidence            33333433  358999999999999999999865

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

>COG1160 Predicted GTPases [General function prediction only]

Probab=98.51  E-value=1e-07  Score=81.85  Aligned_cols=102  Identities=21%  Similarity=0.311  Sum_probs=70.8

Q ss_pred             hcCCcEEEEecCCCeeEE--ee----------eeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCc
Q 029893           71 LFKADLLLCESGGDNLAA--NF----------SRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l~~--~~----------~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~  134 (186)
                      ..+..+.+|+|.|+-...  ++          .+..||++++|+|+..|....+    ++.....++.++|+||+|-...
T Consensus        48 ~~~~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai~eADvilfvVD~~~Git~~D~~ia~~Lr~~~kpviLvvNK~D~~~~  127 (444)
T COG1160          48 WLGREFILIDTGGLDDGDEDELQELIREQALIAIEEADVILFVVDGREGITPADEEIAKILRRSKKPVILVVNKIDNLKA  127 (444)
T ss_pred             EcCceEEEEECCCCCcCCchHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCCEEEEEEcccCchh
Confidence            456779999999942111  11          2345899999999998765332    2223455799999999997633


Q ss_pred             ccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          135 IGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       135 ~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                        +.  ...+ .-++ ...+++++||.+|.|+.+|++.+.+.+|
T Consensus       128 --e~--~~~e-fysl-G~g~~~~ISA~Hg~Gi~dLld~v~~~l~  165 (444)
T COG1160         128 --EE--LAYE-FYSL-GFGEPVPISAEHGRGIGDLLDAVLELLP  165 (444)
T ss_pred             --hh--hHHH-HHhc-CCCCceEeehhhccCHHHHHHHHHhhcC
Confidence              11  1111 2222 3568999999999999999999999874

>cd04123 Rab21 Rab21 subfamily

Probab=98.51  E-value=4.8e-07  Score=66.84  Aligned_cols=103  Identities=22%  Similarity=0.253  Sum_probs=66.4

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc--CC------CCCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR--KG------GPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~--~~------~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ...+.++|++|...   ..+..+..+|.+++|+|.++......  .+      ......+.++|+||+|+.+......+.
T Consensus        48 ~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~~~~~~~  127 (162)
T cd04123          48 RIDLAIWDTAGQERYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQRVVSKSE  127 (162)
T ss_pred             EEEEEEEECCchHHHHHhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHH
Confidence            45688899999210   01112345799999999987643110  00      011146899999999998642122333


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ..+..+..  ..+++++|+++|.|++++++++.+.+
T Consensus       128 ~~~~~~~~--~~~~~~~s~~~~~gi~~~~~~l~~~~  161 (162)
T cd04123         128 AEEYAKSV--GAKHFETSAKTGKGIEELFLSLAKRM  161 (162)
T ss_pred             HHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            44434433  36799999999999999999987653

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

>cd01873 RhoBTB RhoBTB subfamily

Probab=98.50  E-value=2.8e-07  Score=71.82  Aligned_cols=102  Identities=18%  Similarity=0.175  Sum_probs=67.0

Q ss_pred             cCCcEEEEecCCCee-EEeeeeecCceEEEEEeCCCCCCCc---cCCCCC-----CCceeEEEEecCCCCCc--------
Q 029893           72 FKADLLLCESGGDNL-AANFSRELADYIIYIIDVSGGDKIP---RKGGPG-----ITQADLLVINKTDLASA--------  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~~~~~~~~ad~~v~VvDa~~~~~~~---~~~~~~-----~~~adiivlNK~Dl~~~--------  134 (186)
                      ....+.|.+|+|..- ..+..+..+|.+++|+|.++.....   ..+...     -..+.++|.||+||.+.        
T Consensus        64 ~~v~l~iwDTaG~~~~~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~~~~~~~~~~  143 (195)
T cd01873          64 VSVSLRLWDTFGDHDKDRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCPRVPVILVGCKLDLRYADLDEVNRA  143 (195)
T ss_pred             EEEEEEEEeCCCChhhhhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhCCCCCEEEEEEchhccccccchhhhc
Confidence            467788999999311 1223456789999999998754321   111111     13478999999999641        


Q ss_pred             -----------ccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          135 -----------IGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       135 -----------~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                                 ..-..++..+..++.+  ++++++||++|.|++++|+.+.+
T Consensus       144 ~~~~~~~~~~~~~V~~~e~~~~a~~~~--~~~~E~SAkt~~~V~e~F~~~~~  193 (195)
T cd01873         144 RRPLARPIKNADILPPETGRAVAKELG--IPYYETSVVTQFGVKDVFDNAIR  193 (195)
T ss_pred             ccccccccccCCccCHHHHHHHHHHhC--CEEEEcCCCCCCCHHHHHHHHHH
Confidence                       1112233444444443  58999999999999999998865

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.

>cd04144 Ras2 Ras2 subfamily

Probab=98.50  E-value=8.3e-07  Score=68.42  Aligned_cols=104  Identities=16%  Similarity=0.135  Sum_probs=65.7

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc--cCC-------CC--CCCceeEEEEecCCCCCccccc
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP--RKG-------GP--GITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~-------~~--~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      .+.+-|++|+|..- .  ....+..+|.+++|+|.++.....  ..+       ..  ....+.++|+||+|+.+.....
T Consensus        46 ~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~  125 (190)
T cd04144          46 PCMLEVLDTAGQEEYTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVS  125 (190)
T ss_pred             EEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCccC
Confidence            35678899999310 0  112234689999999997753211  011       11  1235789999999997542112


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ........+..  ..+++++||++|.|++++++++.+.+.
T Consensus       126 ~~~~~~~~~~~--~~~~~e~SAk~~~~v~~l~~~l~~~l~  163 (190)
T cd04144         126 TEEGAALARRL--GCEFIEASAKTNVNVERAFYTLVRALR  163 (190)
T ss_pred             HHHHHHHHHHh--CCEEEEecCCCCCCHHHHHHHHHHHHH
Confidence            22233333333  258999999999999999999987554

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.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=98.50  E-value=1.1e-06  Score=76.15  Aligned_cols=102  Identities=21%  Similarity=0.272  Sum_probs=66.4

Q ss_pred             CCcEEEEecCCCeeEE--------ee--eeecCceEEEEEeCCCCC--CC----------ccCCCC-CCCceeEEEEecC
Q 029893           73 KADLLLCESGGDNLAA--------NF--SRELADYIIYIIDVSGGD--KI----------PRKGGP-GITQADLLVINKT  129 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~--------~~--~~~~ad~~v~VvDa~~~~--~~----------~~~~~~-~~~~adiivlNK~  129 (186)
                      +..++|++++|+.-.+        .|  ..+.++++++|+|++..+  +.          ...+.. ....+.+||+||+
T Consensus       205 ~~~~~laD~PGliega~~~~gLg~~fLrhier~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~  284 (424)
T PRK12297        205 GRSFVMADIPGLIEGASEGVGLGHQFLRHIERTRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKM  284 (424)
T ss_pred             CceEEEEECCCCcccccccchHHHHHHHHHhhCCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCC
Confidence            4678999999942111        11  123468999999997531  11          011222 2467899999999


Q ss_pred             CCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          130 DLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       130 Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      |+.+.    .+.+.. +.+..+ .+++++||++++|+++|++++.+.++..
T Consensus       285 DL~~~----~e~l~~-l~~~l~-~~i~~iSA~tgeGI~eL~~~L~~~l~~~  329 (424)
T PRK12297        285 DLPEA----EENLEE-FKEKLG-PKVFPISALTGQGLDELLYAVAELLEET  329 (424)
T ss_pred             CCcCC----HHHHHH-HHHHhC-CcEEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence            98433    122222 222222 5899999999999999999999887654

>PTZ00369 Ras-like protein; Provisional

Probab=98.50  E-value=8.2e-07  Score=68.37  Aligned_cols=104  Identities=15%  Similarity=0.153  Sum_probs=64.9

Q ss_pred             CCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCc--c-------CCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIP--R-------KGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~--~-------~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ...+-|.+|+|..--.   +..+..+|.+++|+|.++.+...  .       .+...-..+.++|.||+|+.+...-...
T Consensus        52 ~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~~~  131 (189)
T PTZ00369         52 TCLLDILDTAGQEEYSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVSTG  131 (189)
T ss_pred             EEEEEEEeCCCCccchhhHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHH
Confidence            3456679999932111   11234579999999998754211  0       1111123478999999998654211222


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ......+..  ..+++++||++|.|++++++++.+.+.
T Consensus       132 ~~~~~~~~~--~~~~~e~Sak~~~gi~~~~~~l~~~l~  167 (189)
T PTZ00369        132 EGQELAKSF--GIPFLETSAKQRVNVDEAFYELVREIR  167 (189)
T ss_pred             HHHHHHHHh--CCEEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            233333333  358999999999999999999976554

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

Probab=98.50  E-value=6.5e-07  Score=66.16  Aligned_cols=100  Identities=18%  Similarity=0.178  Sum_probs=62.8

Q ss_pred             CcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCc--c-------CCCCCCCceeEEEEecCCCCCcccccHHH
Q 029893           74 ADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIP--R-------KGGPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        74 ~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~--~-------~~~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ..+-+++|+|..--.   +..+..++.+++|+|..+.....  .       .+...-..+.++|+||+|+.+.. .....
T Consensus        49 ~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~~~-~~~~~  127 (162)
T cd04138          49 CLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAART-VSSRQ  127 (162)
T ss_pred             EEEEEEECCCCcchHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccce-ecHHH
Confidence            345578999931100   11233578899999987643211  0       11112245789999999997641 22333


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      .....+..  ..+++++||++|.|++++++++.+.
T Consensus       128 ~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~~  160 (162)
T cd04138         128 GQDLAKSY--GIPYIETSAKTRQGVEEAFYTLVRE  160 (162)
T ss_pred             HHHHHHHh--CCeEEEecCCCCCCHHHHHHHHHHH
Confidence            33333333  3589999999999999999998764

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.

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

Probab=98.49  E-value=1.7e-07  Score=72.47  Aligned_cols=98  Identities=16%  Similarity=0.222  Sum_probs=58.7

Q ss_pred             cCCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCccc-ccHHHHH
Q 029893           72 FKADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIG-ADLAVME  143 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~-~~~~~~~  143 (186)
                      .+..+.|++|+|.. ...  ...+..+|.+++|+|++++.....    ........+.++|+||+|+.+... ...+++.
T Consensus        63 ~~~~~~l~DtpG~~~~~~~~~~~~~~~d~~ilV~d~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~~~~~~~~~~  142 (194)
T cd01891          63 KDTKINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALELGLKPIVVINKIDRPDARPEEVVDEVF  142 (194)
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHhcCEEEEEEECCCCccHHHHHHHHHHHHcCCCEEEEEECCCCCCCCHHHHHHHHH
Confidence            46788999999931 000  112345799999999987532111    111123457899999999975421 1123333


Q ss_pred             HHHHhh-----CCCCCEEEEeccCCCCHHHH
Q 029893          144 RDALRM-----RDGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       144 ~~l~~~-----~p~a~i~~~Sa~~g~gi~~l  169 (186)
                      +.++..     ....+++++||++|.|+.++
T Consensus       143 ~~~~~~~~~~~~~~~~iv~~Sa~~g~~~~~~  173 (194)
T cd01891         143 DLFIELGATEEQLDFPVLYASAKNGWASLNL  173 (194)
T ss_pred             HHHHHhCCccccCccCEEEeehhcccccccc
Confidence            333221     12468999999999777444

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

>cd04132 Rho4_like Rho4-like subfamily

Probab=98.49  E-value=1.6e-07  Score=71.92  Aligned_cols=108  Identities=19%  Similarity=0.130  Sum_probs=68.9

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc---CCCCC-----CCceeEEEEecCCCCCccc----c
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR---KGGPG-----ITQADLLVINKTDLASAIG----A  137 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~---~~~~~-----~~~adiivlNK~Dl~~~~~----~  137 (186)
                      ...+.|.||+|..-   ..+..+..+|.+++|+|.++......   .+...     -..|.++|+||+|+.+...    .
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~v  127 (187)
T cd04132          48 IIELALWDTAGQEEYDRLRPLSYPDVDVLLICYAVDNPTSLDNVEDKWFPEVNHFCPGTPIMLVGLKTDLRKDKNLDRKV  127 (187)
T ss_pred             EEEEEEEECCCchhHHHHHHHhCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhhhCccccCCc
Confidence            46788999999310   01223456899999999987543211   11110     1357899999999975410    1


Q ss_pred             cHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          138 DLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       138 ~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      ..++..+..+.. ...+++++||++|.|++++++.+.+.+..++
T Consensus       128 ~~~~~~~~~~~~-~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~  170 (187)
T cd04132         128 TPAQAESVAKKQ-GAFAYLECSAKTMENVEEVFDTAIEEALKKE  170 (187)
T ss_pred             CHHHHHHHHHHc-CCcEEEEccCCCCCCHHHHHHHHHHHHHhhh
Confidence            123333333332 2238999999999999999999987776654

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.

>CHL00189 infB translation initiation factor 2; Provisional

Probab=98.49  E-value=3.6e-07  Score=83.80  Aligned_cols=102  Identities=18%  Similarity=0.276  Sum_probs=68.0

Q ss_pred             CCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccccHHHHHHH
Q 029893           73 KADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGADLAVMERD  145 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~  145 (186)
                      +..+.|++|+|-. ...  ...+..+|++++|+|+.++...+.    ........+.++++||+|+.+.   ..+++.+.
T Consensus       294 ~~kItfiDTPGhe~F~~mr~rg~~~aDiaILVVDA~dGv~~QT~E~I~~~k~~~iPiIVViNKiDl~~~---~~e~v~~e  370 (742)
T CHL00189        294 NQKIVFLDTPGHEAFSSMRSRGANVTDIAILIIAADDGVKPQTIEAINYIQAANVPIIVAINKIDKANA---NTERIKQQ  370 (742)
T ss_pred             ceEEEEEECCcHHHHHHHHHHHHHHCCEEEEEEECcCCCChhhHHHHHHHHhcCceEEEEEECCCcccc---CHHHHHHH
Confidence            4778999999921 000  012235799999999988643221    1122245689999999999764   23334344


Q ss_pred             HHh-------hCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          146 ALR-------MRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       146 l~~-------~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ++.       +....|++++||++|.|+++|++++..+.
T Consensus       371 L~~~~ll~e~~g~~vpvv~VSAktG~GIdeLle~I~~l~  409 (742)
T CHL00189        371 LAKYNLIPEKWGGDTPMIPISASQGTNIDKLLETILLLA  409 (742)
T ss_pred             HHHhccchHhhCCCceEEEEECCCCCCHHHHHHhhhhhh
Confidence            332       12346899999999999999999987654

>cd04114 Rab30 Rab30 subfamily

Probab=98.49  E-value=4.7e-07  Score=67.83  Aligned_cols=102  Identities=17%  Similarity=0.126  Sum_probs=65.5

Q ss_pred             CCcEEEEecCCCee-EE--eeeeecCceEEEEEeCCCCCCCc--cCC------CCCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL-AA--NFSRELADYIIYIIDVSGGDKIP--RKG------GPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~~--~~~~~~ad~~v~VvDa~~~~~~~--~~~------~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+.+.+++|... ..  ...+..+|.+++|+|++......  ..+      ...-..+.++|+||+|+.++. .....
T Consensus        55 ~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~-~i~~~  133 (169)
T cd04114          55 KIKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERR-EVSQQ  133 (169)
T ss_pred             EEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccc-ccCHH
Confidence            35678889999311 00  11234579999999998653211  011      111235679999999997652 11123


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      ....+.+..+ .+++++||++|.|++++++++.+.
T Consensus       134 ~~~~~~~~~~-~~~~~~Sa~~~~gv~~l~~~i~~~  167 (169)
T cd04114         134 RAEEFSDAQD-MYYLETSAKESDNVEKLFLDLACR  167 (169)
T ss_pred             HHHHHHHHcC-CeEEEeeCCCCCCHHHHHHHHHHH
Confidence            3334444443 689999999999999999999875

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.

>cd04155 Arl3 Arl3 subfamily

Probab=98.48  E-value=3.8e-07  Score=68.69  Aligned_cols=101  Identities=22%  Similarity=0.222  Sum_probs=64.8

Q ss_pred             CCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      +.++.+++++|.. ...  ...+..+|.+++|+|+++.....         .........+.++++||+|+.+.  ...+
T Consensus        57 ~~~~~~~D~~G~~~~~~~~~~~~~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~--~~~~  134 (173)
T cd04155          57 GFKLNVWDIGGQRAIRPYWRNYFENTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATA--APAE  134 (173)
T ss_pred             CEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCccC--CCHH
Confidence            5778899999931 100  11234578999999998642211         01111234688999999999765  4455


Q ss_pred             HHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          141 VMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       141 ~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      .+.+.++-.   ....+++++||++|+|++++++|+.+
T Consensus       135 ~i~~~l~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  172 (173)
T cd04155         135 EIAEALNLHDLRDRTWHIQACSAKTGEGLQEGMNWVCK  172 (173)
T ss_pred             HHHHHcCCcccCCCeEEEEEeECCCCCCHHHHHHHHhc
Confidence            554443211   11225789999999999999999864

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.

>TIGR01393 lepA GTP-binding protein LepA

Probab=98.48  E-value=2.4e-07  Score=83.51  Aligned_cols=105  Identities=24%  Similarity=0.262  Sum_probs=68.9

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCccC--C--CCCCCceeEEEEecCCCCCcccccHHHHHHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPRK--G--GPGITQADLLVINKTDLASAIGADLAVMERD  145 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~~--~--~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~  145 (186)
                      .+.+.|++|+|..- .  ....+..+|.+++|+|++++...+..  +  ......+.++|+||+|+.+.   ..+...+.
T Consensus        69 ~~~l~liDTPG~~dF~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~~~ipiIiViNKiDl~~~---~~~~~~~e  145 (595)
T TIGR01393        69 TYVLNLIDTPGHVDFSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALENDLEIIPVINKIDLPSA---DPERVKKE  145 (595)
T ss_pred             EEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHHcCCCEEEEEECcCCCcc---CHHHHHHH
Confidence            36788999999310 0  01123457999999999987543211  1  11123478999999999754   22333333


Q ss_pred             HHhhC--CCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          146 ALRMR--DGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       146 l~~~~--p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      +++..  +..+++++||++|.|++++++++.+.+|.-
T Consensus       146 l~~~lg~~~~~vi~vSAktG~GI~~Lle~I~~~lp~p  182 (595)
T TIGR01393       146 IEEVIGLDASEAILASAKTGIGIEEILEAIVKRVPPP  182 (595)
T ss_pred             HHHHhCCCcceEEEeeccCCCCHHHHHHHHHHhCCCC
Confidence            43332  223689999999999999999999887754

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.

>cd01866 Rab2 Rab2 subfamily

Probab=98.48  E-value=3.6e-07  Score=68.82  Aligned_cols=104  Identities=17%  Similarity=0.106  Sum_probs=67.4

Q ss_pred             CCcEEEEecCCCe-eE--EeeeeecCceEEEEEeCCCCCCCc--cCCCC------CCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDN-LA--ANFSRELADYIIYIIDVSGGDKIP--RKGGP------GITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~~~------~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ...+.|.+|+|.. ..  .......+|.+++|+|+++.....  ..+..      .-..+.++|.||+|+.++.....++
T Consensus        52 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~~~~~~~  131 (168)
T cd01866          52 QIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRREVSYEE  131 (168)
T ss_pred             EEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHH
Confidence            4678899999931 00  111234579999999998643211  01110      1235789999999998542223344


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .....++.  ..+++++||++|+|+++++.++.+...
T Consensus       132 ~~~~~~~~--~~~~~e~Sa~~~~~i~~~~~~~~~~~~  166 (168)
T cd01866         132 GEAFAKEH--GLIFMETSAKTASNVEEAFINTAKEIY  166 (168)
T ss_pred             HHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            44444443  468999999999999999999887664

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

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

Probab=98.47  E-value=5.1e-07  Score=68.03  Aligned_cols=105  Identities=19%  Similarity=0.142  Sum_probs=66.4

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc---cCCCC-----CCCceeEEEEecCCCCCccc----
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP---RKGGP-----GITQADLLVINKTDLASAIG----  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~---~~~~~-----~~~~adiivlNK~Dl~~~~~----  136 (186)
                      ..+.+.|.+|+|...   ..+..+..+|++++|+|.++.....   ..+..     .-..+.++|+||+|+.++..    
T Consensus        44 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~  123 (174)
T smart00174       44 KPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFCPNTPIILVGTKLDLREDKSTLRE  123 (174)
T ss_pred             EEEEEEEEECCCCcccchhchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEecChhhhhChhhhhh
Confidence            356789999999321   1122344689999999998753221   11111     12458899999999976310    


Q ss_pred             --------ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          137 --------ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       137 --------~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                              ...++..+..+.. ...+++++||++|.|++++++.+.+..
T Consensus       124 ~~~~~~~~v~~~~~~~~~~~~-~~~~~~e~Sa~~~~~v~~lf~~l~~~~  171 (174)
T smart00174      124 LSKQKQEPVTYEQGEALAKRI-GAVKYLECSALTQEGVREVFEEAIRAA  171 (174)
T ss_pred             hhcccCCCccHHHHHHHHHHc-CCcEEEEecCCCCCCHHHHHHHHHHHh
Confidence                    0111222223333 334899999999999999999887654

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

>COG2262 HflX GTPases [General function prediction only]

Probab=98.47  E-value=5.3e-07  Score=76.61  Aligned_cols=100  Identities=21%  Similarity=0.297  Sum_probs=67.7

Q ss_pred             CCcEEEEecCCC-e-----eEEee-----eeecCceEEEEEeCCCCCCCcc-----C---CCCCCCceeEEEEecCCCCC
Q 029893           73 KADLLLCESGGD-N-----LAANF-----SRELADYIIYIIDVSGGDKIPR-----K---GGPGITQADLLVINKTDLAS  133 (186)
Q Consensus        73 ~~D~iiIEtsG~-~-----l~~~~-----~~~~ad~~v~VvDa~~~~~~~~-----~---~~~~~~~adiivlNK~Dl~~  133 (186)
                      +..+++-+|+|- .     +...|     +...+|+++.|+|++++.....     .   -...-..|.++|+||+|+++
T Consensus       239 g~~vlLtDTVGFI~~LP~~LV~AFksTLEE~~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~  318 (411)
T COG2262         239 GRKVLLTDTVGFIRDLPHPLVEAFKSTLEEVKEADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLE  318 (411)
T ss_pred             CceEEEecCccCcccCChHHHHHHHHHHHHhhcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccC
Confidence            577999999992 1     11111     1224799999999999732110     0   01112358999999999987


Q ss_pred             cccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          134 AIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       134 ~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      +  ..   ....+....|  ..+++||++|.|++.|.+.|.+.++.
T Consensus       319 ~--~~---~~~~~~~~~~--~~v~iSA~~~~gl~~L~~~i~~~l~~  357 (411)
T COG2262         319 D--EE---ILAELERGSP--NPVFISAKTGEGLDLLRERIIELLSG  357 (411)
T ss_pred             c--hh---hhhhhhhcCC--CeEEEEeccCcCHHHHHHHHHHHhhh
Confidence            6  33   2223333334  67899999999999999999988874

>cd01861 Rab6 Rab6 subfamily

Probab=98.46  E-value=4.2e-07  Score=67.48  Aligned_cols=101  Identities=22%  Similarity=0.198  Sum_probs=64.8

Q ss_pred             CcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc--cCC----CCC--CCceeEEEEecCCCCCcccccHHHH
Q 029893           74 ADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP--RKG----GPG--ITQADLLVINKTDLASAIGADLAVM  142 (186)
Q Consensus        74 ~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~--~~~----~~~--~~~adiivlNK~Dl~~~~~~~~~~~  142 (186)
                      ..+.++||+|....   .......+|.+++|+|..+.....  ..+    ...  -..+.++++||+|+........+..
T Consensus        49 ~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~  128 (161)
T cd01861          49 VRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEG  128 (161)
T ss_pred             EEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhccccCccCHHHH
Confidence            46789999993110   011234579999999997653211  011    011  1468999999999965421223333


Q ss_pred             HHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          143 ERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       143 ~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      ....+..  ..+++++||++|.|++++++++.+.
T Consensus       129 ~~~~~~~--~~~~~~~Sa~~~~~v~~l~~~i~~~  160 (161)
T cd01861         129 EKKAKEL--NAMFIETSAKAGHNVKELFRKIASA  160 (161)
T ss_pred             HHHHHHh--CCEEEEEeCCCCCCHHHHHHHHHHh
Confidence            3333333  3789999999999999999998764

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

>PRK05433 GTP-binding protein LepA; Provisional

Probab=98.46  E-value=4e-07  Score=82.17  Aligned_cols=103  Identities=20%  Similarity=0.250  Sum_probs=69.1

Q ss_pred             CCcEEEEecCCCeeEEe-----eeeecCceEEEEEeCCCCCCCccC--C--CCCCCceeEEEEecCCCCCcccccHHHHH
Q 029893           73 KADLLLCESGGDNLAAN-----FSRELADYIIYIIDVSGGDKIPRK--G--GPGITQADLLVINKTDLASAIGADLAVME  143 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~-----~~~~~ad~~v~VvDa~~~~~~~~~--~--~~~~~~adiivlNK~Dl~~~~~~~~~~~~  143 (186)
                      .+.+.|++|+|.  ...     .++..+|.+++|+|++++.+.+..  +  ......+-++|+||+|+.+.   ..+...
T Consensus        73 ~~~lnLiDTPGh--~dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~~~~lpiIvViNKiDl~~a---~~~~v~  147 (600)
T PRK05433         73 TYILNLIDTPGH--VDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALENDLEIIPVLNKIDLPAA---DPERVK  147 (600)
T ss_pred             cEEEEEEECCCc--HHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCEEEEEECCCCCcc---cHHHHH
Confidence            567889999992  110     123357999999999987543211  1  11134578999999999754   223333


Q ss_pred             HHHHhhC--CCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          144 RDALRMR--DGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       144 ~~l~~~~--p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      +.++...  +..+++++||++|.|++++++++.+.+|.-
T Consensus       148 ~ei~~~lg~~~~~vi~iSAktG~GI~~Ll~~I~~~lp~P  186 (600)
T PRK05433        148 QEIEDVIGIDASDAVLVSAKTGIGIEEVLEAIVERIPPP  186 (600)
T ss_pred             HHHHHHhCCCcceEEEEecCCCCCHHHHHHHHHHhCccc
Confidence            3444332  223699999999999999999999887754

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=98.46  E-value=3.3e-07  Score=79.05  Aligned_cols=104  Identities=16%  Similarity=0.178  Sum_probs=65.9

Q ss_pred             CCcEEEEecCCCe-eEEe-e-eeecCceEEEEEeCCCCC-CCcc-CC---CCCCC-ceeEEEEecCCCCCcccccH----
Q 029893           73 KADLLLCESGGDN-LAAN-F-SRELADYIIYIIDVSGGD-KIPR-KG---GPGIT-QADLLVINKTDLASAIGADL----  139 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~~-~-~~~~ad~~v~VvDa~~~~-~~~~-~~---~~~~~-~adiivlNK~Dl~~~~~~~~----  139 (186)
                      +..+.|++|.|-. .... + ....+|.+++|+|+.++. ..+. .+   ...+. .+-++++||+|+.++  ...    
T Consensus        79 ~~~i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~gi~~iIVvvNK~Dl~~~--~~~~~~~  156 (406)
T TIGR03680        79 LRRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEIIGIKNIVIVQNKIDLVSK--EKALENY  156 (406)
T ss_pred             ccEEEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHHcCCCeEEEEEEccccCCH--HHHHHHH
Confidence            4568899999921 0001 1 112469999999999764 2111 11   11122 246888999999875  332    


Q ss_pred             HHHHHHHHhh-CCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          140 AVMERDALRM-RDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       140 ~~~~~~l~~~-~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      +++.+.++.. ....+++++||++|.|+++|++++...++
T Consensus       157 ~~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l~  196 (406)
T TIGR03680       157 EEIKEFVKGTVAENAPIIPVSALHNANIDALLEAIEKFIP  196 (406)
T ss_pred             HHHHhhhhhcccCCCeEEEEECCCCCChHHHHHHHHHhCC
Confidence            2223323222 12468999999999999999999998765

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=98.45  E-value=3.7e-07  Score=65.44  Aligned_cols=101  Identities=25%  Similarity=0.282  Sum_probs=67.8

Q ss_pred             cCCcEEEEecCCCeeEEe---eeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAAN---FSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~---~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+.++.++|+.|......   .....+|.+++|+|+..+....         .........+.++++||+|+.+.  ...
T Consensus        43 ~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~--~~~  120 (157)
T cd00882          43 KKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVTDRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEE--RVV  120 (157)
T ss_pred             EEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccc--cch
Confidence            367899999999321111   1234578999999998864321         11223345689999999999876  333


Q ss_pred             HHHH-HHHHhhCCCCCEEEEeccCCCCHHHHHHHHH
Q 029893          140 AVME-RDALRMRDGGPFIFAQVKHGLGVEEIVNHIL  174 (186)
Q Consensus       140 ~~~~-~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~  174 (186)
                      .... .......+..+++++|++++.|++++++++.
T Consensus       121 ~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882         121 SEEELAEQLAKELGVPYFETSAKTGENVEELFEELA  156 (157)
T ss_pred             HHHHHHHHHHhhcCCcEEEEecCCCCChHHHHHHHh
Confidence            2221 2223334568999999999999999999875

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

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

Probab=98.45  E-value=3.9e-07  Score=68.23  Aligned_cols=104  Identities=18%  Similarity=0.233  Sum_probs=74.8

Q ss_pred             cCCcEEEEecCCCe---eEEeeeeecCceEEEEEeCCCCCCCcc--CCCC------CCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDN---LAANFSRELADYIIYIIDVSGGDKIPR--KGGP------GITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~---l~~~~~~~~ad~~v~VvDa~~~~~~~~--~~~~------~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ...|.=|-+|+|-.   --.|..++.++..++|+|.++.+..+.  .|..      .-+.+-+||.||+||.+++....+
T Consensus        60 ~ra~L~IWDTAGQErfHALGPIYYRgSnGalLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLEeeR~Vt~q  139 (218)
T KOG0088|consen   60 CRADLHIWDTAGQERFHALGPIYYRGSNGALLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLEEERQVTRQ  139 (218)
T ss_pred             ceeeeeeeeccchHhhhccCceEEeCCCceEEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHHHhhhhhHH
Confidence            36788889999921   125777888999999999998765332  2211      134578999999999876433334


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      +..+..++.  .|.++.|||+.+.|+.++|+.+.+.+
T Consensus       140 eAe~YAesv--GA~y~eTSAk~N~Gi~elFe~Lt~~M  174 (218)
T KOG0088|consen  140 EAEAYAESV--GALYMETSAKDNVGISELFESLTAKM  174 (218)
T ss_pred             HHHHHHHhh--chhheecccccccCHHHHHHHHHHHH
Confidence            455555544  57999999999999999999877544

>smart00175 RAB Rab subfamily of small GTPases

Probab=98.44  E-value=6.6e-07  Score=66.43  Aligned_cols=103  Identities=18%  Similarity=0.139  Sum_probs=67.7

Q ss_pred             CcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc--CCCC------CCCceeEEEEecCCCCCcccccHHHH
Q 029893           74 ADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR--KGGP------GITQADLLVINKTDLASAIGADLAVM  142 (186)
Q Consensus        74 ~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~--~~~~------~~~~adiivlNK~Dl~~~~~~~~~~~  142 (186)
                      ..+.+++++|...   .....+..+|.+++|+|+.+......  .+..      .-..+.++++||+|+........+..
T Consensus        49 ~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~~~~~~~~  128 (164)
T smart00175       49 VKLQIWDTAGQERFRSITSSYYRGAVGALLVYDITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLEDQRQVSREEA  128 (164)
T ss_pred             EEEEEEECCChHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcccccCCCHHHH
Confidence            5677999999310   01122345799999999987543211  0100      02468999999999876421233444


Q ss_pred             HHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          143 ERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       143 ~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .+..+..  ..+++++||++|.|++++++++.+.+.
T Consensus       129 ~~~~~~~--~~~~~e~Sa~~~~~i~~l~~~i~~~~~  162 (164)
T smart00175      129 EAFAEEH--GLPFFETSAKTNTNVEEAFEELAREIL  162 (164)
T ss_pred             HHHHHHc--CCeEEEEeCCCCCCHHHHHHHHHHHHh
Confidence            4444433  357999999999999999999988764

Rab GTPases are implicated in vesicle trafficking.

>cd04111 Rab39 Rab39 subfamily

Probab=98.44  E-value=7.9e-07  Score=69.96  Aligned_cols=106  Identities=17%  Similarity=0.125  Sum_probs=66.8

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--C-------CCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--K-------GGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~-------~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ...+.|.+|+|...-   ....+..+|.+++|+|.++......  .       ....-..+.++|.||+|+.+......+
T Consensus        51 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~~~  130 (211)
T cd04111          51 RIKLQLWDTAGQERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTRE  130 (211)
T ss_pred             EEEEEEEeCCcchhHHHHHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccccCHH
Confidence            457889999993110   1122346799999999987532110  0       111112346888999999764212223


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      ......+. .+ .+++++||++|.|++++++++.+.+...
T Consensus       131 ~~~~~~~~-~~-~~~~e~Sak~g~~v~e~f~~l~~~~~~~  168 (211)
T cd04111         131 EAEKLAKD-LG-MKYIETSARTGDNVEEAFELLTQEIYER  168 (211)
T ss_pred             HHHHHHHH-hC-CEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            33333333 33 7899999999999999999999866543

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.

>cd01868 Rab11_like Rab11-like

Probab=98.44  E-value=5.2e-07  Score=67.41  Aligned_cols=103  Identities=17%  Similarity=0.138  Sum_probs=65.8

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc--cCCC------CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP--RKGG------PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~~------~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ...+.+.+++|... .  .+..+..++.+++|+|+++.....  ..+.      ..-..+.++|+||+|+.+......++
T Consensus        51 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~~~~~~~~~  130 (165)
T cd01868          51 TIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTEE  130 (165)
T ss_pred             EEEEEEEeCCChHHHHHHHHHHHCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccccCCHHH
Confidence            46788999999311 0  112234578899999998643211  0110      01135789999999997642122333


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      .....+. + ..+++++||++|.|++++++++.+.+
T Consensus       131 ~~~~~~~-~-~~~~~~~Sa~~~~~v~~l~~~l~~~i  164 (165)
T cd01868         131 AKAFAEK-N-GLSFIETSALDGTNVEEAFKQLLTEI  164 (165)
T ss_pred             HHHHHHH-c-CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3333333 2 46899999999999999999987653

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

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

Probab=98.44  E-value=5.5e-07  Score=70.50  Aligned_cols=104  Identities=10%  Similarity=-0.031  Sum_probs=67.3

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc--cCCCC-----CCCceeEEEEecCCCCCcccccHHH
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP--RKGGP-----GITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~--~~~~~-----~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ....+-|.+|+|..-   ..+..++.+|.+++|+|.+......  ..+..     .-..+.++|.||+|+.... ...+.
T Consensus        42 ~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~~S~~~i~~w~~~i~~~~~~~piilvgNK~Dl~~~~-v~~~~  120 (200)
T smart00176       42 GPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRVCENIPIVLCGNKVDVKDRK-VKAKS  120 (200)
T ss_pred             EEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCEEEEEECccccccc-CCHHH
Confidence            457788999999310   0112345689999999998864321  01110     0135789999999986431 11122


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                       .+..+. + ..+++++||++|.|++++|+++.+.+..
T Consensus       121 -~~~~~~-~-~~~~~e~SAk~~~~v~~~F~~l~~~i~~  155 (200)
T smart00176      121 -ITFHRK-K-NLQYYDISAKSNYNFEKPFLWLARKLIG  155 (200)
T ss_pred             -HHHHHH-c-CCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence             222222 2 4689999999999999999999876643

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

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=98.44  E-value=9e-07  Score=79.66  Aligned_cols=98  Identities=14%  Similarity=0.258  Sum_probs=64.0

Q ss_pred             cEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccccHHHHHHHHH
Q 029893           75 DLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGADLAVMERDAL  147 (186)
Q Consensus        75 D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~  147 (186)
                      .+.|++|+|-. ...  ......+|++++|+|+.++...+.    .+......+.++++||+|+.+.   ..+++.+.++
T Consensus       136 ~i~~iDTPGhe~F~~~r~rga~~aDiaILVVda~dgv~~qT~e~i~~~~~~~vPiIVviNKiDl~~~---~~e~v~~~L~  212 (587)
T TIGR00487       136 MITFLDTPGHEAFTSMRARGAKVTDIVVLVVAADDGVMPQTIEAISHAKAANVPIIVAINKIDKPEA---NPDRVKQELS  212 (587)
T ss_pred             EEEEEECCCCcchhhHHHhhhccCCEEEEEEECCCCCCHhHHHHHHHHHHcCCCEEEEEECcccccC---CHHHHHHHHH
Confidence            78899999921 000  011235699999999987653221    1112245689999999999653   2233334433


Q ss_pred             hh-------CCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          148 RM-------RDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       148 ~~-------~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      ..       ....+++++||++|+|++++++++..
T Consensus       213 ~~g~~~~~~~~~~~~v~iSAktGeGI~eLl~~I~~  247 (587)
T TIGR00487       213 EYGLVPEDWGGDTIFVPVSALTGDGIDELLDMILL  247 (587)
T ss_pred             HhhhhHHhcCCCceEEEEECCCCCChHHHHHhhhh
Confidence            22       12357999999999999999998864

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.

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=98.43  E-value=4.6e-07  Score=81.64  Aligned_cols=102  Identities=19%  Similarity=0.225  Sum_probs=66.5

Q ss_pred             CCcEEEEecCCCe-eEEe---------e-eeecCceEEEEEeCCCCCCCccC--CCCCCCceeEEEEecCCCCCcccccH
Q 029893           73 KADLLLCESGGDN-LAAN---------F-SRELADYIIYIIDVSGGDKIPRK--GGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~~---------~-~~~~ad~~v~VvDa~~~~~~~~~--~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      +..+.+++|+|.. ....         + ....+|+++.|+|+++.+.....  .......+.++|+||+|+.++  ...
T Consensus        40 ~~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~VvDat~ler~l~l~~ql~~~~~PiIIVlNK~Dl~~~--~~i  117 (591)
T TIGR00437        40 GEDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVNVVDASNLERNLYLTLQLLELGIPMILALNLVDEAEK--KGI  117 (591)
T ss_pred             CeEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEEEecCCcchhhHHHHHHHHhcCCCEEEEEehhHHHHh--CCC
Confidence            4568899999941 1110         0 11246999999999885432111  011245689999999999755  222


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ..-.+.+.+.. +.|++++||++|+|++++++++.+..
T Consensus       118 ~~d~~~L~~~l-g~pvv~tSA~tg~Gi~eL~~~i~~~~  154 (591)
T TIGR00437       118 RIDEEKLEERL-GVPVVPTSATEGRGIERLKDAIRKAI  154 (591)
T ss_pred             hhhHHHHHHHc-CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            22223444333 36999999999999999999997653

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.

>cd01862 Rab7 Rab7 subfamily

Probab=98.43  E-value=4.2e-07  Score=68.09  Aligned_cols=106  Identities=14%  Similarity=0.082  Sum_probs=66.9

Q ss_pred             CcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc--cCC----CC------CCCceeEEEEecCCCCCccccc
Q 029893           74 ADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP--RKG----GP------GITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        74 ~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~--~~~----~~------~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      ..+-+++++|...-   ....+..+|.+++++|+.+.....  ..+    ..      .-..+.++|+||+|+..+....
T Consensus        49 ~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~  128 (172)
T cd01862          49 VTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQVS  128 (172)
T ss_pred             EEEEEEeCCChHHHHhHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccccC
Confidence            44568899993110   111234579999999997653210  000    00      1145789999999998432123


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      .+......+. ....+++++||++|.|++++++++.+...+.
T Consensus       129 ~~~~~~~~~~-~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~~  169 (172)
T cd01862         129 TKKAQQWCQS-NGNIPYFETSAKEAINVEQAFETIARKALEQ  169 (172)
T ss_pred             HHHHHHHHHH-cCCceEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            3444444433 3346899999999999999999998765543

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-

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=98.43  E-value=4.3e-07  Score=78.53  Aligned_cols=104  Identities=17%  Similarity=0.196  Sum_probs=65.5

Q ss_pred             CcEEEEecCCCe-eEEee--eeecCceEEEEEeCCCCC-CCcc-C---CCCCCCc-eeEEEEecCCCCCcccccHH----
Q 029893           74 ADLLLCESGGDN-LAANF--SRELADYIIYIIDVSGGD-KIPR-K---GGPGITQ-ADLLVINKTDLASAIGADLA----  140 (186)
Q Consensus        74 ~D~iiIEtsG~~-l~~~~--~~~~ad~~v~VvDa~~~~-~~~~-~---~~~~~~~-adiivlNK~Dl~~~~~~~~~----  140 (186)
                      ..+.|++|+|-. ....+  ....+|.+++|+|+.++. ..+. .   ....... +-++|+||+|+.++  .+..    
T Consensus        85 ~~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~l~~~~i~~iiVVlNK~Dl~~~--~~~~~~~~  162 (411)
T PRK04000         85 RRVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKEHLMALDIIGIKNIVIVQNKIDLVSK--ERALENYE  162 (411)
T ss_pred             cEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHHHHHHHcCCCcEEEEEEeeccccc--hhHHHHHH
Confidence            568899999921 10111  112359999999999764 2211 0   1111222 46888999999875  3332    


Q ss_pred             HHHHHHHhh-CCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          141 VMERDALRM-RDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       141 ~~~~~l~~~-~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ++...++.. ....+++++||++|.|+++|+++|...++.
T Consensus       163 ~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l~~  202 (411)
T PRK04000        163 QIKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEIPT  202 (411)
T ss_pred             HHHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhCCC
Confidence            222222221 235789999999999999999999987653

>cd00157 Rho Rho (Ras homology) family

Probab=98.43  E-value=8e-07  Score=66.52  Aligned_cols=102  Identities=17%  Similarity=0.101  Sum_probs=64.8

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc---CCC-----CCCCceeEEEEecCCCCCcccc----
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR---KGG-----PGITQADLLVINKTDLASAIGA----  137 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~---~~~-----~~~~~adiivlNK~Dl~~~~~~----  137 (186)
                      ...+.+++|+|...-   .+..+..+|++++|+|+++......   .+.     .....+.++|+||+|+.+....    
T Consensus        47 ~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~  126 (171)
T cd00157          47 QVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICFSVDSPSSFENVKTKWIPEIRHYCPNVPIILVGTKIDLRDDENTLKKL  126 (171)
T ss_pred             EEEEEEEeCCCcccccccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEccHHhhhchhhhhhc
Confidence            567889999993210   1122345799999999987432111   000     0114688999999999866211    


Q ss_pred             -------cHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          138 -------DLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       138 -------~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                             ..+...+.... ....+++++||++|.|++++++++.+
T Consensus       127 ~~~~~~v~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~~~i~~  170 (171)
T cd00157         127 EKGKEPITPEEGEKLAKE-IGAIGYMECSALTQEGVKEVFEEAIR  170 (171)
T ss_pred             ccCCCccCHHHHHHHHHH-hCCeEEEEeecCCCCCHHHHHHHHhh
Confidence                   11222222233 33448999999999999999998864

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

>PRK12289 GTPase RsgA; Reviewed

Probab=98.42  E-value=8.7e-07  Score=75.08  Aligned_cols=78  Identities=21%  Similarity=0.288  Sum_probs=54.2

Q ss_pred             cCceEEEEEeCCCCCCCc---cCCC---CCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHH
Q 029893           94 LADYIIYIIDVSGGDKIP---RKGG---PGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVE  167 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~~---~~~~---~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~  167 (186)
                      .+|.+++|+|+.+++...   ..+.   .....+.++|+||+||+++  .+.+...+.++.+  ..+++++||++|.|++
T Consensus        89 NvD~vLlV~d~~~p~~~~~~LdR~L~~a~~~~ip~ILVlNK~DLv~~--~~~~~~~~~~~~~--g~~v~~iSA~tg~GI~  164 (352)
T PRK12289         89 NADQILLVFALAEPPLDPWQLSRFLVKAESTGLEIVLCLNKADLVSP--TEQQQWQDRLQQW--GYQPLFISVETGIGLE  164 (352)
T ss_pred             cCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEchhcCCh--HHHHHHHHHHHhc--CCeEEEEEcCCCCCHH
Confidence            469999999987643211   1111   1134578999999999876  4444444445443  3479999999999999


Q ss_pred             HHHHHHHH
Q 029893          168 EIVNHILQ  175 (186)
Q Consensus       168 ~l~~~i~~  175 (186)
                      +|++++..
T Consensus       165 eL~~~L~~  172 (352)
T PRK12289        165 ALLEQLRN  172 (352)
T ss_pred             HHhhhhcc
Confidence            99998753

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=98.42  E-value=6.9e-07  Score=67.47  Aligned_cols=102  Identities=16%  Similarity=0.097  Sum_probs=66.3

Q ss_pred             cCCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .++.+.+++++|..-..   ...+..+|.+++|+|++.......         ........+.++|+||+|+.+.  ...
T Consensus        41 ~~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~--~~~  118 (167)
T cd04161          41 DKYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNA--LLG  118 (167)
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEECCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCC--CCH
Confidence            46788999999931101   122456899999999987542210         1111235689999999999765  333


Q ss_pred             HHHHHHH--Hhh----CCCCCEEEEeccCC------CCHHHHHHHHHH
Q 029893          140 AVMERDA--LRM----RDGGPFIFAQVKHG------LGVEEIVNHILQ  175 (186)
Q Consensus       140 ~~~~~~l--~~~----~p~a~i~~~Sa~~g------~gi~~l~~~i~~  175 (186)
                      .++.+.+  ..+    ....+++++||++|      +|+++-++|+.+
T Consensus       119 ~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~~~~g~~~~~~wl~~  166 (167)
T cd04161         119 ADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKIDPSIVEGLRWLLA  166 (167)
T ss_pred             HHHHHhcCcccccCCCCceEEEEEeEceeCCCCccccCHHHHHHHHhc
Confidence            3333322  222    12247888999998      899999999864

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.

>cd01871 Rac1_like Rac1-like subfamily

Probab=98.41  E-value=2.5e-07  Score=70.47  Aligned_cols=103  Identities=14%  Similarity=0.103  Sum_probs=65.0

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc---CCCC-----CCCceeEEEEecCCCCCccc----
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR---KGGP-----GITQADLLVINKTDLASAIG----  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~---~~~~-----~~~~adiivlNK~Dl~~~~~----  136 (186)
                      ....+.|.+|+|...   ..+..+..+|.+|+|+|.++.+....   .+..     .-..+.++|.||+||.+...    
T Consensus        47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~  126 (174)
T cd01871          47 KPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEK  126 (174)
T ss_pred             EEEEEEEEECCCchhhhhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhccChhhHHH
Confidence            356788999999311   11223446899999999987543211   1110     01358899999999965310    


Q ss_pred             --------ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          137 --------ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       137 --------~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                              ...++..+..++. +..+++++||++|.|++++++.+.+
T Consensus       127 ~~~~~~~~v~~~~~~~~~~~~-~~~~~~e~Sa~~~~~i~~~f~~l~~  172 (174)
T cd01871         127 LKEKKLTPITYPQGLAMAKEI-GAVKYLECSALTQKGLKTVFDEAIR  172 (174)
T ss_pred             HhhccCCCCCHHHHHHHHHHc-CCcEEEEecccccCCHHHHHHHHHH
Confidence                    0112222223333 3358999999999999999998875

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

>cd04116 Rab9 Rab9 subfamily

Probab=98.41  E-value=9e-07  Score=66.48  Aligned_cols=103  Identities=10%  Similarity=0.049  Sum_probs=66.5

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc--c-------CCCC---CCCceeEEEEecCCCCCccc
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP--R-------KGGP---GITQADLLVINKTDLASAIG  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~--~-------~~~~---~~~~adiivlNK~Dl~~~~~  136 (186)
                      ..+.+.|.+|+|..-   ..+..+..+|.+++|+|..+.....  .       .+..   .-..|.++|+||+|+.+.. 
T Consensus        52 ~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-  130 (170)
T cd04116          52 HFVTLQIWDTAGQERFRSLRTPFYRGSDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIPERQ-  130 (170)
T ss_pred             eEEEEEEEeCCChHHHHHhHHHHhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECccccccc-
Confidence            356788899999210   0112234679999999987653211  0       0111   1235789999999997431 


Q ss_pred             ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          137 ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       137 ~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      ...++..+..++. ...+++++||++|.|+.++++++.+.
T Consensus       131 ~~~~~~~~~~~~~-~~~~~~e~Sa~~~~~v~~~~~~~~~~  169 (170)
T cd04116         131 VSTEEAQAWCREN-GDYPYFETSAKDATNVAAAFEEAVRR  169 (170)
T ss_pred             cCHHHHHHHHHHC-CCCeEEEEECCCCCCHHHHHHHHHhh
Confidence            2334455544543 34589999999999999999988764

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

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.41  E-value=8.8e-07  Score=73.06  Aligned_cols=85  Identities=21%  Similarity=0.194  Sum_probs=58.9

Q ss_pred             ecCceEEEEEeCCCCCCCccC-CCCCC-CceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHH
Q 029893           93 ELADYIIYIIDVSGGDKIPRK-GGPGI-TQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIV  170 (186)
Q Consensus        93 ~~ad~~v~VvDa~~~~~~~~~-~~~~~-~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~  170 (186)
                      ..+|+++.|+|+..+...... ....+ ..+.++|+||+||.+.  ...+...+.+++.  ..+++.+||+++.|+++|+
T Consensus        23 ~~aDvIL~VvDar~p~~~~~~~l~~~~~~kp~iiVlNK~DL~~~--~~~~~~~~~~~~~--~~~vi~vSa~~~~gi~~L~   98 (287)
T PRK09563         23 KLVDVVIEVLDARIPLSSENPMIDKIIGNKPRLLILNKSDLADP--EVTKKWIEYFEEQ--GIKALAINAKKGQGVKKIL   98 (287)
T ss_pred             hhCCEEEEEEECCCCCCCCChhHHHHhCCCCEEEEEEchhcCCH--HHHHHHHHHHHHc--CCeEEEEECCCcccHHHHH
Confidence            357999999999765432211 11111 4678999999999765  3343443444332  3578999999999999999


Q ss_pred             HHHHHHHHHhh
Q 029893          171 NHILQAWEAST  181 (186)
Q Consensus       171 ~~i~~~~~~~~  181 (186)
                      +.+.+.++...
T Consensus        99 ~~l~~~l~~~~  109 (287)
T PRK09563         99 KAAKKLLKEKN  109 (287)
T ss_pred             HHHHHHHHHHH
Confidence            99998887654

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.40  E-value=1.1e-06  Score=71.02  Aligned_cols=78  Identities=15%  Similarity=0.122  Sum_probs=52.5

Q ss_pred             ecCceEEEEEeCCCCCCC---ccCCC---CCCCceeEEEEecCCCCCcccccHH-HHHHHHHhhCCCCCEEEEeccCCCC
Q 029893           93 ELADYIIYIIDVSGGDKI---PRKGG---PGITQADLLVINKTDLASAIGADLA-VMERDALRMRDGGPFIFAQVKHGLG  165 (186)
Q Consensus        93 ~~ad~~v~VvDa~~~~~~---~~~~~---~~~~~adiivlNK~Dl~~~~~~~~~-~~~~~l~~~~p~a~i~~~Sa~~g~g  165 (186)
                      ..+|.+++|+|+.++...   ...+.   ..-..+.++|+||+||.++  .+.. +..+..++  ...+++++||++|+|
T Consensus        35 ~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~~~i~~vIV~NK~DL~~~--~~~~~~~~~~~~~--~g~~v~~~SAktg~g  110 (245)
T TIGR00157        35 ANIDQIVIVSSAVLPELSLNQLDRFLVVAEAQNIEPIIVLNKIDLLDD--EDMEKEQLDIYRN--IGYQVLMTSSKNQDG  110 (245)
T ss_pred             ccCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEECcccCCC--HHHHHHHHHHHHH--CCCeEEEEecCCchh
Confidence            457999999999875421   11111   1123578999999999865  2222 22333433  246899999999999


Q ss_pred             HHHHHHHHH
Q 029893          166 VEEIVNHIL  174 (186)
Q Consensus       166 i~~l~~~i~  174 (186)
                      ++++++.+.
T Consensus       111 i~eLf~~l~  119 (245)
T TIGR00157       111 LKELIEALQ  119 (245)
T ss_pred             HHHHHhhhc
Confidence            999998875

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>cd04125 RabA_like RabA-like subfamily

Probab=98.40  E-value=8.2e-07  Score=68.13  Aligned_cols=106  Identities=17%  Similarity=0.144  Sum_probs=66.8

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc--CCC------CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR--KGG------PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~--~~~------~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+-+.+|+|..-   .....+..+|.+++|+|.++......  .+.      ..-..+-++++||+|+.+........
T Consensus        48 ~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~~v~~~~  127 (188)
T cd04125          48 IIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVYDVTDQESFENLKFWINEINRYARENVIKVIVANKSDLVNNKVVDSNI  127 (188)
T ss_pred             EEEEEEEECCCcHHHHhhHHHHccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCcccccCCHHH
Confidence            46778899999310   01122346899999999987543110  010      00124679999999998552112222


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      .....+..  ..+++++||++|.|++++++++.+.....
T Consensus       128 ~~~~~~~~--~~~~~evSa~~~~~i~~~f~~l~~~~~~~  164 (188)
T cd04125         128 AKSFCDSL--NIPFFETSAKQSINVEEAFILLVKLIIKR  164 (188)
T ss_pred             HHHHHHHc--CCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            22222322  34899999999999999999988776543

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.

>cd01870 RhoA_like RhoA-like subfamily

Probab=98.40  E-value=7.4e-07  Score=67.20  Aligned_cols=104  Identities=20%  Similarity=0.185  Sum_probs=63.9

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc---cCCCC-----CCCceeEEEEecCCCCCcccc---
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP---RKGGP-----GITQADLLVINKTDLASAIGA---  137 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~---~~~~~-----~~~~adiivlNK~Dl~~~~~~---  137 (186)
                      ....+.+.||+|..-   ..+..+..+|.+++|+|..+.+...   ..+..     .-..+.++|+||+|+.+....   
T Consensus        47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~~~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~  126 (175)
T cd01870          47 KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRE  126 (175)
T ss_pred             EEEEEEEEeCCCchhhhhccccccCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhcccChhhhhh
Confidence            356789999999311   1122334578999999987643210   11110     014578999999998754100   


Q ss_pred             ---------cHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          138 ---------DLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       138 ---------~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                               ......+..+.. ...+++++||++|.|++++++++.+.
T Consensus       127 i~~~~~~~v~~~~~~~~~~~~-~~~~~~~~Sa~~~~~v~~lf~~l~~~  173 (175)
T cd01870         127 LAKMKQEPVKPEEGRDMANKI-GAFGYMECSAKTKEGVREVFEMATRA  173 (175)
T ss_pred             hhhccCCCccHHHHHHHHHHc-CCcEEEEeccccCcCHHHHHHHHHHH
Confidence                     011112222222 23489999999999999999998764

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=98.39  E-value=6.9e-07  Score=66.87  Aligned_cols=103  Identities=17%  Similarity=0.157  Sum_probs=65.3

Q ss_pred             CCcEEEEecCCCeeEEe----eeeecCceEEEEEeCCCCCCCc---------cCCCC-CCCceeEEEEecCCCCCccccc
Q 029893           73 KADLLLCESGGDNLAAN----FSRELADYIIYIIDVSGGDKIP---------RKGGP-GITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~----~~~~~ad~~v~VvDa~~~~~~~---------~~~~~-~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      ...+-|++|+|......    ..+..+|.+++|+|+++.....         ..... ....|.++|+||+|+.......
T Consensus        46 ~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~  125 (165)
T cd04146          46 QVSLEILDTAGQQQADTEQLERSIRWADGFVLVYSITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYRQVS  125 (165)
T ss_pred             EEEEEEEECCCCcccccchHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhCccC
Confidence            45677899999321001    1223579999999998764321         01111 2246789999999986542112


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCC-CCHHHHHHHHHHHH
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHG-LGVEEIVNHILQAW  177 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g-~gi~~l~~~i~~~~  177 (186)
                      .+......+..+  .+++++||++| .|++++|+.+.+.+
T Consensus       126 ~~~~~~~~~~~~--~~~~e~Sa~~~~~~v~~~f~~l~~~~  163 (165)
T cd04146         126 TEEGEKLASELG--CLFFEVSAAEDYDGVHSVFHELCREV  163 (165)
T ss_pred             HHHHHHHHHHcC--CEEEEeCCCCCchhHHHHHHHHHHHH
Confidence            233333333333  68999999999 59999999998754

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

>cd01874 Cdc42 Cdc42 subfamily

Probab=98.39  E-value=4.2e-07  Score=69.30  Aligned_cols=102  Identities=16%  Similarity=0.110  Sum_probs=64.3

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc---cCCCCC-----CCceeEEEEecCCCCCccc-----
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP---RKGGPG-----ITQADLLVINKTDLASAIG-----  136 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~---~~~~~~-----~~~adiivlNK~Dl~~~~~-----  136 (186)
                      .+.+.|.+|+|..--   .+..+..+|.+++|+|.++.....   ..+...     -..|.++|.||+|+.+...     
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~l  127 (175)
T cd01874          48 PYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKL  127 (175)
T ss_pred             EEEEEEEECCCccchhhhhhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEECHhhhhChhhHHHh
Confidence            467889999993210   122344689999999998754321   111110     1357899999999865410     


Q ss_pred             -------ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          137 -------ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       137 -------~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                             ...++..+..++ .+..+++++||++|.|++++|+.+.+
T Consensus       128 ~~~~~~~v~~~~~~~~a~~-~~~~~~~e~SA~tg~~v~~~f~~~~~  172 (175)
T cd01874         128 AKNKQKPITPETGEKLARD-LKAVKYVECSALTQKGLKNVFDEAIL  172 (175)
T ss_pred             hhccCCCcCHHHHHHHHHH-hCCcEEEEecCCCCCCHHHHHHHHHH
Confidence                   011112222222 33468999999999999999998876

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=98.39  E-value=1.4e-06  Score=66.03  Aligned_cols=105  Identities=19%  Similarity=0.090  Sum_probs=65.4

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc--cCCCC-----CC--CceeEEEEecCCCCCccccc--
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP--RKGGP-----GI--TQADLLVINKTDLASAIGAD--  138 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~--~~~~~-----~~--~~adiivlNK~Dl~~~~~~~--  138 (186)
                      ...+-|.||+|..-   ..+..+..+|++++|+|+++.....  ..+..     ..  ..+.++|.||+|+.+.....  
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~  127 (170)
T cd04108          48 PFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALM  127 (170)
T ss_pred             EEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCcccccccc
Confidence            45788999999310   0112345689999999997743211  11110     00  13578999999997542111  


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      .+......++.  ..+++++||++|.|++++++.+.+...+
T Consensus       128 ~~~~~~~~~~~--~~~~~e~Sa~~g~~v~~lf~~l~~~~~~  166 (170)
T cd04108         128 EQDAIKLAAEM--QAEYWSVSALSGENVREFFFRVAALTFE  166 (170)
T ss_pred             HHHHHHHHHHc--CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            11222222332  3589999999999999999999887754

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

>cd04177 RSR1 RSR1 subgroup

Probab=98.38  E-value=2e-06  Score=64.72  Aligned_cols=104  Identities=14%  Similarity=0.157  Sum_probs=65.0

Q ss_pred             CCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCc--cC-------CCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIP--RK-------GGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~--~~-------~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ...+-+++|+|.. ...  ...+..++.+++|+|.++.....  ..       ....-..|.++++||+|+.+......+
T Consensus        48 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~~~~  127 (168)
T cd04177          48 QCDLEILDTAGTEQFTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSRE  127 (168)
T ss_pred             EEEEEEEeCCCcccchhhhHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCccCHH
Confidence            3567889999931 100  11223468889999988753211  00       011124578899999999765212223


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ......+. ....+++++||++|.|++++++++.+.+
T Consensus       128 ~~~~~~~~-~~~~~~~~~SA~~~~~i~~~f~~i~~~~  163 (168)
T cd04177         128 DGVSLSQQ-WGNVPFYETSARKRTNVDEVFIDLVRQI  163 (168)
T ss_pred             HHHHHHHH-cCCceEEEeeCCCCCCHHHHHHHHHHHH
Confidence            33332233 3346899999999999999999998654

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

>cd01875 RhoG RhoG subfamily

Probab=98.38  E-value=4.1e-07  Score=70.36  Aligned_cols=108  Identities=17%  Similarity=0.123  Sum_probs=67.8

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc---CCCC-----CCCceeEEEEecCCCCCccc----
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR---KGGP-----GITQADLLVINKTDLASAIG----  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~---~~~~-----~~~~adiivlNK~Dl~~~~~----  136 (186)
                      ..+.+-|.+|+|-.-   ..+..+..+|.+|+|+|.++......   .+..     .-..+.++|.||.||.+...    
T Consensus        49 ~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilvydit~~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~~~~~~~~  128 (191)
T cd01875          49 RTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHCPNVPILLVGTKKDLRNDADTLKK  128 (191)
T ss_pred             EEEEEEEEECCCchhhhhhhhhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEeChhhhcChhhHHH
Confidence            457788999999310   11223456899999999987543210   1110     01358899999999965410    


Q ss_pred             --------ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          137 --------ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       137 --------~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                              ...++..+..++. ...+++++||++|.|++++|+++.+.+-..
T Consensus       129 ~~~~~~~~v~~~~~~~~a~~~-~~~~~~e~SAk~g~~v~e~f~~l~~~~~~~  179 (191)
T cd01875         129 LKEQGQAPITPQQGGALAKQI-HAVKYLECSALNQDGVKEVFAEAVRAVLNP  179 (191)
T ss_pred             HhhccCCCCCHHHHHHHHHHc-CCcEEEEeCCCCCCCHHHHHHHHHHHHhcc
Confidence                    0011122222222 234899999999999999999998766543

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

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=98.38  E-value=1.2e-06  Score=80.92  Aligned_cols=101  Identities=15%  Similarity=0.269  Sum_probs=65.3

Q ss_pred             CCcEEEEecCCCeeEEee---eeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccccHHHHHHH
Q 029893           73 KADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGADLAVMERD  145 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~~---~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~  145 (186)
                      +..+.|++|+|-.--...   ....+|++++|+|+.++...+.    .+......+.++++||+|+.+.   ..+.+...
T Consensus       336 ~~~ItfiDTPGhe~F~~m~~rga~~aDiaILVVdAddGv~~qT~e~i~~a~~~~vPiIVviNKiDl~~a---~~e~V~~e  412 (787)
T PRK05306        336 GGKITFLDTPGHEAFTAMRARGAQVTDIVVLVVAADDGVMPQTIEAINHAKAAGVPIIVAINKIDKPGA---NPDRVKQE  412 (787)
T ss_pred             CEEEEEEECCCCccchhHHHhhhhhCCEEEEEEECCCCCCHhHHHHHHHHHhcCCcEEEEEECcccccc---CHHHHHHH
Confidence            456789999992100000   1234699999999988643221    1122245689999999999653   22333333


Q ss_pred             HHh-------hCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          146 ALR-------MRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       146 l~~-------~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      +..       +....+++++||++|.|+++|++++...
T Consensus       413 L~~~~~~~e~~g~~vp~vpvSAktG~GI~eLle~I~~~  450 (787)
T PRK05306        413 LSEYGLVPEEWGGDTIFVPVSAKTGEGIDELLEAILLQ  450 (787)
T ss_pred             HHHhcccHHHhCCCceEEEEeCCCCCCchHHHHhhhhh
Confidence            322       2234689999999999999999998753

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=98.37  E-value=2.9e-07  Score=72.90  Aligned_cols=96  Identities=15%  Similarity=0.184  Sum_probs=57.3

Q ss_pred             cCCcEEEEecCCCe-eEEe-e-eeecCceEEEEEeCCCCCC-------Ccc----CCCCCCC-ceeEEEEecCCCCCc--
Q 029893           72 FKADLLLCESGGDN-LAAN-F-SRELADYIIYIIDVSGGDK-------IPR----KGGPGIT-QADLLVINKTDLASA--  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~~-~-~~~~ad~~v~VvDa~~~~~-------~~~----~~~~~~~-~adiivlNK~Dl~~~--  134 (186)
                      .++.+.|++|+|.. .... + ....+|.+++|+|+..+..       ...    ....... .+.++++||+|+.+.  
T Consensus        75 ~~~~i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiivvNK~Dl~~~~~  154 (219)
T cd01883          75 EKYRFTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLARTLGVKQLIVAVNKMDDVTVNW  154 (219)
T ss_pred             CCeEEEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHHHHcCCCeEEEEEEccccccccc
Confidence            47789999999931 0000 1 1234799999999988521       000    0011123 356779999999842  


Q ss_pred             ccccHHHHHHHH----HhhC---CCCCEEEEeccCCCCHH
Q 029893          135 IGADLAVMERDA----LRMR---DGGPFIFAQVKHGLGVE  167 (186)
Q Consensus       135 ~~~~~~~~~~~l----~~~~---p~a~i~~~Sa~~g~gi~  167 (186)
                      .....+.+.+.+    +...   ...+++++||++|.|++
T Consensus       155 ~~~~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~  194 (219)
T cd01883         155 SEERYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLI  194 (219)
T ss_pred             cHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence            112233344333    3322   13689999999999986

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

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=98.37  E-value=3.5e-06  Score=60.85  Aligned_cols=99  Identities=22%  Similarity=0.198  Sum_probs=74.0

Q ss_pred             cEEEEecCCCeeEEeee-------eecCceEEEEEeCCCCCCC-ccCCCCCCCceeEEEEecCCCCCcccccHHHHHHHH
Q 029893           75 DLLLCESGGDNLAANFS-------RELADYIIYIIDVSGGDKI-PRKGGPGITQADLLVINKTDLASAIGADLAVMERDA  146 (186)
Q Consensus        75 D~iiIEtsG~~l~~~~~-------~~~ad~~v~VvDa~~~~~~-~~~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l  146 (186)
                      |.-.|+|.|.-+..+..       ...+|+++.|-.+.++... +..+...+.++.|-|++|+||+++  ++++..+.++
T Consensus        38 d~~~IDTPGEy~~~~~~Y~aL~tt~~dadvi~~v~~and~~s~f~p~f~~~~~k~vIgvVTK~DLaed--~dI~~~~~~L  115 (148)
T COG4917          38 DKGDIDTPGEYFEHPRWYHALITTLQDADVIIYVHAANDPESRFPPGFLDIGVKKVIGVVTKADLAED--ADISLVKRWL  115 (148)
T ss_pred             CccccCCchhhhhhhHHHHHHHHHhhccceeeeeecccCccccCCcccccccccceEEEEecccccch--HhHHHHHHHH
Confidence            66789999942222211       1246888888887776442 334444556679999999999987  7888888898


Q ss_pred             HhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          147 LRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       147 ~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      ++.. ..+||.+|+....|+++|++++...
T Consensus       116 ~eaG-a~~IF~~s~~d~~gv~~l~~~L~~~  144 (148)
T COG4917         116 REAG-AEPIFETSAVDNQGVEELVDYLASL  144 (148)
T ss_pred             HHcC-CcceEEEeccCcccHHHHHHHHHhh
Confidence            8875 5699999999999999999988654

>cd04135 Tc10 TC10 subfamily

Probab=98.36  E-value=1.8e-06  Score=65.00  Aligned_cols=103  Identities=14%  Similarity=0.097  Sum_probs=64.0

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc---CC-----CCCCCceeEEEEecCCCCCccc-----
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR---KG-----GPGITQADLLVINKTDLASAIG-----  136 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~---~~-----~~~~~~adiivlNK~Dl~~~~~-----  136 (186)
                      .+.+-+++|+|...   ..+..+..+|++++|+|..+......   .+     ...-..+.++|+||+|+.+...     
T Consensus        47 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~~~~~~~s~~~~~~~~~~~l~~~~~~~piivv~nK~Dl~~~~~~~~~~  126 (174)
T cd04135          47 QYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPYLLVGTQIDLRDDPKTLARL  126 (174)
T ss_pred             EEEEEEEeCCCcccccccccccCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeEchhhhcChhhHHHH
Confidence            45677899999321   11223345799999999887533110   01     0122457899999999865410     


Q ss_pred             -------ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          137 -------ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       137 -------~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                             -..++.....+. ....+++++||++|.|++++++.+.+.
T Consensus       127 ~~~~~~~v~~~~~~~~~~~-~~~~~~~e~Sa~~~~gi~~~f~~~~~~  172 (174)
T cd04135         127 NDMKEKPVTVEQGQKLAKE-IGAHCYVECSALTQKGLKTVFDEAILA  172 (174)
T ss_pred             hhccCCCCCHHHHHHHHHH-cCCCEEEEecCCcCCCHHHHHHHHHHH
Confidence                   011222223333 334579999999999999999988764

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

>PRK14845 translation initiation factor IF-2; Provisional

Probab=98.36  E-value=1.6e-06  Score=82.02  Aligned_cols=105  Identities=18%  Similarity=0.226  Sum_probs=64.5

Q ss_pred             CcEEEEecCCCe-eE--EeeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCccc--c-------
Q 029893           74 ADLLLCESGGDN-LA--ANFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASAIG--A-------  137 (186)
Q Consensus        74 ~D~iiIEtsG~~-l~--~~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~~~--~-------  137 (186)
                      |.+.|++|+|-. ..  .......+|++++|+|++++...+..    .......+-++++||+|+.+...  .       
T Consensus       526 p~i~fiDTPGhe~F~~lr~~g~~~aDivlLVVDa~~Gi~~qT~e~I~~lk~~~iPiIVViNKiDL~~~~~~~~~~~~~~~  605 (1049)
T PRK14845        526 PGLLFIDTPGHEAFTSLRKRGGSLADLAVLVVDINEGFKPQTIEAINILRQYKTPFVVAANKIDLIPGWNISEDEPFLLN  605 (1049)
T ss_pred             CcEEEEECCCcHHHHHHHHhhcccCCEEEEEEECcccCCHhHHHHHHHHHHcCCCEEEEEECCCCccccccccchhhhhh
Confidence            458999999921 00  01122357999999999876432211    11123458899999999975311  0       


Q ss_pred             ---c----HHHHHHH-------HH-------------hhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          138 ---D----LAVMERD-------AL-------------RMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       138 ---~----~~~~~~~-------l~-------------~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                         +    ..++...       +.             .+....+++++||+||+|+++|+.++....+
T Consensus       606 ~~~q~~~~~~el~~~l~~v~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l~~  673 (1049)
T PRK14845        606 FNEQDQHALTELEIKLYELIGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGLAQ  673 (1049)
T ss_pred             hhhhHHHHHHHHHHHHHHHhhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHhhH
Confidence               0    1111111       11             1223579999999999999999998865433

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=98.36  E-value=1.2e-06  Score=78.78  Aligned_cols=104  Identities=17%  Similarity=0.141  Sum_probs=64.1

Q ss_pred             CcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCcccc---------
Q 029893           74 ADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASAIGA---------  137 (186)
Q Consensus        74 ~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~~~~---------  137 (186)
                      +.+.|++|+|-.- .  ....+..+|.+++|+|++++...+..    .......+.++++||+|+.+....         
T Consensus        69 ~~l~~iDTpG~e~f~~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~~l~~~~vpiIVv~NK~Dl~~~~~~~~~~~f~e~  148 (590)
T TIGR00491        69 PGLLFIDTPGHEAFTNLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYKTPFVVAANKIDRIPGWRSHEGRPFMES  148 (590)
T ss_pred             CcEEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCcCCCHhHHHHHHHHHHcCCCEEEEEECCCccchhhhccCchHHHH
Confidence            3489999999210 0  00122457999999999886432211    112234578999999999742100         


Q ss_pred             ---cHHHH-----------HHHHH-------------hhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          138 ---DLAVM-----------ERDAL-------------RMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       138 ---~~~~~-----------~~~l~-------------~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                         +...+           ...+.             ......+++++||+||+|+++|++++....
T Consensus       149 sak~~~~v~~~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l~  215 (590)
T TIGR00491       149 FSKQEIQVQQNLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGLA  215 (590)
T ss_pred             HHhhhHHHHHHHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHHH
Confidence               00000           01111             223457999999999999999999886533

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.

>cd04117 Rab15 Rab15 subfamily

Probab=98.36  E-value=1.4e-06  Score=65.29  Aligned_cols=102  Identities=14%  Similarity=0.068  Sum_probs=64.3

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--CC------CCCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--KG------GPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~~------~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+-|.+|+|..--   .+..+..+|.+++|+|.++......  .+      ...-..+.++|.||.|+.++.....++
T Consensus        48 ~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~  127 (161)
T cd04117          48 KVRIQIWDTAGQERYQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQVGDEQ  127 (161)
T ss_pred             EEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHH
Confidence            456778899993100   1112345799999999887532110  10      011235789999999997652112223


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      .....+..+  .+++++||++|.|++++|+++.+.
T Consensus       128 ~~~~~~~~~--~~~~e~Sa~~~~~v~~~f~~l~~~  160 (161)
T cd04117         128 GNKLAKEYG--MDFFETSACTNSNIKESFTRLTEL  160 (161)
T ss_pred             HHHHHHHcC--CEEEEEeCCCCCCHHHHHHHHHhh
Confidence            333333332  689999999999999999998764

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

>cd04133 Rop_like Rop subfamily

Probab=98.36  E-value=7.4e-07  Score=68.33  Aligned_cols=105  Identities=17%  Similarity=0.129  Sum_probs=67.6

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc---cCCCCC-----CCceeEEEEecCCCCCccc----
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP---RKGGPG-----ITQADLLVINKTDLASAIG----  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~---~~~~~~-----~~~adiivlNK~Dl~~~~~----  136 (186)
                      ..+.+-|.+|+|..-   ..+..+..++.+++|+|.++.....   ..+..+     -..+-++|.||+||.+...    
T Consensus        47 ~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~  126 (176)
T cd04133          47 NTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLISRASYENVLKKWVPELRHYAPNVPIVLVGTKLDLRDDKQYLAD  126 (176)
T ss_pred             EEEEEEEEECCCCccccccchhhcCCCcEEEEEEEcCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhccChhhhhh
Confidence            357788999999311   1223345689999999998754321   111111     1357899999999965310    


Q ss_pred             ------ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          137 ------ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       137 ------~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                            ...++..+..++. ...+++++||++|.|++++|+.+.+.+
T Consensus       127 ~~~~~~v~~~~~~~~a~~~-~~~~~~E~SAk~~~nV~~~F~~~~~~~  172 (176)
T cd04133         127 HPGASPITTAQGEELRKQI-GAAAYIECSSKTQQNVKAVFDAAIKVV  172 (176)
T ss_pred             ccCCCCCCHHHHHHHHHHc-CCCEEEECCCCcccCHHHHHHHHHHHH
Confidence                  1223333333333 233699999999999999999998754

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,

>cd04118 Rab24 Rab24 subfamily

Probab=98.36  E-value=1e-06  Score=67.74  Aligned_cols=103  Identities=15%  Similarity=0.103  Sum_probs=64.2

Q ss_pred             CcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc--cCCC---CC--CCceeEEEEecCCCCCccc--c--cH
Q 029893           74 ADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP--RKGG---PG--ITQADLLVINKTDLASAIG--A--DL  139 (186)
Q Consensus        74 ~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~--~~~~---~~--~~~adiivlNK~Dl~~~~~--~--~~  139 (186)
                      ..+-|.+|.|..-.   ....+..+|.+++|+|.++.....  ..+.   .+  -..+.++|+||+|+.+...  .  ..
T Consensus        50 ~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~v~~  129 (193)
T cd04118          50 VTLGIWDTAGSERYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNLEEHCKIYLCGTKSDLIEQDRSLRQVDF  129 (193)
T ss_pred             EEEEEEECCCchhhhhhhHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHhcCCCCCEEEEEEcccccccccccCccCH
Confidence            45568899993110   111234689999999997753221  0111   11  1357899999999975310  0  11


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ....+..+..  ..+++++||++|.|++++++++.+.+-
T Consensus       130 ~~~~~~~~~~--~~~~~~~Sa~~~~gv~~l~~~i~~~~~  166 (193)
T cd04118         130 HDVQDFADEI--KAQHFETSSKTGQNVDELFQKVAEDFV  166 (193)
T ss_pred             HHHHHHHHHc--CCeEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            2222222222  368999999999999999999987663

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

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

Probab=98.36  E-value=1.5e-06  Score=67.23  Aligned_cols=104  Identities=22%  Similarity=0.234  Sum_probs=70.2

Q ss_pred             CCcEEEEecCCC----eeEEeeeeecCceEEEEEeCCCCCCCc--cCCCCC------C-CceeEEEEecCCCCCcccccH
Q 029893           73 KADLLLCESGGD----NLAANFSRELADYIIYIIDVSGGDKIP--RKGGPG------I-TQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        73 ~~D~iiIEtsG~----~l~~~~~~~~ad~~v~VvDa~~~~~~~--~~~~~~------~-~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+-+=+=+|+|=    ++ .|..++.+.+.|+|+|.++.....  .+|...      - ..-.++|.||.||++++....
T Consensus        70 ~vrLQlWDTAGQERFrsl-ipsY~Rds~vaviVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~  148 (221)
T KOG0094|consen   70 TVRLQLWDTAGQERFRSL-IPSYIRDSSVAVIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSI  148 (221)
T ss_pred             EEEEEEEecccHHHHhhh-hhhhccCCeEEEEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccchhhhhH
Confidence            455556678882    12 344567889999999998754321  122111      1 123578899999999843333


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ++-....++++  +..+++||++|.|+.++|..|...+|.
T Consensus       149 eEg~~kAkel~--a~f~etsak~g~NVk~lFrrIaa~l~~  186 (221)
T KOG0094|consen  149 EEGERKAKELN--AEFIETSAKAGENVKQLFRRIAAALPG  186 (221)
T ss_pred             HHHHHHHHHhC--cEEEEecccCCCCHHHHHHHHHHhccC
Confidence            33344445554  699999999999999999999887764

>PRK11058 GTPase HflX; Provisional

Probab=98.35  E-value=1.7e-06  Score=75.10  Aligned_cols=97  Identities=13%  Similarity=0.195  Sum_probs=62.3

Q ss_pred             cEEEEecCCCeeEE-e------e-----eeecCceEEEEEeCCCCCCCcc-----CCC---CCCCceeEEEEecCCCCCc
Q 029893           75 DLLLCESGGDNLAA-N------F-----SRELADYIIYIIDVSGGDKIPR-----KGG---PGITQADLLVINKTDLASA  134 (186)
Q Consensus        75 D~iiIEtsG~~l~~-~------~-----~~~~ad~~v~VvDa~~~~~~~~-----~~~---~~~~~adiivlNK~Dl~~~  134 (186)
                      .++|++|+|. +.. |      |     ....+|++++|+|+++......     ...   .....+.++|+||+|+.+.
T Consensus       246 ~~~l~DTaG~-~r~lp~~lve~f~~tl~~~~~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~~  324 (426)
T PRK11058        246 ETVLADTVGF-IRHLPHDLVAAFKATLQETRQATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDD  324 (426)
T ss_pred             eEEEEecCcc-cccCCHHHHHHHHHHHHHhhcCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCCc
Confidence            6799999993 111 1      1     1235799999999988642111     111   1124578999999999754


Q ss_pred             ccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          135 IGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       135 ~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                        .. .... . ...+ ...++++||++|.|+++|++++.+.+.
T Consensus       325 --~~-~~~~-~-~~~~-~~~~v~ISAktG~GIdeL~e~I~~~l~  362 (426)
T PRK11058        325 --FE-PRID-R-DEEN-KPIRVWLSAQTGAGIPLLFQALTERLS  362 (426)
T ss_pred             --hh-HHHH-H-HhcC-CCceEEEeCCCCCCHHHHHHHHHHHhh
Confidence              11 1111 1 1111 123588999999999999999998775

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=98.35  E-value=8.5e-07  Score=67.11  Aligned_cols=101  Identities=15%  Similarity=0.203  Sum_probs=63.3

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc---CCCC-----CCCceeEEEEecCCCCCcc------
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR---KGGP-----GITQADLLVINKTDLASAI------  135 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~---~~~~-----~~~~adiivlNK~Dl~~~~------  135 (186)
                      ...+.|++|+|..- .  .+..+..+|.+++|+|.++......   .+..     .-..+.++++||+|+.+..      
T Consensus        47 ~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~  126 (173)
T cd04130          47 PVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHNPKAPIILVGTQADLRTDVNVLIQL  126 (173)
T ss_pred             EEEEEEEECCCChhhccccccccCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhhccChhHHHHH
Confidence            45678999999411 0  1223456899999999987543211   1111     1135789999999997531      


Q ss_pred             ------cccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHH
Q 029893          136 ------GADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHIL  174 (186)
Q Consensus       136 ------~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~  174 (186)
                            .-..++.....++. ...+++++||++|.|++++++.+.
T Consensus       127 ~~~~~~~v~~~~~~~~a~~~-~~~~~~e~Sa~~~~~v~~lf~~~~  170 (173)
T cd04130         127 ARYGEKPVSQSRAKALAEKI-GACEYIECSALTQKNLKEVFDTAI  170 (173)
T ss_pred             hhcCCCCcCHHHHHHHHHHh-CCCeEEEEeCCCCCCHHHHHHHHH
Confidence                  01112233333332 334899999999999999998764

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,

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=98.35  E-value=5.6e-07  Score=70.62  Aligned_cols=98  Identities=17%  Similarity=0.156  Sum_probs=58.0

Q ss_pred             cCCcEEEEecCCCe-eE-Eee-eeecCceEEEEEeCCCCCCCcc----CCCCCCCce-eEEEEecCCCCCcccccHHHHH
Q 029893           72 FKADLLLCESGGDN-LA-ANF-SRELADYIIYIIDVSGGDKIPR----KGGPGITQA-DLLVINKTDLASAIGADLAVME  143 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~-~~~-~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~a-diivlNK~Dl~~~~~~~~~~~~  143 (186)
                      .+..+.|++|+|.. .. ... ....+|++++|+|++.+.....    .+......+ .++|+||+|+.+..........
T Consensus        75 ~~~~~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~~~~~~~~~~~~~~~iIvviNK~D~~~~~~~~~~~i~  154 (208)
T cd04166          75 PKRKFIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQTRRHSYILSLLGIRHVVVAVNKMDLVDYSEEVFEEIV  154 (208)
T ss_pred             CCceEEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHhHHHHHHHHHHcCCCcEEEEEEchhcccCCHHHHHHHH
Confidence            46678999999931 00 001 1245799999999987643211    111122333 4668999999753111122222


Q ss_pred             HH----HHhhC-CCCCEEEEeccCCCCHHHH
Q 029893          144 RD----ALRMR-DGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       144 ~~----l~~~~-p~a~i~~~Sa~~g~gi~~l  169 (186)
                      ..    ++..+ +..+++++||++|.|+++.
T Consensus       155 ~~~~~~~~~~~~~~~~ii~iSA~~g~ni~~~  185 (208)
T cd04166         155 ADYLAFAAKLGIEDITFIPISALDGDNVVSR  185 (208)
T ss_pred             HHHHHHHHHcCCCCceEEEEeCCCCCCCccC
Confidence            22    33332 3467999999999999753

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.

>PLN03110 Rab GTPase; Provisional

Probab=98.34  E-value=1.6e-06  Score=68.47  Aligned_cols=106  Identities=12%  Similarity=0.071  Sum_probs=67.6

Q ss_pred             CCcEEEEecCCCe-eE--EeeeeecCceEEEEEeCCCCCCCc--cCCC------CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDN-LA--ANFSRELADYIIYIIDVSGGDKIP--RKGG------PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~~------~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ...+-|.+|+|.. ..  ....+..++.+++|+|.++.....  ..+.      ..-..+.++|.||+|+........+.
T Consensus        60 ~~~l~l~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~  139 (216)
T PLN03110         60 TVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEED  139 (216)
T ss_pred             EEEEEEEECCCcHHHHHHHHHHhCCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcccccCCCHHH
Confidence            4677888999921 00  111235679999999997643211  0110      01235789999999997542111222


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      . ..+... ...+++++||++|.|++++++++.+.+...
T Consensus       140 ~-~~l~~~-~~~~~~e~SA~~g~~v~~lf~~l~~~i~~~  176 (216)
T PLN03110        140 G-QALAEK-EGLSFLETSALEATNVEKAFQTILLEIYHI  176 (216)
T ss_pred             H-HHHHHH-cCCEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            2 233332 357999999999999999999998777653

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=98.34  E-value=1.9e-06  Score=68.99  Aligned_cols=107  Identities=14%  Similarity=0.098  Sum_probs=68.5

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc---CCCCC-----CCceeEEEEecCCCCCc------
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR---KGGPG-----ITQADLLVINKTDLASA------  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~---~~~~~-----~~~adiivlNK~Dl~~~------  134 (186)
                      ..+.+-|.+|+|...   ..+..+..+|++++|+|.++......   .|...     -..+.++|.||+||.+.      
T Consensus        59 ~~v~l~iwDTaG~e~~~~~~~~~~~~ad~vIlVyDit~~~Sf~~~~~~w~~~i~~~~~~~piilVgNK~DL~~~~~~~~~  138 (232)
T cd04174          59 QRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWKAEIMDYCPSTRILLIGCKTDLRTDLSTLME  138 (232)
T ss_pred             EEEEEEEEeCCCchhhHHHHHHHcCCCcEEEEEEECCChHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccccccchhhh
Confidence            467888999999310   02234567899999999987653221   11111     13467999999998642      


Q ss_pred             ------ccccHHHHHHHHHhhCCCCCEEEEeccCCC-CHHHHHHHHHHHHHH
Q 029893          135 ------IGADLAVMERDALRMRDGGPFIFAQVKHGL-GVEEIVNHILQAWEA  179 (186)
Q Consensus       135 ------~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~-gi~~l~~~i~~~~~~  179 (186)
                            .....++..+..++.+ ..+++++||++|+ |++++|..+.+....
T Consensus       139 l~~~~~~~Vs~~e~~~~a~~~~-~~~~~EtSAktg~~~V~e~F~~~~~~~~~  189 (232)
T cd04174         139 LSNQKQAPISYEQGCALAKQLG-AEVYLECSAFTSEKSIHSIFRSASLLCLN  189 (232)
T ss_pred             hccccCCcCCHHHHHHHHHHcC-CCEEEEccCCcCCcCHHHHHHHHHHHHHH
Confidence                  1112234444444432 2268999999998 899999988776543

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=98.33  E-value=5.6e-07  Score=79.09  Aligned_cols=102  Identities=20%  Similarity=0.219  Sum_probs=65.9

Q ss_pred             cCCcEEEEecCCCeeEE-----------eeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCccc
Q 029893           72 FKADLLLCESGGDNLAA-----------NFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASAIG  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~-----------~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~~~  136 (186)
                      .+..+.|++|.|.....           ...+..+|++++|+|++.+......    +......+.++|+||+|+.... 
T Consensus        84 ~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~aD~il~VvD~~~~~s~~~~~i~~~l~~~~~piilV~NK~Dl~~~~-  162 (472)
T PRK03003         84 NGRRFTVVDTGGWEPDAKGLQASVAEQAEVAMRTADAVLFVVDATVGATATDEAVARVLRRSGKPVILAANKVDDERGE-  162 (472)
T ss_pred             CCcEEEEEeCCCcCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECccCCccc-
Confidence            35678999999942100           0123458999999999886432111    1112356899999999987531 


Q ss_pred             ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          137 ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       137 ~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      .+.   .+.. .. .....+++||++|.|++++++++.+.++.
T Consensus       163 ~~~---~~~~-~~-g~~~~~~iSA~~g~gi~eL~~~i~~~l~~  200 (472)
T PRK03003        163 ADA---AALW-SL-GLGEPHPVSALHGRGVGDLLDAVLAALPE  200 (472)
T ss_pred             hhh---HHHH-hc-CCCCeEEEEcCCCCCcHHHHHHHHhhccc
Confidence            111   1111 11 22245799999999999999999987754

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=98.31  E-value=1.6e-06  Score=66.64  Aligned_cols=105  Identities=14%  Similarity=0.088  Sum_probs=67.1

Q ss_pred             CCcEEEEecCCCeeE-------Eee------eee---cCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCC
Q 029893           73 KADLLLCESGGDNLA-------ANF------SRE---LADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLA  132 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~-------~~~------~~~---~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~  132 (186)
                      +.++.|++|+|....       ..+      .+.   ..+++++++|+..+.....    .+......+.++++||+|+.
T Consensus        69 ~~~l~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~i~~~l~~~~~~~iiv~nK~Dl~  148 (196)
T PRK00454         69 NDKLRLVDLPGYGYAKVSKEEKEKWQKLIEEYLRTRENLKGVVLLIDSRHPLKELDLQMIEWLKEYGIPVLIVLTKADKL  148 (196)
T ss_pred             CCeEEEeCCCCCCCcCCCchHHHHHHHHHHHHHHhCccceEEEEEEecCCCCCHHHHHHHHHHHHcCCcEEEEEECcccC
Confidence            367999999994211       000      011   2356788889776432211    11122345679999999998


Q ss_pred             CcccccHHHHHHHHHhhCC--CCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          133 SAIGADLAVMERDALRMRD--GGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       133 ~~~~~~~~~~~~~l~~~~p--~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      +.  .+.+.....++....  ..+++++||++|.|++++++++.+++++
T Consensus       149 ~~--~~~~~~~~~i~~~l~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~  195 (196)
T PRK00454        149 KK--GERKKQLKKVRKALKFGDDEVILFSSLKKQGIDELRAAIAKWLAE  195 (196)
T ss_pred             CH--HHHHHHHHHHHHHHHhcCCceEEEEcCCCCCHHHHHHHHHHHhcC
Confidence            76  444443333333221  4699999999999999999999987764

>cd04103 Centaurin_gamma Centaurin gamma

Probab=98.30  E-value=1.9e-06  Score=64.75  Aligned_cols=100  Identities=16%  Similarity=0.141  Sum_probs=61.8

Q ss_pred             CcEEEEecCCCeeEEeeeeecCceEEEEEeCCCCCCCcc--C-------CCCCCCceeEEEEecCCCCC--cccccHHHH
Q 029893           74 ADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPR--K-------GGPGITQADLLVINKTDLAS--AIGADLAVM  142 (186)
Q Consensus        74 ~D~iiIEtsG~~l~~~~~~~~ad~~v~VvDa~~~~~~~~--~-------~~~~~~~adiivlNK~Dl~~--~~~~~~~~~  142 (186)
                      ..+-|-+|+|.  .....+..+|.+++|+|.++......  .       +...-..+.++|.||.|+..  +.....+..
T Consensus        47 ~~l~i~D~~g~--~~~~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~  124 (158)
T cd04103          47 HLLLIRDEGGA--PDAQFASWVDAVIFVFSLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDARA  124 (158)
T ss_pred             EEEEEEECCCC--CchhHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHHH
Confidence            44666788882  11222345899999999987543211  1       11112247899999999853  211122222


Q ss_pred             HHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          143 ERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       143 ~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      .+..++. ...+++++||++|.|++++|+.+.+.
T Consensus       125 ~~~~~~~-~~~~~~e~SAk~~~~i~~~f~~~~~~  157 (158)
T cd04103         125 RQLCADM-KRCSYYETCATYGLNVERVFQEAAQK  157 (158)
T ss_pred             HHHHHHh-CCCcEEEEecCCCCCHHHHHHHHHhh
Confidence            2222332 23689999999999999999988753

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.

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=98.29  E-value=1.4e-06  Score=68.97  Aligned_cols=104  Identities=11%  Similarity=-0.008  Sum_probs=66.8

Q ss_pred             cCCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc--cCCCC-----CCCceeEEEEecCCCCCcccccHHH
Q 029893           72 FKADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP--RKGGP-----GITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~~~-----~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ....+-|.+|+|..- .  ....+..++.+|+|+|.++.....  ..+..     .-..+.++|.||+|+.... ...+.
T Consensus        60 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~~~~~piilvgNK~Dl~~~~-v~~~~  138 (219)
T PLN03071         60 GKIRFYCWDTAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVCENIPIVLCGNKVDVKNRQ-VKAKQ  138 (219)
T ss_pred             eEEEEEEEECCCchhhhhhhHHHcccccEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCcEEEEEEchhhhhcc-CCHHH
Confidence            357888999999311 0  111234678999999998764321  01100     1235889999999996431 11222


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      + ...+.  ...+++++||++|.|++++|+++.+.+..
T Consensus       139 ~-~~~~~--~~~~~~e~SAk~~~~i~~~f~~l~~~~~~  173 (219)
T PLN03071        139 V-TFHRK--KNLQYYEISAKSNYNFEKPFLYLARKLAG  173 (219)
T ss_pred             H-HHHHh--cCCEEEEcCCCCCCCHHHHHHHHHHHHHc
Confidence            2 22222  23689999999999999999999877654

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=98.28  E-value=3.2e-06  Score=63.75  Aligned_cols=103  Identities=17%  Similarity=0.187  Sum_probs=65.3

Q ss_pred             CCcEEEEecCCCe-eE---EeeeeecCceEEEEEeCCCCCCCcc--C-------CCCCCCceeEEEEecCCCCCcccccH
Q 029893           73 KADLLLCESGGDN-LA---ANFSRELADYIIYIIDVSGGDKIPR--K-------GGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~-------~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ...+-+++|+|.. ..   .+..+..+|.+++|+|+++......  .       +...-..|.++|+||+|+........
T Consensus        50 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~  129 (170)
T cd04115          50 RIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPT  129 (170)
T ss_pred             EEEEEEEeCCChHHHHHhhHHHhhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcCCCH
Confidence            4678899999931 10   1122345799999999987543210  1       11112358899999999976521112


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccC---CCCHHHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKH---GLGVEEIVNHILQAW  177 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~---g~gi~~l~~~i~~~~  177 (186)
                      +...+..+..  ..+++++||++   +.|+++++..+.+.+
T Consensus       130 ~~~~~~~~~~--~~~~~e~Sa~~~~~~~~i~~~f~~l~~~~  168 (170)
T cd04115         130 DLAQRFADAH--SMPLFETSAKDPSENDHVEAIFMTLAHKL  168 (170)
T ss_pred             HHHHHHHHHc--CCcEEEEeccCCcCCCCHHHHHHHHHHHh
Confidence            2222222222  36899999999   899999999887654

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

>PRK12736 elongation factor Tu; Reviewed

Probab=98.27  E-value=1.7e-06  Score=74.41  Aligned_cols=106  Identities=14%  Similarity=0.126  Sum_probs=66.1

Q ss_pred             cCCcEEEEecCCCe--eEEee-eeecCceEEEEEeCCCCCCCcc-C---CCCCCCce-eEEEEecCCCCCcccccHH---
Q 029893           72 FKADLLLCESGGDN--LAANF-SRELADYIIYIIDVSGGDKIPR-K---GGPGITQA-DLLVINKTDLASAIGADLA---  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~--l~~~~-~~~~ad~~v~VvDa~~~~~~~~-~---~~~~~~~a-diivlNK~Dl~~~~~~~~~---  140 (186)
                      .+..+.||+|+|-.  +...+ ....+|++++|+|+.++...+. .   +......+ -++++||+|++++. ...+   
T Consensus        73 ~~~~i~~iDtPGh~~f~~~~~~~~~~~d~~llVvd~~~g~~~~t~~~~~~~~~~g~~~~IvviNK~D~~~~~-~~~~~i~  151 (394)
T PRK12736         73 EKRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQVGVPYLVVFLNKVDLVDDE-ELLELVE  151 (394)
T ss_pred             CCcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHcCCCEEEEEEEecCCcchH-HHHHHHH
Confidence            35678999999921  00000 1234699999999988643221 1   11223456 46789999998541 1122   


Q ss_pred             -HHHHHHHhhC---CCCCEEEEeccCCC--------CHHHHHHHHHHHHH
Q 029893          141 -VMERDALRMR---DGGPFIFAQVKHGL--------GVEEIVNHILQAWE  178 (186)
Q Consensus       141 -~~~~~l~~~~---p~a~i~~~Sa~~g~--------gi~~l~~~i~~~~~  178 (186)
                       ++...++...   ...|++++||++|.        ++++|++.+.+++|
T Consensus       152 ~~i~~~l~~~~~~~~~~~ii~vSa~~g~~~~~~~~~~i~~Ll~~l~~~lp  201 (394)
T PRK12736        152 MEVRELLSEYDFPGDDIPVIRGSALKALEGDPKWEDAIMELMDAVDEYIP  201 (394)
T ss_pred             HHHHHHHHHhCCCcCCccEEEeeccccccCCCcchhhHHHHHHHHHHhCC
Confidence             3333343332   24799999999983        68888888888766

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=98.27  E-value=1.3e-06  Score=76.92  Aligned_cols=98  Identities=17%  Similarity=0.178  Sum_probs=61.0

Q ss_pred             cCCcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCCCccC----CCCCCC-ceeEEEEecCCCCCcccccHHHHH
Q 029893           72 FKADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDKIPRK----GGPGIT-QADLLVINKTDLASAIGADLAVME  143 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~-~adiivlNK~Dl~~~~~~~~~~~~  143 (186)
                      .+..++||+|+|-. ....  .....+|++++|+|+..+...+..    ....+. .+.++++||+|+.+.....++.+.
T Consensus       105 ~~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~~l~~~lg~~~iIvvvNKiD~~~~~~~~~~~i~  184 (474)
T PRK05124        105 EKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHSFIATLLGIKHLVVAVNKMDLVDYSEEVFERIR  184 (474)
T ss_pred             CCcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchHHHHHHHHhCCCceEEEEEeeccccchhHHHHHHH
Confidence            35688999999921 0000  012357999999999887533211    111122 246789999999854213344444


Q ss_pred             HHHHh----h--CCCCCEEEEeccCCCCHHHH
Q 029893          144 RDALR----M--RDGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       144 ~~l~~----~--~p~a~i~~~Sa~~g~gi~~l  169 (186)
                      +.++.    .  .+..+++++||++|.|++++
T Consensus       185 ~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~  216 (474)
T PRK05124        185 EDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQ  216 (474)
T ss_pred             HHHHHHHHhcCCCCCceEEEEEeecCCCcccc
Confidence            44432    1  24689999999999999764

>PRK01889 GTPase RsgA; Reviewed

Probab=98.26  E-value=4.6e-06  Score=70.86  Aligned_cols=76  Identities=13%  Similarity=0.192  Sum_probs=51.6

Q ss_pred             CceEEEEEeCCCCCCC--ccCC---CCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHH
Q 029893           95 ADYIIYIIDVSGGDKI--PRKG---GPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus        95 ad~~v~VvDa~~~~~~--~~~~---~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l  169 (186)
                      .|.+++|+++......  ...+   ........+||+||+||+++  .  +...+.+....+..+++++|+++|.|+++|
T Consensus       113 vD~vliV~s~~p~~~~~~ldr~L~~a~~~~i~piIVLNK~DL~~~--~--~~~~~~~~~~~~g~~Vi~vSa~~g~gl~~L  188 (356)
T PRK01889        113 VDTVFIVCSLNHDFNLRRIERYLALAWESGAEPVIVLTKADLCED--A--EEKIAEVEALAPGVPVLAVSALDGEGLDVL  188 (356)
T ss_pred             CCEEEEEEecCCCCChhHHHHHHHHHHHcCCCEEEEEEChhcCCC--H--HHHHHHHHHhCCCCcEEEEECCCCccHHHH
Confidence            4778888888532221  1112   11233466999999999865  2  223344555566789999999999999999


Q ss_pred             HHHHH
Q 029893          170 VNHIL  174 (186)
Q Consensus       170 ~~~i~  174 (186)
                      .+++.
T Consensus       189 ~~~L~  193 (356)
T PRK01889        189 AAWLS  193 (356)
T ss_pred             HHHhh
Confidence            99875

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=98.26  E-value=2.6e-06  Score=78.87  Aligned_cols=105  Identities=18%  Similarity=0.153  Sum_probs=70.0

Q ss_pred             hcCCcEEEEecCCCe-eE---Eeee-----------eecCceEEEEEeCCCCCCCcc--CCCCCCCceeEEEEecCCCCC
Q 029893           71 LFKADLLLCESGGDN-LA---ANFS-----------RELADYIIYIIDVSGGDKIPR--KGGPGITQADLLVINKTDLAS  133 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~-l~---~~~~-----------~~~ad~~v~VvDa~~~~~~~~--~~~~~~~~adiivlNK~Dl~~  133 (186)
                      ..+.++.+++|+|.. +.   .+.+           ...+|+++.|+|+++.+....  ........+.++++||+|+.+
T Consensus        47 ~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~l~~~~aD~vI~VvDat~ler~l~l~~ql~e~giPvIvVlNK~Dl~~  126 (772)
T PRK09554         47 TTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASNLERNLYLTLQLLELGIPCIVALNMLDIAE  126 (772)
T ss_pred             cCceEEEEEECCCccccccccccccHHHHHHHHHHhccCCCEEEEEecCCcchhhHHHHHHHHHcCCCEEEEEEchhhhh
Confidence            346789999999942 11   1110           124699999999988653211  111234678999999999975


Q ss_pred             cccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          134 AIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       134 ~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .  .....-.+.+++.. ..|++++||++|+|++++.+.+.+..+
T Consensus       127 ~--~~i~id~~~L~~~L-G~pVvpiSA~~g~GIdeL~~~I~~~~~  168 (772)
T PRK09554        127 K--QNIRIDIDALSARL-GCPVIPLVSTRGRGIEALKLAIDRHQA  168 (772)
T ss_pred             c--cCcHHHHHHHHHHh-CCCEEEEEeecCCCHHHHHHHHHHhhh
Confidence            5  22222233444433 369999999999999999999987653

>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=98.26  E-value=4.3e-08  Score=73.85  Aligned_cols=97  Identities=22%  Similarity=0.291  Sum_probs=60.1

Q ss_pred             cCCcEEEEecCCC-eeEEe---------e-eeecCceEEEEEeCCCCCCCcc--CCCCCCCceeEEEEecCCCCCccccc
Q 029893           72 FKADLLLCESGGD-NLAAN---------F-SRELADYIIYIIDVSGGDKIPR--KGGPGITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        72 ~~~D~iiIEtsG~-~l~~~---------~-~~~~ad~~v~VvDa~~~~~~~~--~~~~~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      .+..+.||+++|+ .+...         + ..+..|++++|+|+++.+....  .....+..|.++++||+|++......
T Consensus        45 ~~~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~~D~ii~VvDa~~l~r~l~l~~ql~e~g~P~vvvlN~~D~a~~~g~~  124 (156)
T PF02421_consen   45 GDQQVELVDLPGIYSLSSKSEEERVARDYLLSEKPDLIIVVVDATNLERNLYLTLQLLELGIPVVVVLNKMDEAERKGIE  124 (156)
T ss_dssp             TTEEEEEEE----SSSSSSSHHHHHHHHHHHHTSSSEEEEEEEGGGHHHHHHHHHHHHHTTSSEEEEEETHHHHHHTTEE
T ss_pred             cCceEEEEECCCcccCCCCCcHHHHHHHHHhhcCCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEEeCHHHHHHcCCE
Confidence            4578999999994 22110         1 0123699999999988532111  11123567999999999998763222


Q ss_pred             --HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHH
Q 029893          139 --LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHI  173 (186)
Q Consensus       139 --~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i  173 (186)
                        .+.+.+.+     ..|++++||++|+|+++|++.|
T Consensus       125 id~~~Ls~~L-----g~pvi~~sa~~~~g~~~L~~~I  156 (156)
T PF02421_consen  125 IDAEKLSERL-----GVPVIPVSARTGEGIDELKDAI  156 (156)
T ss_dssp             E-HHHHHHHH-----TS-EEEEBTTTTBTHHHHHHHH
T ss_pred             ECHHHHHHHh-----CCCEEEEEeCCCcCHHHHHhhC
Confidence              23333322     4699999999999999999875

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 ....

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=98.25  E-value=1.6e-06  Score=74.93  Aligned_cols=97  Identities=18%  Similarity=0.200  Sum_probs=58.9

Q ss_pred             cCCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCccC----CCCCCCc-eeEEEEecCCCCCcccccHHHHH
Q 029893           72 FKADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPRK----GGPGITQ-ADLLVINKTDLASAIGADLAVME  143 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~-adiivlNK~Dl~~~~~~~~~~~~  143 (186)
                      .+..+.||+|+|.. ...  ......+|++++|+|+..+...+..    ....+.. ..++++||+|+.+.....++.+.
T Consensus        78 ~~~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~~~~~~~~~~~iivviNK~D~~~~~~~~~~~i~  157 (406)
T TIGR02034        78 DKRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTRRHSYIASLLGIRHVVLAVNKMDLVDYDEEVFENIK  157 (406)
T ss_pred             CCeEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccHHHHHHHHHcCCCcEEEEEEecccccchHHHHHHHH
Confidence            35578999999921 000  0112357999999999887543221    1112223 35779999999864212233333


Q ss_pred             HHHH----hhC-CCCCEEEEeccCCCCHHH
Q 029893          144 RDAL----RMR-DGGPFIFAQVKHGLGVEE  168 (186)
Q Consensus       144 ~~l~----~~~-p~a~i~~~Sa~~g~gi~~  168 (186)
                      +.++    ... ...+++++||++|.|+++
T Consensus       158 ~~~~~~~~~~~~~~~~iipiSA~~g~ni~~  187 (406)
T TIGR02034       158 KDYLAFAEQLGFRDVTFIPLSALKGDNVVS  187 (406)
T ss_pred             HHHHHHHHHcCCCCccEEEeecccCCCCcc
Confidence            3332    222 246899999999999985

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).

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

Probab=98.25  E-value=2.1e-06  Score=70.67  Aligned_cols=107  Identities=16%  Similarity=0.205  Sum_probs=67.1

Q ss_pred             hhcCCcEEEEecCCCeeEEe-----------------eeeecCceEEEEEeCCCCCC--Ccc---CCCCCCCceeEEEEe
Q 029893           70 NLFKADLLLCESGGDNLAAN-----------------FSRELADYIIYIIDVSGGDK--IPR---KGGPGITQADLLVIN  127 (186)
Q Consensus        70 ~~~~~D~iiIEtsG~~l~~~-----------------~~~~~ad~~v~VvDa~~~~~--~~~---~~~~~~~~adiivlN  127 (186)
                      .......||.+|.|+  ..+                 -+...||++++|+|++....  .+.   ....-...+-++|+|
T Consensus       116 ts~eTQlvf~DTPGl--vs~~~~r~~~l~~s~lq~~~~a~q~AD~vvVv~Das~tr~~l~p~vl~~l~~ys~ips~lvmn  193 (379)
T KOG1423|consen  116 TSGETQLVFYDTPGL--VSKKMHRRHHLMMSVLQNPRDAAQNADCVVVVVDASATRTPLHPRVLHMLEEYSKIPSILVMN  193 (379)
T ss_pred             ecCceEEEEecCCcc--cccchhhhHHHHHHhhhCHHHHHhhCCEEEEEEeccCCcCccChHHHHHHHHHhcCCceeecc
Confidence            356789999999994  211                 01235799999999985211  110   001112347899999


Q ss_pred             cCCCCCccc-----------ccHHHHHHHHHhhCCC----------------CCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          128 KTDLASAIG-----------ADLAVMERDALRMRDG----------------GPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       128 K~Dl~~~~~-----------~~~~~~~~~l~~~~p~----------------a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      |+|...+..           .++....-.+++.+..                ..+|++||++|+|++++.+|+....+
T Consensus       194 kid~~k~k~~Ll~l~~~Lt~g~l~~~kl~v~~~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa~  271 (379)
T KOG1423|consen  194 KIDKLKQKRLLLNLKDLLTNGELAKLKLEVQEKFTDVPSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQAP  271 (379)
T ss_pred             chhcchhhhHHhhhHHhccccccchhhhhHHHHhccCCcccccccccCcccceeEEEEecccccCHHHHHHHHHhcCC
Confidence            999865421           1222222233333323                34999999999999999999986554

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=98.25  E-value=2.4e-06  Score=74.06  Aligned_cols=97  Identities=16%  Similarity=0.144  Sum_probs=57.9

Q ss_pred             cCCcEEEEecCCCe-eEEee--eeecCceEEEEEeCCC--CCCCccC----CCCCCCc-eeEEEEecCCCCCcccccHH-
Q 029893           72 FKADLLLCESGGDN-LAANF--SRELADYIIYIIDVSG--GDKIPRK----GGPGITQ-ADLLVINKTDLASAIGADLA-  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~~~--~~~~ad~~v~VvDa~~--~~~~~~~----~~~~~~~-adiivlNK~Dl~~~~~~~~~-  140 (186)
                      .+..+.|++|+|.. .....  ....+|++++|+|+.+  +...+..    +...+.. +-++++||+|+.+......+ 
T Consensus        82 ~~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~~~~~iivviNK~Dl~~~~~~~~~~  161 (425)
T PRK12317         82 DKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTLGINQLIVAINKMDAVNYDEKRYEE  161 (425)
T ss_pred             CCeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHcCCCeEEEEEEccccccccHHHHHH
Confidence            46789999999931 10111  1235799999999987  4322110    1111232 46889999999863112222 


Q ss_pred             ---HHHHHHHhhC---CCCCEEEEeccCCCCHHH
Q 029893          141 ---VMERDALRMR---DGGPFIFAQVKHGLGVEE  168 (186)
Q Consensus       141 ---~~~~~l~~~~---p~a~i~~~Sa~~g~gi~~  168 (186)
                         ++.+.++...   ...+++++||++|.|+++
T Consensus       162 ~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~  195 (425)
T PRK12317        162 VKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVK  195 (425)
T ss_pred             HHHHHHHHHHhhCCCcCcceEEEeecccCCCccc
Confidence               2333333222   136899999999999986

>cd04159 Arl10_like Arl10-like subfamily

Probab=98.24  E-value=3.1e-06  Score=61.88  Aligned_cols=101  Identities=13%  Similarity=0.150  Sum_probs=64.1

Q ss_pred             CCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      +..+.+++++|..--.   ...+..+|.+++|+|++.......         ........+.++|+||+|+.+.  ....
T Consensus        43 ~~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~--~~~~  120 (159)
T cd04159          43 NVTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVDAADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGA--LSVD  120 (159)
T ss_pred             CEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCC--cCHH
Confidence            4667888999931000   112345789999999986432110         0111124578999999998765  3444


Q ss_pred             HHHHHHH--hh-CCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          141 VMERDAL--RM-RDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       141 ~~~~~l~--~~-~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      .....+.  .. ....+++++|+++|.|++++++++.+
T Consensus       121 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  158 (159)
T cd04159         121 ELIEQMNLKSITDREVSCYSISCKEKTNIDIVLDWLIK  158 (159)
T ss_pred             HHHHHhCcccccCCceEEEEEEeccCCChHHHHHHHhh
Confidence            3333332  11 12357899999999999999999875

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.23  E-value=1.9e-06  Score=74.55  Aligned_cols=103  Identities=21%  Similarity=0.263  Sum_probs=69.4

Q ss_pred             cCCcEEEEecCCCeeEE-----e------eeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCccc
Q 029893           72 FKADLLLCESGGDNLAA-----N------FSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIG  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~-----~------~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~  136 (186)
                      .+..+.+++|.|.....     .      .....+|++++|+|+..+.....    .+......+.++|+||+|+.+.  
T Consensus        45 ~~~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~ad~vl~vvD~~~~~~~~d~~i~~~l~~~~~piilVvNK~D~~~~--  122 (429)
T TIGR03594        45 GGREFILIDTGGIEEDDDGLDKQIREQAEIAIEEADVILFVVDGREGLTPEDEEIAKWLRKSGKPVILVANKIDGKKE--  122 (429)
T ss_pred             CCeEEEEEECCCCCCcchhHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCHHHHHHHHHHHHhCCCEEEEEECccCCcc--
Confidence            45679999999942110     0      01235799999999987643221    1222345688999999999865  


Q ss_pred             ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          137 ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       137 ~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      ...  . ....+. ...+++++||++|.|++++++++.+.++..
T Consensus       123 ~~~--~-~~~~~l-g~~~~~~vSa~~g~gv~~ll~~i~~~l~~~  162 (429)
T TIGR03594       123 DAV--A-AEFYSL-GFGEPIPISAEHGRGIGDLLDAILELLPEE  162 (429)
T ss_pred             ccc--H-HHHHhc-CCCCeEEEeCCcCCChHHHHHHHHHhcCcc
Confidence            221  1 112222 345899999999999999999999887653

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.

>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=98.22  E-value=3.9e-06  Score=64.12  Aligned_cols=103  Identities=19%  Similarity=0.226  Sum_probs=68.9

Q ss_pred             cCCcEEEEecCCCeeEEe---eeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAAN---FSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~---~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+..+.+.|-.|-.-..+   ..+..+|.+|+|+|+++......         .....-..|.+|++||.|+.+.  ...
T Consensus        56 ~~~~~~~~d~gG~~~~~~~w~~y~~~~~~iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~--~~~  133 (175)
T PF00025_consen   56 KGYSLTIWDLGGQESFRPLWKSYFQNADGIIFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDA--MSE  133 (175)
T ss_dssp             TTEEEEEEEESSSGGGGGGGGGGHTTESEEEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTS--STH
T ss_pred             CcEEEEEEeccccccccccceeeccccceeEEEEecccceeecccccchhhhcchhhcccceEEEEeccccccCc--chh
Confidence            466788888888321111   12345799999999987543111         1111224689999999999876  445


Q ss_pred             HHHHHHH--HhhC--CCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          140 AVMERDA--LRMR--DGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       140 ~~~~~~l--~~~~--p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      +++...+  ..+.  ....++.+||++|+|+.+.++||.+.
T Consensus       134 ~~i~~~l~l~~l~~~~~~~v~~~sa~~g~Gv~e~l~WL~~~  174 (175)
T PF00025_consen  134 EEIKEYLGLEKLKNKRPWSVFSCSAKTGEGVDEGLEWLIEQ  174 (175)
T ss_dssp             HHHHHHTTGGGTTSSSCEEEEEEBTTTTBTHHHHHHHHHHH
T ss_pred             hHHHhhhhhhhcccCCceEEEeeeccCCcCHHHHHHHHHhc
Confidence            5555544  2332  34579999999999999999999864

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 ....

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=98.21  E-value=2.5e-06  Score=74.03  Aligned_cols=97  Identities=18%  Similarity=0.200  Sum_probs=58.2

Q ss_pred             cCCcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCC---Ccc-C---CCCCCC-ceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDK---IPR-K---GGPGIT-QADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~---~~~-~---~~~~~~-~adiivlNK~Dl~~~~~~~~~  140 (186)
                      .+..+.|++|+|-. ....  .....+|++++|+|++++..   .+. .   ....+. .+-++++||+|+.+......+
T Consensus        83 ~~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~~~~~iIVviNK~Dl~~~~~~~~~  162 (426)
T TIGR00483        83 DKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLARTLGINQLIVAINKMDSVNYDEEEFE  162 (426)
T ss_pred             CCeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHHHHcCCCeEEEEEEChhccCccHHHHH
Confidence            36788999999921 0000  11235799999999988731   111 0   111122 246789999999853112222


Q ss_pred             H----HHHHHHhhC---CCCCEEEEeccCCCCHHH
Q 029893          141 V----MERDALRMR---DGGPFIFAQVKHGLGVEE  168 (186)
Q Consensus       141 ~----~~~~l~~~~---p~a~i~~~Sa~~g~gi~~  168 (186)
                      .    +.+.++...   ...+++++||++|.|+++
T Consensus       163 ~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~  197 (426)
T TIGR00483       163 AIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIK  197 (426)
T ss_pred             HHHHHHHHHHHHcCCCcccceEEEeeccccccccc
Confidence            2    333333322   246899999999999986

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.21  E-value=3.3e-06  Score=62.19  Aligned_cols=69  Identities=14%  Similarity=0.148  Sum_probs=46.6

Q ss_pred             ecCceEEEEEeCCCCCCCcc----CCCCCC--CceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCC
Q 029893           93 ELADYIIYIIDVSGGDKIPR----KGGPGI--TQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLG  165 (186)
Q Consensus        93 ~~ad~~v~VvDa~~~~~~~~----~~~~~~--~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~g  165 (186)
                      ..+|++++|+|+..+.....    .+....  ..+.++|+||+|+.++  .......+.+++..  .+++++||++|.+
T Consensus        10 ~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~~~~k~~iivlNK~DL~~~--~~~~~~~~~~~~~~--~~ii~iSa~~~~~   84 (141)
T cd01857          10 ERSDIVVQIVDARNPLLFRPPDLERYVKEVDPRKKNILLLNKADLLTE--EQRKAWAEYFKKEG--IVVVFFSALKENA   84 (141)
T ss_pred             hhCCEEEEEEEccCCcccCCHHHHHHHHhccCCCcEEEEEechhcCCH--HHHHHHHHHHHhcC--CeEEEEEecCCCc
Confidence            35799999999987643221    111122  5689999999999866  44445555555443  5899999988754

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.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.20  E-value=3.5e-06  Score=71.67  Aligned_cols=84  Identities=21%  Similarity=0.257  Sum_probs=54.1

Q ss_pred             ecCceEEEEEeCCCCCCCccC-CCCCC-CceeEEEEecCCCCCcccccHHHHHHHH----HhhC-CCCCEEEEeccCCCC
Q 029893           93 ELADYIIYIIDVSGGDKIPRK-GGPGI-TQADLLVINKTDLASAIGADLAVMERDA----LRMR-DGGPFIFAQVKHGLG  165 (186)
Q Consensus        93 ~~ad~~v~VvDa~~~~~~~~~-~~~~~-~~adiivlNK~Dl~~~~~~~~~~~~~~l----~~~~-p~a~i~~~Sa~~g~g  165 (186)
                      ..++++++|+|+.+.+..... ....+ ..+.++|+||+||.+.. ...+.+.+++    ++.+ +...++.+||++|.|
T Consensus        62 ~~~~~Il~VvD~~d~~~s~~~~l~~~~~~~piilV~NK~DLl~k~-~~~~~~~~~l~~~~k~~g~~~~~i~~vSAk~g~g  140 (360)
T TIGR03597        62 DSNALIVYVVDIFDFEGSLIPELKRFVGGNPVLLVGNKIDLLPKS-VNLSKIKEWMKKRAKELGLKPVDIILVSAKKGNG  140 (360)
T ss_pred             cCCcEEEEEEECcCCCCCccHHHHHHhCCCCEEEEEEchhhCCCC-CCHHHHHHHHHHHHHHcCCCcCcEEEecCCCCCC
Confidence            356899999998765422111 10111 35789999999998652 2233344333    3222 113699999999999


Q ss_pred             HHHHHHHHHHHH
Q 029893          166 VEEIVNHILQAW  177 (186)
Q Consensus       166 i~~l~~~i~~~~  177 (186)
                      ++++++.+.++.
T Consensus       141 v~eL~~~l~~~~  152 (360)
T TIGR03597       141 IDELLDKIKKAR  152 (360)
T ss_pred             HHHHHHHHHHHh
Confidence            999999997763

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.

>cd00876 Ras Ras family

Probab=98.20  E-value=6.7e-06  Score=60.51  Aligned_cols=102  Identities=16%  Similarity=0.184  Sum_probs=66.3

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      .+.+.+++++|...-   ....+..+|.+++|+|..+.+....         .....-..+.++++||+|+........+
T Consensus        46 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~  125 (160)
T cd00876          46 TYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYSITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENERQVSKE  125 (160)
T ss_pred             EEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccccceecHH
Confidence            456778999993110   0112345789999999877532110         0111124688999999999864222334


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      ......+...  .+++++|+++|.|++++++++.+.
T Consensus       126 ~~~~~~~~~~--~~~~~~S~~~~~~i~~l~~~l~~~  159 (160)
T cd00876         126 EGKALAKEWG--CPFIETSAKDNINIDEVFKLLVRE  159 (160)
T ss_pred             HHHHHHHHcC--CcEEEeccCCCCCHHHHHHHHHhh
Confidence            4444444433  689999999999999999998764

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

>PRK00098 GTPase RsgA; Reviewed

Probab=98.19  E-value=5e-06  Score=68.97  Aligned_cols=78  Identities=15%  Similarity=0.161  Sum_probs=51.3

Q ss_pred             cCceEEEEEeCCCCCCCc---cCC---CCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHH
Q 029893           94 LADYIIYIIDVSGGDKIP---RKG---GPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVE  167 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~~---~~~---~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~  167 (186)
                      .+|.+++|+|+.+++...   ..+   ......+.++|+||+||.+.. .......+..+..  ..+++++||++|.|++
T Consensus        80 niD~vllV~d~~~p~~~~~~idr~L~~~~~~~ip~iIVlNK~DL~~~~-~~~~~~~~~~~~~--g~~v~~vSA~~g~gi~  156 (298)
T PRK00098         80 NVDQAVLVFAAKEPDFSTDLLDRFLVLAEANGIKPIIVLNKIDLLDDL-EEARELLALYRAI--GYDVLELSAKEGEGLD  156 (298)
T ss_pred             cCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEhHHcCCCH-HHHHHHHHHHHHC--CCeEEEEeCCCCccHH
Confidence            468899999997653211   111   112345789999999997441 2223333333333  3589999999999999


Q ss_pred             HHHHHHH
Q 029893          168 EIVNHIL  174 (186)
Q Consensus       168 ~l~~~i~  174 (186)
                      +|++.+.
T Consensus       157 ~L~~~l~  163 (298)
T PRK00098        157 ELKPLLA  163 (298)
T ss_pred             HHHhhcc
Confidence            9998764

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=98.19  E-value=2.1e-06  Score=66.19  Aligned_cols=104  Identities=18%  Similarity=0.177  Sum_probs=66.5

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc---cCCCCC-----CCceeEEEEecCCCCCc------
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP---RKGGPG-----ITQADLLVINKTDLASA------  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~---~~~~~~-----~~~adiivlNK~Dl~~~------  134 (186)
                      ..+.+-|.+|+|-.-   ..+..+..+|.+++|+|.++.....   ..+...     -..+.++|.||+||.+.      
T Consensus        51 ~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~~~~~~piilVgNK~DL~~~~~~~~~  130 (182)
T cd04172          51 QRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDLTTLVE  130 (182)
T ss_pred             EEEEEEEEECCCchhhHhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEeEChhhhcChhhHHH
Confidence            356788899999310   1223455689999999998764321   111111     13578999999998642      


Q ss_pred             ------ccccHHHHHHHHHhhCCCCCEEEEeccCCCC-HHHHHHHHHHH
Q 029893          135 ------IGADLAVMERDALRMRDGGPFIFAQVKHGLG-VEEIVNHILQA  176 (186)
Q Consensus       135 ------~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~g-i~~l~~~i~~~  176 (186)
                            ..-..++..+..++. ...+++++||++|.| ++++|..+.+.
T Consensus       131 ~~~~~~~~v~~~~~~~~a~~~-~~~~~~E~SAk~~~n~v~~~F~~~~~~  178 (182)
T cd04172         131 LSNHRQTPVSYDQGANMAKQI-GAATYIECSALQSENSVRDIFHVATLA  178 (182)
T ss_pred             HHhcCCCCCCHHHHHHHHHHc-CCCEEEECCcCCCCCCHHHHHHHHHHH
Confidence                  001223333333443 234899999999998 99999987764

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

>cd04129 Rho2 Rho2 subfamily

Probab=98.19  E-value=4.6e-06  Score=64.07  Aligned_cols=107  Identities=19%  Similarity=0.118  Sum_probs=65.5

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc---cCCCC-----CCCceeEEEEecCCCCCccc-----
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP---RKGGP-----GITQADLLVINKTDLASAIG-----  136 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~---~~~~~-----~~~~adiivlNK~Dl~~~~~-----  136 (186)
                      ..++.+.||.|...   ..+..+..+|.+++++|....+...   ..+..     .-..+.++|.||+|+.+...     
T Consensus        48 ~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~~i~~~~s~~~~~~~~~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~~  127 (187)
T cd04129          48 PVQLALWDTAGQEEYERLRPLSYSKAHVILIGFAVDTPDSLENVRTKWIEEVRRYCPNVPVILVGLKKDLRQDAVAKEEY  127 (187)
T ss_pred             EEEEEEEECCCChhccccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhhhCccccccc
Confidence            45678889999311   1122334578899999987643211   01111     11357899999999864210     


Q ss_pred             -----ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          137 -----ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       137 -----~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                           ...+......++ ....+++++||++|.|++++++++.+..-..
T Consensus       128 ~~~~~~~~~~~~~~~~~-~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~  175 (187)
T cd04129         128 RTQRFVPIQQGKRVAKE-IGAKKYMECSALTGEGVDDVFEAATRAALLV  175 (187)
T ss_pred             ccCCcCCHHHHHHHHHH-hCCcEEEEccCCCCCCHHHHHHHHHHHHhcc
Confidence                 111222222233 2334799999999999999999998765433

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).

>PRK00049 elongation factor Tu; Reviewed

Probab=98.18  E-value=3.4e-06  Score=72.62  Aligned_cols=106  Identities=13%  Similarity=0.128  Sum_probs=65.3

Q ss_pred             cCCcEEEEecCCCe--eEEe-eeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeE-EEEecCCCCCcccccHHH--
Q 029893           72 FKADLLLCESGGDN--LAAN-FSRELADYIIYIIDVSGGDKIPR----KGGPGITQADL-LVINKTDLASAIGADLAV--  141 (186)
Q Consensus        72 ~~~D~iiIEtsG~~--l~~~-~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adi-ivlNK~Dl~~~~~~~~~~--  141 (186)
                      .+..++||+|+|..  +... .....+|++++|+|+..+...+.    .+......+.+ +++||+|+++.. ...+.  
T Consensus        73 ~~~~i~~iDtPG~~~f~~~~~~~~~~aD~~llVVDa~~g~~~qt~~~~~~~~~~g~p~iiVvvNK~D~~~~~-~~~~~~~  151 (396)
T PRK00049         73 EKRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFLNKCDMVDDE-ELLELVE  151 (396)
T ss_pred             CCeEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCchHHHHHHHHHHHcCCCEEEEEEeecCCcchH-HHHHHHH
Confidence            35678999999931  0000 11235799999999988643321    11122345665 579999998541 22222  


Q ss_pred             --HHHHHHhhC---CCCCEEEEeccCCC----------CHHHHHHHHHHHHH
Q 029893          142 --MERDALRMR---DGGPFIFAQVKHGL----------GVEEIVNHILQAWE  178 (186)
Q Consensus       142 --~~~~l~~~~---p~a~i~~~Sa~~g~----------gi~~l~~~i~~~~~  178 (186)
                        +...++...   ..+|++++||++|.          |+..|++.|....+
T Consensus       152 ~~i~~~l~~~~~~~~~~~iv~iSa~~g~~~~~~~~w~~~~~~ll~~l~~~~~  203 (396)
T PRK00049        152 MEVRELLSKYDFPGDDTPIIRGSALKALEGDDDEEWEKKILELMDAVDSYIP  203 (396)
T ss_pred             HHHHHHHHhcCCCccCCcEEEeecccccCCCCcccccccHHHHHHHHHhcCC
Confidence              333333321   24799999999875          57788888877654

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=98.18  E-value=5.8e-06  Score=61.01  Aligned_cols=100  Identities=20%  Similarity=0.218  Sum_probs=64.1

Q ss_pred             cEEEEecCCCeeE-Ee------e--------e-eecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCc
Q 029893           75 DLLLCESGGDNLA-AN------F--------S-RELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        75 D~iiIEtsG~~l~-~~------~--------~-~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~  134 (186)
                      .+.+++|.|.... .+      +        . .+..+.+++++|.........    .+......+.++++||+|+.+.
T Consensus        46 ~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~~~~~vi~v~nK~D~~~~  125 (170)
T cd01876          46 KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLENRENLKGVVLLIDSRHGPTEIDLEMLDWLEELGIPFLVVLTKADKLKK  125 (170)
T ss_pred             eEEEecCCCccccccCHHHHHHHHHHHHHHHHhChhhhEEEEEEEcCcCCCHhHHHHHHHHHHcCCCEEEEEEchhcCCh
Confidence            8899999994211 00      0        0 012356788999876532111    1222345678999999999765


Q ss_pred             ccccHHHHHHH----HHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          135 IGADLAVMERD----ALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       135 ~~~~~~~~~~~----l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                        .+.......    ++...+..+++++||+++.|++++++++.++
T Consensus       126 --~~~~~~~~~~~~~l~~~~~~~~~~~~Sa~~~~~~~~l~~~l~~~  169 (170)
T cd01876         126 --SELAKALKEIKKELKLFEIDPPIILFSSLKGQGIDELRALIEKW  169 (170)
T ss_pred             --HHHHHHHHHHHHHHHhccCCCceEEEecCCCCCHHHHHHHHHHh
Confidence              333333222    2223456799999999999999999999875

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.

>cd04131 Rnd Rnd subfamily

Probab=98.18  E-value=3.1e-06  Score=64.83  Aligned_cols=104  Identities=17%  Similarity=0.123  Sum_probs=65.9

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc---CCCCC-----CCceeEEEEecCCCCCc------
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR---KGGPG-----ITQADLLVINKTDLASA------  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~---~~~~~-----~~~adiivlNK~Dl~~~------  134 (186)
                      ..+.+-|.+|+|..-   ..+..+..+|.+++|+|.++......   .+...     -..+.++|.||+||.++      
T Consensus        47 ~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~~~~~~~iilVgnK~DL~~~~~~~~~  126 (178)
T cd04131          47 QRIELSLWDTSGSPYYDNVRPLCYPDSDAVLICFDISRPETLDSVLKKWRGEIQEFCPNTKVLLVGCKTDLRTDLSTLME  126 (178)
T ss_pred             EEEEEEEEECCCchhhhhcchhhcCCCCEEEEEEECCChhhHHHHHHHHHHHHHHHCCCCCEEEEEEChhhhcChhHHHH
Confidence            356788999999310   12334456899999999987643211   11110     13478999999999642      


Q ss_pred             ------ccccHHHHHHHHHhhCCCCCEEEEeccCCCC-HHHHHHHHHHH
Q 029893          135 ------IGADLAVMERDALRMRDGGPFIFAQVKHGLG-VEEIVNHILQA  176 (186)
Q Consensus       135 ------~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~g-i~~l~~~i~~~  176 (186)
                            ..-..++..+..++. ...+++++||++|+| ++++|..+.+.
T Consensus       127 ~~~~~~~~v~~~e~~~~a~~~-~~~~~~E~SA~~~~~~v~~~F~~~~~~  174 (178)
T cd04131         127 LSHQRQAPVSYEQGCAIAKQL-GAEIYLECSAFTSEKSVRDIFHVATMA  174 (178)
T ss_pred             HHhcCCCCCCHHHHHHHHHHh-CCCEEEECccCcCCcCHHHHHHHHHHH
Confidence                  001123333333333 223789999999995 99999988773

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.

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=98.17  E-value=3.3e-06  Score=76.77  Aligned_cols=97  Identities=19%  Similarity=0.174  Sum_probs=59.4

Q ss_pred             cCCcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCCCcc----CCCCCCC-ceeEEEEecCCCCCcccccHHHHH
Q 029893           72 FKADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDKIPR----KGGPGIT-QADLLVINKTDLASAIGADLAVME  143 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~-~adiivlNK~Dl~~~~~~~~~~~~  143 (186)
                      .+..++||+|+|.. ....  .....+|++++|+|+..+...+.    .....+. .+.++++||+|+++...+.++.+.
T Consensus       102 ~~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t~e~~~~~~~~~~~~iivvvNK~D~~~~~~~~~~~i~  181 (632)
T PRK05506        102 PKRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQTRRHSFIASLLGIRHVVLAVNKMDLVDYDQEVFDEIV  181 (632)
T ss_pred             CCceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccCHHHHHHHHHhCCCeEEEEEEecccccchhHHHHHHH
Confidence            45678999999931 0000  11235799999999987753221    1111223 346789999999853113334444


Q ss_pred             HHHH----hh-CCCCCEEEEeccCCCCHHH
Q 029893          144 RDAL----RM-RDGGPFIFAQVKHGLGVEE  168 (186)
Q Consensus       144 ~~l~----~~-~p~a~i~~~Sa~~g~gi~~  168 (186)
                      ..++    +. ++..+++++||++|.|+++
T Consensus       182 ~~i~~~~~~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        182 ADYRAFAAKLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             HHHHHHHHHcCCCCccEEEEecccCCCccc
Confidence            4443    22 2346899999999999974

>PRK10218 GTP-binding protein; Provisional

Probab=98.17  E-value=2.3e-06  Score=77.29  Aligned_cols=109  Identities=15%  Similarity=0.162  Sum_probs=70.1

Q ss_pred             cCCcEEEEecCCCee-EE--eeeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCccc-ccHHHHH
Q 029893           72 FKADLLLCESGGDNL-AA--NFSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIG-ADLAVME  143 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~~--~~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~-~~~~~~~  143 (186)
                      .+..+.|++|+|..- ..  ...+..+|.+++|+|+.++...+.    ........+.++++||+|+..... ..++++.
T Consensus        66 ~~~~inliDTPG~~df~~~v~~~l~~aDg~ILVVDa~~G~~~qt~~~l~~a~~~gip~IVviNKiD~~~a~~~~vl~ei~  145 (607)
T PRK10218         66 NDYRINIVDTPGHADFGGEVERVMSMVDSVLLVVDAFDGPMPQTRFVTKKAFAYGLKPIVVINKVDRPGARPDWVVDQVF  145 (607)
T ss_pred             CCEEEEEEECCCcchhHHHHHHHHHhCCEEEEEEecccCccHHHHHHHHHHHHcCCCEEEEEECcCCCCCchhHHHHHHH
Confidence            467889999999210 00  012345799999999988743221    111224557899999999875421 1223333


Q ss_pred             HHHHhhC-----CCCCEEEEeccCCC----------CHHHHHHHHHHHHHHh
Q 029893          144 RDALRMR-----DGGPFIFAQVKHGL----------GVEEIVNHILQAWEAS  180 (186)
Q Consensus       144 ~~l~~~~-----p~a~i~~~Sa~~g~----------gi~~l~~~i~~~~~~~  180 (186)
                      +.+..+.     -..|++++||++|.          |+..|++.+..++|.-
T Consensus       146 ~l~~~l~~~~~~~~~PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP~P  197 (607)
T PRK10218        146 DLFVNLDATDEQLDFPIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHVPAP  197 (607)
T ss_pred             HHHhccCccccccCCCEEEeEhhcCcccCCccccccchHHHHHHHHHhCCCC
Confidence            3332211     13689999999998          6899999998888743

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.17  E-value=3.4e-06  Score=77.68  Aligned_cols=101  Identities=19%  Similarity=0.218  Sum_probs=66.0

Q ss_pred             CCcEEEEecCCCeeEE-----e------eeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccc
Q 029893           73 KADLLLCESGGDNLAA-----N------FSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGA  137 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~-----~------~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~  137 (186)
                      +..+.+++|.|.....     .      ..+..+|++++|+|+.++.....    .+......+.++|+||+|+...  .
T Consensus       322 ~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~aD~iL~VvDa~~~~~~~d~~i~~~Lr~~~~pvIlV~NK~D~~~~--~  399 (712)
T PRK09518        322 GTDFKLVDTGGWEADVEGIDSAIASQAQIAVSLADAVVFVVDGQVGLTSTDERIVRMLRRAGKPVVLAVNKIDDQAS--E  399 (712)
T ss_pred             CEEEEEEeCCCcCCCCccHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHhcCCCEEEEEECcccccc--h
Confidence            5678899999932100     0      01245799999999987543221    1112245689999999998754  2


Q ss_pred             cHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          138 DLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       138 ~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ..  .....+ . ....++++||++|.|++++++++.+.++.
T Consensus       400 ~~--~~~~~~-l-g~~~~~~iSA~~g~GI~eLl~~i~~~l~~  437 (712)
T PRK09518        400 YD--AAEFWK-L-GLGEPYPISAMHGRGVGDLLDEALDSLKV  437 (712)
T ss_pred             hh--HHHHHH-c-CCCCeEEEECCCCCCchHHHHHHHHhccc
Confidence            11  111111 1 22356899999999999999999987764

>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=98.16  E-value=7.5e-06  Score=63.84  Aligned_cols=89  Identities=18%  Similarity=0.103  Sum_probs=62.0

Q ss_pred             eeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEecc
Q 029893           91 SRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVK  161 (186)
Q Consensus        91 ~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~  161 (186)
                      .++.|+.+++|+|.++.....         .++.. -..+-++|.||+|+.+++.-..++.++..++.  +.+.+++|||
T Consensus        81 YyrgA~gi~LvyDitne~Sfeni~~W~~~I~e~a~-~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~--G~~F~EtSAk  157 (207)
T KOG0078|consen   81 YYRGAMGILLVYDITNEKSFENIRNWIKNIDEHAS-DDVVKILVGNKCDLEEKRQVSKERGEALAREY--GIKFFETSAK  157 (207)
T ss_pred             HHhhcCeeEEEEEccchHHHHHHHHHHHHHHhhCC-CCCcEEEeeccccccccccccHHHHHHHHHHh--CCeEEEcccc
Confidence            356789999999998743211         11111 13467999999999886433444554444554  6899999999


Q ss_pred             CCCCHHHHHHHHHHHHHHhhc
Q 029893          162 HGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       162 ~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      +|.||++.|-.+.+.......
T Consensus       158 ~~~NI~eaF~~La~~i~~k~~  178 (207)
T KOG0078|consen  158 TNFNIEEAFLSLARDILQKLE  178 (207)
T ss_pred             CCCCHHHHHHHHHHHHHhhcc
Confidence            999999999988876654333

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

Probab=98.16  E-value=2e-06  Score=65.69  Aligned_cols=91  Identities=14%  Similarity=0.114  Sum_probs=57.3

Q ss_pred             cEEEEecCCCeeEEe-------e------eee---cCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCc
Q 029893           75 DLLLCESGGDNLAAN-------F------SRE---LADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        75 D~iiIEtsG~~l~~~-------~------~~~---~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~  134 (186)
                      .+.|++|+|......       +      .+.   ..+.+++|+|+.++.....    ........+.++++||+|+.++
T Consensus        65 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~~~~~~~~~~~~pviiv~nK~D~~~~  144 (179)
T TIGR03598        65 GFRLVDLPGYGYAKVSKEEKEKWQKLIEEYLEKRENLKGVVLLMDIRHPLKELDLEMLEWLRERGIPVLIVLTKADKLKK  144 (179)
T ss_pred             cEEEEeCCCCccccCChhHHHHHHHHHHHHHHhChhhcEEEEEecCCCCCCHHHHHHHHHHHHcCCCEEEEEECcccCCH
Confidence            689999999421100       0      011   2478899999987533211    1112245688999999999865


Q ss_pred             ccccH----HHHHHHHHhhCCCCCEEEEeccCCCCHH
Q 029893          135 IGADL----AVMERDALRMRDGGPFIFAQVKHGLGVE  167 (186)
Q Consensus       135 ~~~~~----~~~~~~l~~~~p~a~i~~~Sa~~g~gi~  167 (186)
                        .+.    +++++.++...+..+++++||++|+|++
T Consensus       145 --~~~~~~~~~i~~~l~~~~~~~~v~~~Sa~~g~gi~  179 (179)
T TIGR03598       145 --SELNKQLKKIKKALKKDADDPSVQLFSSLKKTGID  179 (179)
T ss_pred             --HHHHHHHHHHHHHHhhccCCCceEEEECCCCCCCC
Confidence              333    3344444443334689999999999974

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.

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

Probab=98.15  E-value=3.1e-06  Score=69.95  Aligned_cols=79  Identities=20%  Similarity=0.274  Sum_probs=53.1

Q ss_pred             cCceEEEEEeCCCCCCC---c---------cCCCC-CCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEec
Q 029893           94 LADYIIYIIDVSGGDKI---P---------RKGGP-GITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQV  160 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~---~---------~~~~~-~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa  160 (186)
                      .++..++|+|.+.+...   .         ..|.. ....+.+||.||+|+.+.   +.. ..+.+.+..+...|+++||
T Consensus       274 R~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~ea---e~~-~l~~L~~~lq~~~V~pvsA  349 (366)
T KOG1489|consen  274 RCKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEA---EKN-LLSSLAKRLQNPHVVPVSA  349 (366)
T ss_pred             hhceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhH---HHH-HHHHHHHHcCCCcEEEeee
Confidence            35678999999887221   0         11222 245689999999999643   222 2233333333447999999


Q ss_pred             cCCCCHHHHHHHHHHH
Q 029893          161 KHGLGVEEIVNHILQA  176 (186)
Q Consensus       161 ~~g~gi~~l~~~i~~~  176 (186)
                      ++|+|++++++.+.+.
T Consensus       350 ~~~egl~~ll~~lr~~  365 (366)
T KOG1489|consen  350 KSGEGLEELLNGLREL  365 (366)
T ss_pred             ccccchHHHHHHHhhc
Confidence            9999999999988764

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=98.15  E-value=4.7e-06  Score=62.77  Aligned_cols=101  Identities=14%  Similarity=0.177  Sum_probs=63.9

Q ss_pred             cCCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCc------cCCC-CCCCceeEEEEecCCCCCcccccHHH
Q 029893           72 FKADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIP------RKGG-PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~------~~~~-~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+..+.+.+++|..--.   +..+..+|.+++|+|+++.....      .... ..-..+.++|+||+|+...  .....
T Consensus        42 ~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~t~~~s~~~~~~~l~~~~~~~~~~piilv~NK~Dl~~~--~~~~~  119 (164)
T cd04162          42 QDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDSADSERLPLARQELHQLLQHPPDLPLVVLANKQDLPAA--RSVQE  119 (164)
T ss_pred             CCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHhCCCCCcEEEEEeCcCCcCC--CCHHH
Confidence            46778899999931101   11245689999999998753211      0110 1124578999999999765  33443


Q ss_pred             HHHHH--HhhC--CCCCEEEEeccC------CCCHHHHHHHHH
Q 029893          142 MERDA--LRMR--DGGPFIFAQVKH------GLGVEEIVNHIL  174 (186)
Q Consensus       142 ~~~~l--~~~~--p~a~i~~~Sa~~------g~gi~~l~~~i~  174 (186)
                      +...+  ..+.  ...+++++||++      ++|++++|+.+.
T Consensus       120 i~~~~~~~~~~~~~~~~~~~~Sa~~~~s~~~~~~v~~~~~~~~  162 (164)
T cd04162         120 IHKELELEPIARGRRWILQGTSLDDDGSPSRMEAVKDLLSQLI  162 (164)
T ss_pred             HHHHhCChhhcCCCceEEEEeeecCCCChhHHHHHHHHHHHHh
Confidence            33322  2221  235789999999      999999998764

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.

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=98.13  E-value=2.9e-06  Score=76.48  Aligned_cols=106  Identities=18%  Similarity=0.237  Sum_probs=69.4

Q ss_pred             cCCcEEEEecCCCeeEEee------eeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCcccc-cHH
Q 029893           72 FKADLLLCESGGDNLAANF------SRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASAIGA-DLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~~------~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~~~~-~~~  140 (186)
                      .+..+-||+|+|-  . .|      ....+|.+++|+|+.++...+..    .......+.++++||+|+.+.... ..+
T Consensus        62 ~~~kinlIDTPGh--~-DF~~ev~~~l~~aD~alLVVDa~~G~~~qT~~~l~~a~~~~ip~IVviNKiD~~~a~~~~v~~  138 (594)
T TIGR01394        62 NGTKINIVDTPGH--A-DFGGEVERVLGMVDGVLLLVDASEGPMPQTRFVLKKALELGLKPIVVINKIDRPSARPDEVVD  138 (594)
T ss_pred             CCEEEEEEECCCH--H-HHHHHHHHHHHhCCEEEEEEeCCCCCcHHHHHHHHHHHHCCCCEEEEEECCCCCCcCHHHHHH
Confidence            4677889999992  1 12      12357999999999887532211    112244578999999999754211 123


Q ss_pred             HHHHHHHhhC-----CCCCEEEEeccCCC----------CHHHHHHHHHHHHHHh
Q 029893          141 VMERDALRMR-----DGGPFIFAQVKHGL----------GVEEIVNHILQAWEAS  180 (186)
Q Consensus       141 ~~~~~l~~~~-----p~a~i~~~Sa~~g~----------gi~~l~~~i~~~~~~~  180 (186)
                      ++...+....     ...|++++||++|.          |++.|++.+.+++|.-
T Consensus       139 ei~~l~~~~g~~~e~l~~pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP~P  193 (594)
T TIGR01394       139 EVFDLFAELGADDEQLDFPIVYASGRAGWASLDLDDPSDNMAPLFDAIVRHVPAP  193 (594)
T ss_pred             HHHHHHHhhccccccccCcEEechhhcCcccccCcccccCHHHHHHHHHHhCCCC
Confidence            3333333221     13589999999996          8999999999888753

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=98.13  E-value=4.9e-06  Score=72.15  Aligned_cols=99  Identities=23%  Similarity=0.333  Sum_probs=64.6

Q ss_pred             cCCcEEEEecCCCeeEEe-----------eeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCccc
Q 029893           72 FKADLLLCESGGDNLAAN-----------FSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIG  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~-----------~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~  136 (186)
                      .+.++.+++|.|..-...           ..+..+|++++|+|+.++.....    .+......+.++|+||+|+.+.. 
T Consensus        47 ~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvd~~~~~~~~~~~~~~~l~~~~~piilv~NK~D~~~~~-  125 (435)
T PRK00093         47 LGREFILIDTGGIEPDDDGFEKQIREQAELAIEEADVILFVVDGRAGLTPADEEIAKILRKSNKPVILVVNKVDGPDEE-  125 (435)
T ss_pred             CCcEEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCcEEEEEECccCccch-
Confidence            457899999999421100           01235799999999987643221    11122356899999999976431 


Q ss_pred             ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          137 ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       137 ~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      ...   . ..... ...+++++||++|.|++++++++.+.
T Consensus       126 ~~~---~-~~~~l-g~~~~~~iSa~~g~gv~~l~~~I~~~  160 (435)
T PRK00093        126 ADA---Y-EFYSL-GLGEPYPISAEHGRGIGDLLDAILEE  160 (435)
T ss_pred             hhH---H-HHHhc-CCCCCEEEEeeCCCCHHHHHHHHHhh
Confidence            111   1 12222 23457999999999999999998773

>cd04167 Snu114p Snu114p subfamily

Probab=98.09  E-value=1.4e-06  Score=68.54  Aligned_cols=105  Identities=18%  Similarity=0.172  Sum_probs=63.3

Q ss_pred             CCcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCc-----ccccHH
Q 029893           73 KADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASA-----IGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~-----~~~~~~  140 (186)
                      .+.+.|++|+|.. ....  .....+|.+++|+|+.++......    .......+.++|+||+|++..     ..+..+
T Consensus        70 ~~~i~iiDtpG~~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~~~~~~~~~~~~~p~iiviNK~D~~~~~~~l~~~~~~~  149 (213)
T cd04167          70 SYLFNIIDTPGHVNFMDEVAAALRLSDGVVLVVDVVEGVTSNTERLIRHAILEGLPIVLVINKIDRLILELKLPPNDAYF  149 (213)
T ss_pred             EEEEEEEECCCCcchHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECcccCcccccCCHHHHHH
Confidence            4678999999931 1000  112357999999999876543211    111123689999999998621     002334


Q ss_pred             HHHHHHHhhCCC------------CC----EEEEeccCCCCHH--------HHHHHHHHHH
Q 029893          141 VMERDALRMRDG------------GP----FIFAQVKHGLGVE--------EIVNHILQAW  177 (186)
Q Consensus       141 ~~~~~l~~~~p~------------a~----i~~~Sa~~g~gi~--------~l~~~i~~~~  177 (186)
                      .+.+.++++|+.            .|    |++.|++.|.++.        +|++.|....
T Consensus       150 ~l~~~i~~~n~~~~~~~~~~~~~~~p~~~nv~~~s~~~~w~~~~~~~~~~~~~~~~~~~~~  210 (213)
T cd04167         150 KLRHIIDEVNNIIASFSTTLSFLFSPENGNVCFASSKFGFCFTLESFAKKYGLVDSIVSNI  210 (213)
T ss_pred             HHHHHHHHHHHHHHHhcCCCceEeccCCCeEEEEecCCCeEEecHHHHhhhhHHHHHHhhC
Confidence            444444444321            33    7889999998886        6666655544

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.

>CHL00071 tufA elongation factor Tu

Probab=98.09  E-value=2.6e-06  Score=73.64  Aligned_cols=93  Identities=11%  Similarity=0.047  Sum_probs=56.2

Q ss_pred             cCCcEEEEecCCCe--eEEe-eeeecCceEEEEEeCCCCCCCcc----CCCCCCCce-eEEEEecCCCCCcccccHH---
Q 029893           72 FKADLLLCESGGDN--LAAN-FSRELADYIIYIIDVSGGDKIPR----KGGPGITQA-DLLVINKTDLASAIGADLA---  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~--l~~~-~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~a-diivlNK~Dl~~~~~~~~~---  140 (186)
                      .+..+.||+|+|..  +... .....+|++++|+|+..+...+.    ........+ .++++||+|+++.. ...+   
T Consensus        73 ~~~~~~~iDtPGh~~~~~~~~~~~~~~D~~ilVvda~~g~~~qt~~~~~~~~~~g~~~iIvvvNK~D~~~~~-~~~~~~~  151 (409)
T CHL00071         73 ENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTKEHILLAKQVGVPNIVVFLNKEDQVDDE-ELLELVE  151 (409)
T ss_pred             CCeEEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEEccCCCCHH-HHHHHHH
Confidence            35678999999931  0000 01234799999999988653221    111224456 56789999998751 1122   


Q ss_pred             -HHHHHHHhhC-C--CCCEEEEeccCCCC
Q 029893          141 -VMERDALRMR-D--GGPFIFAQVKHGLG  165 (186)
Q Consensus       141 -~~~~~l~~~~-p--~a~i~~~Sa~~g~g  165 (186)
                       ++...++... +  ..|++++||++|.+
T Consensus       152 ~~l~~~l~~~~~~~~~~~ii~~Sa~~g~n  180 (409)
T CHL00071        152 LEVRELLSKYDFPGDDIPIVSGSALLALE  180 (409)
T ss_pred             HHHHHHHHHhCCCCCcceEEEcchhhccc
Confidence             3334444332 1  37999999999863

>PLN03127 Elongation factor Tu; Provisional

Probab=98.09  E-value=5.4e-06  Score=72.45  Aligned_cols=103  Identities=14%  Similarity=0.173  Sum_probs=63.7

Q ss_pred             cCCcEEEEecCCCeeEEee------eeecCceEEEEEeCCCCCCCcc----CCCCCCCcee-EEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDNLAANF------SRELADYIIYIIDVSGGDKIPR----KGGPGITQAD-LLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~~------~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~ad-iivlNK~Dl~~~~~~~~~  140 (186)
                      .+..++||+|+|..   .|      ....+|++++|+|+.++...+.    ........+. ++++||+|++++. ...+
T Consensus       122 ~~~~i~~iDtPGh~---~f~~~~~~g~~~aD~allVVda~~g~~~qt~e~l~~~~~~gip~iIvviNKiDlv~~~-~~~~  197 (447)
T PLN03127        122 AKRHYAHVDCPGHA---DYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVGVPSLVVFLNKVDVVDDE-ELLE  197 (447)
T ss_pred             CCeEEEEEECCCcc---chHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHcCCCeEEEEEEeeccCCHH-HHHH
Confidence            35578999999931   11      1124799999999987643221    1122244564 6789999998641 2222


Q ss_pred             HHHHHHHhh-----C--CCCCEEEEecc---CCCC-------HHHHHHHHHHHHH
Q 029893          141 VMERDALRM-----R--DGGPFIFAQVK---HGLG-------VEEIVNHILQAWE  178 (186)
Q Consensus       141 ~~~~~l~~~-----~--p~a~i~~~Sa~---~g~g-------i~~l~~~i~~~~~  178 (186)
                      .+...+++.     +  ...|++++||.   +|.|       +.+|++++.+++|
T Consensus       198 ~i~~~i~~~l~~~~~~~~~vpiip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~~lp  252 (447)
T PLN03127        198 LVEMELRELLSFYKFPGDEIPIIRGSALSALQGTNDEIGKNAILKLMDAVDEYIP  252 (447)
T ss_pred             HHHHHHHHHHHHhCCCCCcceEEEeccceeecCCCcccccchHHHHHHHHHHhCC
Confidence            233233322     1  13688888876   5555       7888998888765

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=98.09  E-value=1.3e-05  Score=66.85  Aligned_cols=86  Identities=17%  Similarity=0.212  Sum_probs=62.2

Q ss_pred             CceEEEEEeCCCCCCCc------------cCC-CCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEecc
Q 029893           95 ADYIIYIIDVSGGDKIP------------RKG-GPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVK  161 (186)
Q Consensus        95 ad~~v~VvDa~~~~~~~------------~~~-~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~  161 (186)
                      ..+.+.|+|.+..+...            ..| +....++.+||+||+|+..+. ++++.+.+.+.+...+...+++||.
T Consensus       238 t~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~-e~~~~~~~~l~~~~~~~~~~~ISa~  316 (369)
T COG0536         238 TRVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDE-EELEELKKALAEALGWEVFYLISAL  316 (369)
T ss_pred             hheeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcCH-HHHHHHHHHHHHhcCCCcceeeehh
Confidence            45679999998754310            123 233577999999999955432 5667777777765554444449999


Q ss_pred             CCCCHHHHHHHHHHHHHHhh
Q 029893          162 HGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       162 ~g~gi~~l~~~i~~~~~~~~  181 (186)
                      +++|+++|+..+.+.++..+
T Consensus       317 t~~g~~~L~~~~~~~l~~~~  336 (369)
T COG0536         317 TREGLDELLRALAELLEETK  336 (369)
T ss_pred             cccCHHHHHHHHHHHHHHhh
Confidence            99999999999999888775

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

Probab=98.08  E-value=1.4e-05  Score=61.73  Aligned_cols=91  Identities=18%  Similarity=0.141  Sum_probs=61.7

Q ss_pred             eeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEecc
Q 029893           91 SRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVK  161 (186)
Q Consensus        91 ~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~  161 (186)
                      .++.|+.+|+|+|.+.-....         .++.. -..+.++|.||+|+.+......++.+ .....++-.+.++||||
T Consensus        78 yYR~ahGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~-~~v~~lLVGNK~Dl~~~~~v~~~~a~-~fa~~~~~~~f~ETSAK  155 (205)
T KOG0084|consen   78 YYRGAHGIIFVYDITKQESFNNVKRWIQEIDRYAS-ENVPKLLVGNKCDLTEKRVVSTEEAQ-EFADELGIPIFLETSAK  155 (205)
T ss_pred             hccCCCeEEEEEEcccHHHhhhHHHHHHHhhhhcc-CCCCeEEEeeccccHhheecCHHHHH-HHHHhcCCcceeecccC
Confidence            356799999999998743321         11111 12478999999999877422223333 33333443349999999


Q ss_pred             CCCCHHHHHHHHHHHHHHhhcc
Q 029893          162 HGLGVEEIVNHILQAWEASTGK  183 (186)
Q Consensus       162 ~g~gi~~l~~~i~~~~~~~~~~  183 (186)
                      ++.++++.|..+...+...+..
T Consensus       156 ~~~NVe~~F~~la~~lk~~~~~  177 (205)
T KOG0084|consen  156 DSTNVEDAFLTLAKELKQRKGL  177 (205)
T ss_pred             CccCHHHHHHHHHHHHHHhccc
Confidence            9999999999999887766543

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.07  E-value=6.2e-06  Score=68.04  Aligned_cols=78  Identities=17%  Similarity=0.204  Sum_probs=51.8

Q ss_pred             cCceEEEEEeCCCCC-CC--ccCCC---CCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHH
Q 029893           94 LADYIIYIIDVSGGD-KI--PRKGG---PGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVE  167 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~-~~--~~~~~---~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~  167 (186)
                      .+|.+++|+|+.++. ..  ...+.   .....+.++|+||+||.++  .+.........  ....+++++||++|.|++
T Consensus        78 nvD~vllV~d~~~p~~s~~~ldr~L~~~~~~~ip~iIVlNK~DL~~~--~~~~~~~~~~~--~~g~~v~~vSA~~g~gi~  153 (287)
T cd01854          78 NVDQLVIVVSLNEPFFNPRLLDRYLVAAEAAGIEPVIVLTKADLLDD--EEEELELVEAL--ALGYPVLAVSAKTGEGLD  153 (287)
T ss_pred             eCCEEEEEEEcCCCCCCHHHHHHHHHHHHHcCCCEEEEEEHHHCCCh--HHHHHHHHHHH--hCCCeEEEEECCCCccHH
Confidence            468899999998764 21  11121   1234578999999999865  22222122222  245699999999999999


Q ss_pred             HHHHHHHH
Q 029893          168 EIVNHILQ  175 (186)
Q Consensus       168 ~l~~~i~~  175 (186)
                      +|..++..
T Consensus       154 ~L~~~L~~  161 (287)
T cd01854         154 ELREYLKG  161 (287)
T ss_pred             HHHhhhcc
Confidence            99988753

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.

>PRK12735 elongation factor Tu; Reviewed

Probab=98.06  E-value=7.2e-06  Score=70.60  Aligned_cols=106  Identities=11%  Similarity=0.115  Sum_probs=65.2

Q ss_pred             cCCcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCCCcc-CC---CCCCCceeE-EEEecCCCCCcccccHH---
Q 029893           72 FKADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDKIPR-KG---GPGITQADL-LVINKTDLASAIGADLA---  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~~~~-~~---~~~~~~adi-ivlNK~Dl~~~~~~~~~---  140 (186)
                      .+..+.|++|+|.. ....  .....+|++++|+|+..+...+. .+   ......+.+ +++||+|+.+.. ...+   
T Consensus        73 ~~~~i~~iDtPGh~~f~~~~~~~~~~aD~~llVvda~~g~~~qt~e~l~~~~~~gi~~iivvvNK~Dl~~~~-~~~~~~~  151 (396)
T PRK12735         73 ANRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFLNKCDMVDDE-ELLELVE  151 (396)
T ss_pred             CCcEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCchhHHHHHHHHHHcCCCeEEEEEEecCCcchH-HHHHHHH
Confidence            35578999999931 0000  11234699999999988643221 11   112344656 479999998541 1222   


Q ss_pred             -HHHHHHHhhC-C--CCCEEEEeccCC----------CCHHHHHHHHHHHHH
Q 029893          141 -VMERDALRMR-D--GGPFIFAQVKHG----------LGVEEIVNHILQAWE  178 (186)
Q Consensus       141 -~~~~~l~~~~-p--~a~i~~~Sa~~g----------~gi~~l~~~i~~~~~  178 (186)
                       ++...++... +  ..+++++||++|          .|+.+|++.+...+|
T Consensus       152 ~ei~~~l~~~~~~~~~~~ii~~Sa~~g~n~~~~~~w~~~~~~Ll~~l~~~~~  203 (396)
T PRK12735        152 MEVRELLSKYDFPGDDTPIIRGSALKALEGDDDEEWEAKILELMDAVDSYIP  203 (396)
T ss_pred             HHHHHHHHHcCCCcCceeEEecchhccccCCCCCcccccHHHHHHHHHhcCC
Confidence             2333333322 2  378999999998          478899998887764

>PLN03108 Rab family protein; Provisional

Probab=98.06  E-value=1.8e-05  Score=62.16  Aligned_cols=103  Identities=18%  Similarity=0.116  Sum_probs=65.1

Q ss_pred             CcEEEEecCCCe-eE--EeeeeecCceEEEEEeCCCCCCCcc--CCC------CCCCceeEEEEecCCCCCcccccHHHH
Q 029893           74 ADLLLCESGGDN-LA--ANFSRELADYIIYIIDVSGGDKIPR--KGG------PGITQADLLVINKTDLASAIGADLAVM  142 (186)
Q Consensus        74 ~D~iiIEtsG~~-l~--~~~~~~~ad~~v~VvDa~~~~~~~~--~~~------~~~~~adiivlNK~Dl~~~~~~~~~~~  142 (186)
                      ..+-+.+|+|.. ..  .+..+..+|.+++|+|++.......  .+.      ..-..+.++|.||+|+.+......+..
T Consensus        55 i~l~l~Dt~G~~~~~~~~~~~~~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~  134 (210)
T PLN03108         55 IKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVSTEEG  134 (210)
T ss_pred             EEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccCCCHHHH
Confidence            456688999921 00  1112345789999999987532110  110      012357899999999976422233444


Q ss_pred             HHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          143 ERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       143 ~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .+..+..  ..+++++||++|.|++++|+++.+.+-
T Consensus       135 ~~~~~~~--~~~~~e~Sa~~~~~v~e~f~~l~~~~~  168 (210)
T PLN03108        135 EQFAKEH--GLIFMEASAKTAQNVEEAFIKTAAKIY  168 (210)
T ss_pred             HHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            4444443  358999999999999999988876543

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.05  E-value=9.1e-06  Score=69.74  Aligned_cols=104  Identities=16%  Similarity=0.204  Sum_probs=72.9

Q ss_pred             CCcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCCCccC----CCCCCCcee-EEEEecCCCCCcccccHHHHHH
Q 029893           73 KADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDKIPRK----GGPGITQAD-LLVINKTDLASAIGADLAVMER  144 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~ad-iivlNK~Dl~~~~~~~~~~~~~  144 (186)
                      +.-.-|||++|-. ...+  ......|+.++|||+.+|...+..    ....+.... ++|+||+|++++  +.+++..+
T Consensus        49 d~~~~fIDvpgh~~~i~~miag~~~~d~alLvV~~deGl~~qtgEhL~iLdllgi~~giivltk~D~~d~--~r~e~~i~  126 (447)
T COG3276          49 DGVMGFIDVPGHPDFISNLLAGLGGIDYALLVVAADEGLMAQTGEHLLILDLLGIKNGIIVLTKADRVDE--ARIEQKIK  126 (447)
T ss_pred             CCceEEeeCCCcHHHHHHHHhhhcCCceEEEEEeCccCcchhhHHHHHHHHhcCCCceEEEEeccccccH--HHHHHHHH
Confidence            3467789999921 0001  112246889999999888665431    122344554 999999999987  66666655


Q ss_pred             HHHhh--CCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          145 DALRM--RDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       145 ~l~~~--~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .+.+.  .+.++++.+|+++|+||++|.++|.+...
T Consensus       127 ~Il~~l~l~~~~i~~~s~~~g~GI~~Lk~~l~~L~~  162 (447)
T COG3276         127 QILADLSLANAKIFKTSAKTGRGIEELKNELIDLLE  162 (447)
T ss_pred             HHHhhcccccccccccccccCCCHHHHHHHHHHhhh
Confidence            55432  46789999999999999999999998873

>cd00154 Rab Rab family

Probab=98.05  E-value=7.5e-06  Score=59.72  Aligned_cols=101  Identities=20%  Similarity=0.151  Sum_probs=64.4

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc--cCCC------CCCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP--RKGG------PGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~--~~~~------~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ...++.++++.|...-   ....+..+|.+++|+|+.+.....  ..+.      ..-..+-++++||+|+..+.....+
T Consensus        47 ~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~  126 (159)
T cd00154          47 KTVKLQIWDTAGQERFRSITPSYYRGAHGAILVYDITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLEDQRQVSTE  126 (159)
T ss_pred             EEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccccccccccHH
Confidence            3577889999993110   011223479999999998743211  0010      1123578999999999733112334


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHIL  174 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~  174 (186)
                      ...+..+.  ...+++++||++|.|++++++++.
T Consensus       127 ~~~~~~~~--~~~~~~~~sa~~~~~i~~~~~~i~  158 (159)
T cd00154         127 EAQQFAKE--NGLLFFETSAKTGENVEELFQSLA  158 (159)
T ss_pred             HHHHHHHH--cCCeEEEEecCCCCCHHHHHHHHh
Confidence            44444443  246899999999999999999875

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

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.04  E-value=1.3e-05  Score=70.45  Aligned_cols=98  Identities=17%  Similarity=0.223  Sum_probs=68.0

Q ss_pred             cCCcEEEEecCCCeeEEeee---ee---cCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccccHHH
Q 029893           72 FKADLLLCESGGDNLAANFS---RE---LADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~~~---~~---~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+--+.|.+|+|  -+ .|+   .+   .+|++|+||.+.+|-..+.    ++......+.++.+||+|..+.   ..++
T Consensus       199 ~G~~iTFLDTPG--Ha-AF~aMRaRGA~vtDIvVLVVAadDGVmpQT~EaIkhAk~A~VpiVvAinKiDkp~a---~pek  272 (683)
T KOG1145|consen  199 SGKSITFLDTPG--HA-AFSAMRARGANVTDIVVLVVAADDGVMPQTLEAIKHAKSANVPIVVAINKIDKPGA---NPEK  272 (683)
T ss_pred             CCCEEEEecCCc--HH-HHHHHHhccCccccEEEEEEEccCCccHhHHHHHHHHHhcCCCEEEEEeccCCCCC---CHHH
Confidence            345677888888  21 121   12   3599999999988765432    2334455689999999997754   4445


Q ss_pred             HHHHH-------HhhCCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          142 MERDA-------LRMRDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       142 ~~~~l-------~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      +...+       ..+....+++++||++|+|++.|.+.+.-
T Consensus       273 v~~eL~~~gi~~E~~GGdVQvipiSAl~g~nl~~L~eaill  313 (683)
T KOG1145|consen  273 VKRELLSQGIVVEDLGGDVQVIPISALTGENLDLLEEAILL  313 (683)
T ss_pred             HHHHHHHcCccHHHcCCceeEEEeecccCCChHHHHHHHHH
Confidence            54443       33456789999999999999999987754

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=98.03  E-value=7e-06  Score=71.73  Aligned_cols=97  Identities=15%  Similarity=0.130  Sum_probs=58.2

Q ss_pred             cCCcEEEEecCCCe-e-EEe-eeeecCceEEEEEeCCCCCC-------Ccc-C---CCCCCCcee-EEEEecCCC--CCc
Q 029893           72 FKADLLLCESGGDN-L-AAN-FSRELADYIIYIIDVSGGDK-------IPR-K---GGPGITQAD-LLVINKTDL--ASA  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l-~~~-~~~~~ad~~v~VvDa~~~~~-------~~~-~---~~~~~~~ad-iivlNK~Dl--~~~  134 (186)
                      .+..+.||+|+|-. . ... .....+|++++|+|+..|..       .+. .   ....+..+. ++++||+|.  ++.
T Consensus        83 ~~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~gi~~iiv~vNKmD~~~~~~  162 (446)
T PTZ00141         83 PKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTLGVKQMIVCINKMDDKTVNY  162 (446)
T ss_pred             CCeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHcCCCeEEEEEEccccccchh
Confidence            36678899999921 0 000 01235799999999988741       111 1   112245554 589999994  322


Q ss_pred             ccccHHHHHHHHHhh------CC-CCCEEEEeccCCCCHHH
Q 029893          135 IGADLAVMERDALRM------RD-GGPFIFAQVKHGLGVEE  168 (186)
Q Consensus       135 ~~~~~~~~~~~l~~~------~p-~a~i~~~Sa~~g~gi~~  168 (186)
                      .....+++.+.++..      ++ ..|++++||.+|.|+.+
T Consensus       163 ~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        163 SQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             hHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence            113344444444432      22 47899999999999964

>PRK04004 translation initiation factor IF-2; Validated

Probab=98.02  E-value=2e-05  Score=71.04  Aligned_cols=101  Identities=16%  Similarity=0.167  Sum_probs=61.1

Q ss_pred             cEEEEecCCCeeEEe---eeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccc----------
Q 029893           75 DLLLCESGGDNLAAN---FSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGA----------  137 (186)
Q Consensus        75 D~iiIEtsG~~l~~~---~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~----------  137 (186)
                      .+.|++|+|..--..   .....+|.+++|+|++++...+.    .+......+-++++||+|+.+....          
T Consensus        72 ~i~~iDTPG~e~f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~~~~~~vpiIvviNK~D~~~~~~~~~~~~~~e~~  151 (586)
T PRK04004         72 GLLFIDTPGHEAFTNLRKRGGALADIAILVVDINEGFQPQTIEAINILKRRKTPFVVAANKIDRIPGWKSTEDAPFLESI  151 (586)
T ss_pred             CEEEEECCChHHHHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHHHHHcCCCEEEEEECcCCchhhhhhcCchHHHHH
Confidence            478999999310000   11234799999999988643221    1111235678999999998632100          


Q ss_pred             -----c-HH-------HHHHHHHh-------------hCCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          138 -----D-LA-------VMERDALR-------------MRDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       138 -----~-~~-------~~~~~l~~-------------~~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                           . .+       ++...+.+             +....+++++||++|+|+++|++.+..
T Consensus       152 ~~~~~~v~~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~  215 (586)
T PRK04004        152 EKQSQRVQQELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAG  215 (586)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHH
Confidence                 0 00       11112221             123578999999999999999988754

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=98.01  E-value=1.6e-05  Score=63.21  Aligned_cols=104  Identities=12%  Similarity=0.124  Sum_probs=65.1

Q ss_pred             cCCcEEEEecCCCe-e--EEeeeeecCceEEEEEeCCCCCCCc---cCCCC-----CCCceeEEEEecCCCCCccc----
Q 029893           72 FKADLLLCESGGDN-L--AANFSRELADYIIYIIDVSGGDKIP---RKGGP-----GITQADLLVINKTDLASAIG----  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l--~~~~~~~~ad~~v~VvDa~~~~~~~---~~~~~-----~~~~adiivlNK~Dl~~~~~----  136 (186)
                      ..+.+-|.+|+|.. .  ..+..+..+|++++|+|.++.+...   ..+..     .-..+.++|.||+||.++..    
T Consensus        47 ~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illvfdis~~~Sf~~i~~~w~~~~~~~~~~~piiLVgnK~DL~~~~~~~~~  126 (222)
T cd04173          47 RRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFCPNAKVVLVGCKLDMRTDLATLRE  126 (222)
T ss_pred             EEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEECcccccchhhhhh
Confidence            45778889999931 0  1233456789999999998864321   11111     12357899999999965310    


Q ss_pred             --------ccHHHHHHHHHhhCCCCCEEEEeccCCCC-HHHHHHHHHHH
Q 029893          137 --------ADLAVMERDALRMRDGGPFIFAQVKHGLG-VEEIVNHILQA  176 (186)
Q Consensus       137 --------~~~~~~~~~l~~~~p~a~i~~~Sa~~g~g-i~~l~~~i~~~  176 (186)
                              -..++... +.+.....+++++||+++.+ ++++|+.....
T Consensus       127 ~~~~~~~pIs~e~g~~-~ak~~~~~~y~E~SAk~~~~~V~~~F~~~~~~  174 (222)
T cd04173         127 LSKQRLIPVTHEQGTV-LAKQVGAVSYVECSSRSSERSVRDVFHVATVA  174 (222)
T ss_pred             hhhccCCccCHHHHHH-HHHHcCCCEEEEcCCCcCCcCHHHHHHHHHHH
Confidence                    01112222 22223334899999999984 99999977663

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

>PRK12288 GTPase RsgA; Reviewed

Probab=97.97  E-value=2.7e-05  Score=65.98  Aligned_cols=79  Identities=19%  Similarity=0.188  Sum_probs=49.1

Q ss_pred             CceEEEEEeCCCCCCC--ccCC---CCCCCceeEEEEecCCCCCcccccHHHHHHHHHhh-CCCCCEEEEeccCCCCHHH
Q 029893           95 ADYIIYIIDVSGGDKI--PRKG---GPGITQADLLVINKTDLASAIGADLAVMERDALRM-RDGGPFIFAQVKHGLGVEE  168 (186)
Q Consensus        95 ad~~v~VvDa~~~~~~--~~~~---~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~-~p~a~i~~~Sa~~g~gi~~  168 (186)
                      +|.+++|.+.......  ...|   ......+.++|+||+||.++  .+.....+.++.. ....+++++||++|.|+++
T Consensus       121 vD~vlIV~s~~p~~s~~~Ldr~L~~a~~~~i~~VIVlNK~DL~~~--~~~~~~~~~~~~y~~~g~~v~~vSA~tg~Gide  198 (347)
T PRK12288        121 IDQIVIVSAVLPELSLNIIDRYLVACETLGIEPLIVLNKIDLLDD--EGRAFVNEQLDIYRNIGYRVLMVSSHTGEGLEE  198 (347)
T ss_pred             ccEEEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEEECccCCCc--HHHHHHHHHHHHHHhCCCeEEEEeCCCCcCHHH
Confidence            4777777775432221  1112   12234578999999999875  3222222222221 1246999999999999999


Q ss_pred             HHHHHHH
Q 029893          169 IVNHILQ  175 (186)
Q Consensus       169 l~~~i~~  175 (186)
                      |++++..
T Consensus       199 L~~~L~~  205 (347)
T PRK12288        199 LEAALTG  205 (347)
T ss_pred             HHHHHhh
Confidence            9998864

>TIGR00485 EF-Tu translation elongation factor TU

Probab=97.96  E-value=1e-05  Score=69.54  Aligned_cols=92  Identities=13%  Similarity=0.117  Sum_probs=54.1

Q ss_pred             cCCcEEEEecCCCe-eEEee--eeecCceEEEEEeCCCCCCCcc----CCCCCCCceeE-EEEecCCCCCcccccHH---
Q 029893           72 FKADLLLCESGGDN-LAANF--SRELADYIIYIIDVSGGDKIPR----KGGPGITQADL-LVINKTDLASAIGADLA---  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~~~--~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adi-ivlNK~Dl~~~~~~~~~---  140 (186)
                      .+..+.|++|+|.. ....+  ....+|.+++|+|+.++...+.    .+......+.+ +++||+|++++. ...+   
T Consensus        73 ~~~~~~liDtpGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~qt~e~l~~~~~~gi~~iIvvvNK~Dl~~~~-~~~~~~~  151 (394)
T TIGR00485        73 ENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSATDGPMPQTREHILLARQVGVPYIVVFLNKCDMVDDE-ELLELVE  151 (394)
T ss_pred             CCEEEEEEECCchHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEEecccCCHH-HHHHHHH
Confidence            35568899999931 00000  1124699999999988643221    11112344655 579999998651 1122   


Q ss_pred             -HHHHHHHhhC-C--CCCEEEEeccCCC
Q 029893          141 -VMERDALRMR-D--GGPFIFAQVKHGL  164 (186)
Q Consensus       141 -~~~~~l~~~~-p--~a~i~~~Sa~~g~  164 (186)
                       ++.+.++... +  ..|++++||++|.
T Consensus       152 ~~i~~~l~~~~~~~~~~~ii~vSa~~g~  179 (394)
T TIGR00485       152 MEVRELLSEYDFPGDDTPIIRGSALKAL  179 (394)
T ss_pred             HHHHHHHHhcCCCccCccEEECcccccc
Confidence             3334444332 2  2799999999885

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.

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=97.93  E-value=1.7e-05  Score=65.88  Aligned_cols=104  Identities=18%  Similarity=0.222  Sum_probs=65.8

Q ss_pred             EEEEecCCCe-eEEee-e-eecCceEEEEEeCCCCCCCccC--C---CCCCCc-eeEEEEecCCCCCccc--ccHHHHHH
Q 029893           76 LLLCESGGDN-LAANF-S-RELADYIIYIIDVSGGDKIPRK--G---GPGITQ-ADLLVINKTDLASAIG--ADLAVMER  144 (186)
Q Consensus        76 ~iiIEtsG~~-l~~~~-~-~~~ad~~v~VvDa~~~~~~~~~--~---~~~~~~-adiivlNK~Dl~~~~~--~~~~~~~~  144 (186)
                      +=|+++.|=- +.+++ + ...-|..++|+.+.+.-.++..  +   .+.+.. -.+|+-||+||++...  +..+++.+
T Consensus        88 VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIigik~iiIvQNKIDlV~~E~AlE~y~qIk~  167 (415)
T COG5257          88 VSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEIIGIKNIIIVQNKIDLVSRERALENYEQIKE  167 (415)
T ss_pred             EEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhhccceEEEEecccceecHHHHHHHHHHHHH
Confidence            4578888821 11222 1 1123888999999875332221  1   122332 4678899999998621  11233334


Q ss_pred             HHHh-hCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          145 DALR-MRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       145 ~l~~-~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      +++. ....+||+++||..+.|++.|+++|.++.|.
T Consensus       168 FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~Ipt  203 (415)
T COG5257         168 FVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPT  203 (415)
T ss_pred             HhcccccCCCceeeehhhhccCHHHHHHHHHHhCCC
Confidence            4432 3357899999999999999999999998764

>PRK13796 GTPase YqeH; Provisional

Probab=97.90  E-value=2.5e-05  Score=66.65  Aligned_cols=81  Identities=16%  Similarity=0.176  Sum_probs=51.5

Q ss_pred             ceEEEEEeCCCCCCCccCCCCC-C-CceeEEEEecCCCCCcccccHHHHHHHHH----hhC-CCCCEEEEeccCCCCHHH
Q 029893           96 DYIIYIIDVSGGDKIPRKGGPG-I-TQADLLVINKTDLASAIGADLAVMERDAL----RMR-DGGPFIFAQVKHGLGVEE  168 (186)
Q Consensus        96 d~~v~VvDa~~~~~~~~~~~~~-~-~~adiivlNK~Dl~~~~~~~~~~~~~~l~----~~~-p~a~i~~~Sa~~g~gi~~  168 (186)
                      .++++|+|+.+........... . ..+.++|+||+||.+.. ...+++..+++    ..+ +...++.+||++|.|+++
T Consensus        71 ~lIv~VVD~~D~~~s~~~~L~~~~~~kpviLViNK~DLl~~~-~~~~~i~~~l~~~~k~~g~~~~~v~~vSAk~g~gI~e  149 (365)
T PRK13796         71 ALVVNVVDIFDFNGSWIPGLHRFVGNNPVLLVGNKADLLPKS-VKKNKVKNWLRQEAKELGLRPVDVVLISAQKGHGIDE  149 (365)
T ss_pred             cEEEEEEECccCCCchhHHHHHHhCCCCEEEEEEchhhCCCc-cCHHHHHHHHHHHHHhcCCCcCcEEEEECCCCCCHHH
Confidence            3789999987754321110000 1 34779999999998641 22233333322    222 223799999999999999


Q ss_pred             HHHHHHHHH
Q 029893          169 IVNHILQAW  177 (186)
Q Consensus       169 l~~~i~~~~  177 (186)
                      +++.+.++.
T Consensus       150 L~~~I~~~~  158 (365)
T PRK13796        150 LLEAIEKYR  158 (365)
T ss_pred             HHHHHHHhc
Confidence            999997764

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=97.88  E-value=4e-05  Score=66.96  Aligned_cols=99  Identities=21%  Similarity=0.116  Sum_probs=62.3

Q ss_pred             cCCcEEEEecCCCeeEE-----------eeeeecCceEEEEEeCCCCCCCccCCC---CCCCceeEEEEecCCCCCcccc
Q 029893           72 FKADLLLCESGGDNLAA-----------NFSRELADYIIYIIDVSGGDKIPRKGG---PGITQADLLVINKTDLASAIGA  137 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~-----------~~~~~~ad~~v~VvDa~~~~~~~~~~~---~~~~~adiivlNK~Dl~~~~~~  137 (186)
                      .+..+.+++|+|..-..           ...+..+|++++|+|++++......+.   .....+.++|+||+|+.+.   
T Consensus       249 ~g~~v~l~DTaG~~~~~~~ie~~gi~~~~~~~~~aD~il~V~D~s~~~s~~~~~l~~~~~~~~piIlV~NK~Dl~~~---  325 (442)
T TIGR00450       249 NGILIKLLDTAGIREHADFVERLGIEKSFKAIKQADLVIYVLDASQPLTKDDFLIIDLNKSKKPFILVLNKIDLKIN---  325 (442)
T ss_pred             CCEEEEEeeCCCcccchhHHHHHHHHHHHHHHhhCCEEEEEEECCCCCChhHHHHHHHhhCCCCEEEEEECccCCCc---
Confidence            35567899999942100           012245799999999987653221111   1124578999999999644   


Q ss_pred             cHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          138 DLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       138 ~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      +.+.+   .+..  ..+++.+||++ .|++++++.+.+.+..
T Consensus       326 ~~~~~---~~~~--~~~~~~vSak~-~gI~~~~~~L~~~i~~  361 (442)
T TIGR00450       326 SLEFF---VSSK--VLNSSNLSAKQ-LKIKALVDLLTQKINA  361 (442)
T ss_pred             chhhh---hhhc--CCceEEEEEec-CCHHHHHHHHHHHHHH
Confidence            22211   1222  34789999998 5888888877776654

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.

>PLN00043 elongation factor 1-alpha; Provisional

Probab=97.87  E-value=5.6e-05  Score=66.13  Aligned_cols=96  Identities=18%  Similarity=0.128  Sum_probs=55.5

Q ss_pred             CCcEEEEecCCCe--eEE-eeeeecCceEEEEEeCCCCC-CCccC-------C---CCCCCce-eEEEEecCCCCCcc--
Q 029893           73 KADLLLCESGGDN--LAA-NFSRELADYIIYIIDVSGGD-KIPRK-------G---GPGITQA-DLLVINKTDLASAI--  135 (186)
Q Consensus        73 ~~D~iiIEtsG~~--l~~-~~~~~~ad~~v~VvDa~~~~-~~~~~-------~---~~~~~~a-diivlNK~Dl~~~~--  135 (186)
                      +.-+-||+|+|-.  +.. ......+|..++|+|+..+. +....       +   ...+..+ -++++||+|+.+..  
T Consensus        84 ~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G~~e~g~~~~~qT~eh~~~~~~~gi~~iIV~vNKmD~~~~~~~  163 (447)
T PLN00043         84 KYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTGGFEAGISKDGQTREHALLAFTLGVKQMICCCNKMDATTPKYS  163 (447)
T ss_pred             CEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccCceecccCCCchHHHHHHHHHHcCCCcEEEEEEcccCCchhhh
Confidence            5567889999920  000 01123579999999998752 11111       1   1123444 47789999987321  


Q ss_pred             cccH----HHHHHHHHhhC---CCCCEEEEeccCCCCHHH
Q 029893          136 GADL----AVMERDALRMR---DGGPFIFAQVKHGLGVEE  168 (186)
Q Consensus       136 ~~~~----~~~~~~l~~~~---p~a~i~~~Sa~~g~gi~~  168 (186)
                      ....    +++...+++..   ...+++++||++|+|+.+
T Consensus       164 ~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        164 KARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence            0222    33333444332   146899999999999853

>cd04168 TetM_like Tet(M)-like subfamily

Probab=97.87  E-value=3.5e-05  Score=61.87  Aligned_cols=62  Identities=19%  Similarity=0.168  Sum_probs=40.1

Q ss_pred             cCCcEEEEecCCCee-EE--eeeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCC
Q 029893           72 FKADLLLCESGGDNL-AA--NFSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLAS  133 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~~--~~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~  133 (186)
                      .+..+.|++|+|..- ..  ...+..+|.+++|+|+..+.....    ........+-++++||+|+..
T Consensus        62 ~~~~i~liDTPG~~~f~~~~~~~l~~aD~~IlVvd~~~g~~~~~~~~~~~~~~~~~P~iivvNK~D~~~  130 (237)
T cd04168          62 EDTKVNLIDTPGHMDFIAEVERSLSVLDGAILVISAVEGVQAQTRILWRLLRKLNIPTIIFVNKIDRAG  130 (237)
T ss_pred             CCEEEEEEeCCCccchHHHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECccccC
Confidence            467899999999310 00  012235799999999988754211    111123567899999999875

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.

>PRK14974 cell division protein FtsY; Provisional

Probab=97.84  E-value=5.8e-05  Score=63.65  Aligned_cols=150  Identities=20%  Similarity=0.330  Sum_probs=82.7

Q ss_pred             HHHHHHHhcC-CcEEEEEcccC-C-chhHH--HHHhcCCCCcCceEeccCCCcccCCcccccccCcchhHhhhhhcCCcE
Q 029893            2 LALCKFLRDK-YSLAAVTNDIF-T-KEDGE--FLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADL   76 (186)
Q Consensus         2 ~~~~~~l~~~-~~vaVi~nd~g-~-~iD~~--~i~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~~~l~~l~~~~~~D~   76 (186)
                      .+++..+.+. ++++++..|.. . .++.-  +....|+    .+.....|..+.       ....+++... ...++|+
T Consensus       158 akLA~~l~~~g~~V~li~~Dt~R~~a~eqL~~~a~~lgv----~v~~~~~g~dp~-------~v~~~ai~~~-~~~~~Dv  225 (336)
T PRK14974        158 AKLAYYLKKNGFSVVIAAGDTFRAGAIEQLEEHAERLGV----KVIKHKYGADPA-------AVAYDAIEHA-KARGIDV  225 (336)
T ss_pred             HHHHHHHHHcCCeEEEecCCcCcHHHHHHHHHHHHHcCC----ceecccCCCCHH-------HHHHHHHHHH-HhCCCCE
Confidence            3566666654 78999888854 2 22211  1222333    344433444321       1111444333 3468999


Q ss_pred             EEEecCCCeeE-Eee--------eeecCceEEEEEeCCCCCCCccC--CCCCCCceeEEEEecCCCCCcccccHHHHHHH
Q 029893           77 LLCESGGDNLA-ANF--------SRELADYIIYIIDVSGGDKIPRK--GGPGITQADLLVINKTDLASAIGADLAVMERD  145 (186)
Q Consensus        77 iiIEtsG~~l~-~~~--------~~~~ad~~v~VvDa~~~~~~~~~--~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~  145 (186)
                      |||+|+|..-. ...        .....|.+++|+|+..+.+....  .....-..+-+++||.|........    ...
T Consensus       226 VLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~~~~a~~f~~~~~~~giIlTKlD~~~~~G~~----ls~  301 (336)
T PRK14974        226 VLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDAVEQAREFNEAVGIDGVILTKVDADAKGGAA----LSI  301 (336)
T ss_pred             EEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhHHHHHHHHHhcCCCCEEEEeeecCCCCccHH----HHH
Confidence            99999993210 000        00123678899999877543211  1111223699999999987553222    222


Q ss_pred             HHhhCCCCCEEEEeccCCCCHHHHHH
Q 029893          146 ALRMRDGGPFIFAQVKHGLGVEEIVN  171 (186)
Q Consensus       146 l~~~~p~a~i~~~Sa~~g~gi~~l~~  171 (186)
                      ....  ..||.+++  +|+++++|..
T Consensus       302 ~~~~--~~Pi~~i~--~Gq~v~Dl~~  323 (336)
T PRK14974        302 AYVI--GKPILFLG--VGQGYDDLIP  323 (336)
T ss_pred             HHHH--CcCEEEEe--CCCChhhccc
Confidence            2222  46999998  8999988864

>PRK12740 elongation factor G; Reviewed

Probab=97.84  E-value=2.3e-05  Score=71.71  Aligned_cols=64  Identities=16%  Similarity=0.193  Sum_probs=41.5

Q ss_pred             hcCCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCc
Q 029893           71 LFKADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~  134 (186)
                      ..++++.||+|.|.. ...  ......+|.+++|+|++.+......    .......+.++|+||+|+...
T Consensus        57 ~~~~~i~liDtPG~~~~~~~~~~~l~~aD~vllvvd~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~D~~~~  127 (668)
T PRK12740         57 WKGHKINLIDTPGHVDFTGEVERALRVLDGAVVVVCAVGGVEPQTETVWRQAEKYGVPRIIFVNKMDRAGA  127 (668)
T ss_pred             ECCEEEEEEECCCcHHHHHHHHHHHHHhCeEEEEEeCCCCcCHHHHHHHHHHHHcCCCEEEEEECCCCCCC
Confidence            357899999999931 000  0112357999999999886542211    112235688999999998754

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=97.81  E-value=7.7e-05  Score=64.73  Aligned_cols=108  Identities=19%  Similarity=0.269  Sum_probs=72.3

Q ss_pred             cCCcEEEEecCCCeeEEeee------eecCceEEEEEeCCCCCCCccCCCC----CCCceeEEEEecCCCCCccccc-HH
Q 029893           72 FKADLLLCESGGDNLAANFS------RELADYIIYIIDVSGGDKIPRKGGP----GITQADLLVINKTDLASAIGAD-LA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~~~------~~~ad~~v~VvDa~~~~~~~~~~~~----~~~~adiivlNK~Dl~~~~~~~-~~  140 (186)
                      .+.-.=||+|.|  - +.|.      ....|.++++|||.+|...+.++.-    ......|+|+||+|..+++.++ .+
T Consensus        66 ~~~~INIvDTPG--H-ADFGGEVERvl~MVDgvlLlVDA~EGpMPQTrFVlkKAl~~gL~PIVVvNKiDrp~Arp~~Vvd  142 (603)
T COG1217          66 NGTRINIVDTPG--H-ADFGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALALGLKPIVVINKIDRPDARPDEVVD  142 (603)
T ss_pred             CCeEEEEecCCC--c-CCccchhhhhhhhcceEEEEEEcccCCCCchhhhHHHHHHcCCCcEEEEeCCCCCCCCHHHHHH
Confidence            356667889999  2 2221      1246999999999999877665532    2345689999999998764322 23


Q ss_pred             HHHHHHHhhC-----CCCCEEEEeccCCC----------CHHHHHHHHHHHHHHhhc
Q 029893          141 VMERDALRMR-----DGGPFIFAQVKHGL----------GVEEIVNHILQAWEASTG  182 (186)
Q Consensus       141 ~~~~~l~~~~-----p~a~i~~~Sa~~g~----------gi~~l~~~i~~~~~~~~~  182 (186)
                      ++....-.+.     -.-|+++.||+.|.          .+..||+.|.++.|.-++
T Consensus       143 ~vfDLf~~L~A~deQLdFPivYAS~~~G~a~~~~~~~~~~m~pLfe~I~~hvp~P~~  199 (603)
T COG1217         143 EVFDLFVELGATDEQLDFPIVYASARNGTASLDPEDEADDMAPLFETILDHVPAPKG  199 (603)
T ss_pred             HHHHHHHHhCCChhhCCCcEEEeeccCceeccCccccccchhHHHHHHHHhCCCCCC
Confidence            3333333322     13599999998763          578899999999886543

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

Probab=97.80  E-value=0.00017  Score=55.44  Aligned_cols=101  Identities=16%  Similarity=0.156  Sum_probs=66.7

Q ss_pred             CcEEEEecCCC----eeEEeeeeecCceEEEEEeCCCCCCCc------cCC-----CCC-CCceeEEEEecCCCCCc--c
Q 029893           74 ADLLLCESGGD----NLAANFSRELADYIIYIIDVSGGDKIP------RKG-----GPG-ITQADLLVINKTDLASA--I  135 (186)
Q Consensus        74 ~D~iiIEtsG~----~l~~~~~~~~ad~~v~VvDa~~~~~~~------~~~-----~~~-~~~adiivlNK~Dl~~~--~  135 (186)
                      .-.-|=+|.|-    ++- ...++.+|..+++.|........      .++     +.. -.+|-+|+.||+|+-+.  .
T Consensus        58 vtlQiWDTAGQERFqsLg-~aFYRgaDcCvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r  136 (210)
T KOG0394|consen   58 VTLQIWDTAGQERFQSLG-VAFYRGADCCVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSR  136 (210)
T ss_pred             EEEEEEecccHHHhhhcc-cceecCCceEEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccc
Confidence            44455678882    111 12357899999999987653211      111     111 34588999999999653  1


Q ss_pred             cccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          136 GADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       136 ~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      ....++..++.++ +...|+|+||||.+.|+++.|+.+.+.
T Consensus       137 ~VS~~~Aq~WC~s-~gnipyfEtSAK~~~NV~~AFe~ia~~  176 (210)
T KOG0394|consen  137 QVSEKKAQTWCKS-KGNIPYFETSAKEATNVDEAFEEIARR  176 (210)
T ss_pred             eeeHHHHHHHHHh-cCCceeEEecccccccHHHHHHHHHHH
Confidence            1233455555555 457899999999999999999988754

>COG0218 Predicted GTPase [General function prediction only]

Probab=97.79  E-value=9.2e-05  Score=57.65  Aligned_cols=82  Identities=12%  Similarity=0.114  Sum_probs=57.7

Q ss_pred             ceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHh-h---CCCCC-EEEEeccCCCCH
Q 029893           96 DYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGADLAVMERDALR-M---RDGGP-FIFAQVKHGLGV  166 (186)
Q Consensus        96 d~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~-~---~p~a~-i~~~Sa~~g~gi  166 (186)
                      ..++.++|+.++....+    .+..+...+.++|+||+|.++.  .+..+....+++ +   .++.+ ++.+|+.++.|+
T Consensus       108 ~~vvlliD~r~~~~~~D~em~~~l~~~~i~~~vv~tK~DKi~~--~~~~k~l~~v~~~l~~~~~~~~~~~~~ss~~k~Gi  185 (200)
T COG0218         108 KGVVLLIDARHPPKDLDREMIEFLLELGIPVIVVLTKADKLKK--SERNKQLNKVAEELKKPPPDDQWVVLFSSLKKKGI  185 (200)
T ss_pred             eEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEccccCCh--hHHHHHHHHHHHHhcCCCCccceEEEEecccccCH
Confidence            35689999999765422    2344566789999999999986  444433344442 2   22222 889999999999


Q ss_pred             HHHHHHHHHHHHH
Q 029893          167 EEIVNHILQAWEA  179 (186)
Q Consensus       167 ~~l~~~i~~~~~~  179 (186)
                      +++...|.+.+..
T Consensus       186 ~~l~~~i~~~~~~  198 (200)
T COG0218         186 DELKAKILEWLKE  198 (200)
T ss_pred             HHHHHHHHHHhhc
Confidence            9999999887654

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=97.77  E-value=3.4e-05  Score=59.00  Aligned_cols=53  Identities=21%  Similarity=0.189  Sum_probs=34.7

Q ss_pred             ceEEEEEeCCCCCCCcc----CC--CCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhC
Q 029893           96 DYIIYIIDVSGGDKIPR----KG--GPGITQADLLVINKTDLASAIGADLAVMERDALRMR  150 (186)
Q Consensus        96 d~~v~VvDa~~~~~~~~----~~--~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~  150 (186)
                      |++++|+|+..+.....    .+  ......+.++|+||+|++++  ..+....+.+++..
T Consensus         1 DvVl~VvDar~p~~~~~~~i~~~~~l~~~~kp~IlVlNK~DL~~~--~~l~~~~~~~~~~~   59 (172)
T cd04178           1 DVILEVLDARDPLGCRCPQVEEAVLQAGGNKKLVLVLNKIDLVPK--ENVEKWLKYLRREF   59 (172)
T ss_pred             CEEEEEEECCCCCCCCCHHHHHHHHhccCCCCEEEEEehhhcCCH--HHHHHHHHHHHhhC
Confidence            68999999977533211    11  11234689999999999976  55655555655543

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

>COG2403 Predicted GTPase [General function prediction only]

Probab=97.77  E-value=9.3e-05  Score=62.52  Aligned_cols=80  Identities=24%  Similarity=0.266  Sum_probs=62.7

Q ss_pred             CCcEEEEecCCCeeEEeeeeecCceEEEEEeCCCCCCCccCCCC--CCCceeEEEEecCCCCCcccccHHHHHHHHHhhC
Q 029893           73 KADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGP--GITQADLLVINKTDLASAIGADLAVMERDALRMR  150 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~~~~~~ad~~v~VvDa~~~~~~~~~~~~--~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~  150 (186)
                      --|+|+.|-+|  -+-|+  -..|.-|+|+|+.++-.....|+.  .++.||++++||+|-+..  ....++.+.++++|
T Consensus       224 ~aD~IlwdGgn--ndfPf--vkpd~~Ivvvda~rpg~ei~~~pGe~~irlAD~VIItkveea~~--~kvrkI~~~I~~iN  297 (449)
T COG2403         224 EADFILWDGGN--NDFPF--VKPDLHIVVVDALRPGEEIGSFPGELRIRLADLVIITKVEEAMA--EKVRKIVRNIEEIN  297 (449)
T ss_pred             hccEEEEeCCC--CCCCc--ccCCeeEEEecCCCCchhhccCCCceeeeeccEEEEecccccch--HHHHHHHHHHHhhC
Confidence            34999999999  22233  245888999999885544445544  367799999999999888  68888999999999


Q ss_pred             CCCCEEEE
Q 029893          151 DGGPFIFA  158 (186)
Q Consensus       151 p~a~i~~~  158 (186)
                      |.|.|+.+
T Consensus       298 P~A~Vi~~  305 (449)
T COG2403         298 PKAEVILA  305 (449)
T ss_pred             CCcEEEec
Confidence            99988766

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=97.75  E-value=1.8e-05  Score=71.12  Aligned_cols=106  Identities=19%  Similarity=0.242  Sum_probs=70.1

Q ss_pred             hcCCcEEEEecCCCe-eEEeee----------e-ecCceEEEEEeCCCCCCCccC--CCCCCCceeEEEEecCCCCCccc
Q 029893           71 LFKADLLLCESGGDN-LAANFS----------R-ELADYIIYIIDVSGGDKIPRK--GGPGITQADLLVINKTDLASAIG  136 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~-l~~~~~----------~-~~ad~~v~VvDa~~~~~~~~~--~~~~~~~adiivlNK~Dl~~~~~  136 (186)
                      ..+-++-+|+.+|.- + .+++          . +..|++|.|+|+++-+....-  ...+++.+.++++|++|.+....
T Consensus        47 ~~~~~i~ivDLPG~YSL-~~~S~DE~Var~~ll~~~~D~ivnVvDAtnLeRnLyltlQLlE~g~p~ilaLNm~D~A~~~G  125 (653)
T COG0370          47 YKGHEIEIVDLPGTYSL-TAYSEDEKVARDFLLEGKPDLIVNVVDATNLERNLYLTLQLLELGIPMILALNMIDEAKKRG  125 (653)
T ss_pred             ecCceEEEEeCCCcCCC-CCCCchHHHHHHHHhcCCCCEEEEEcccchHHHHHHHHHHHHHcCCCeEEEeccHhhHHhcC
Confidence            346778999999941 1 1111          1 135999999999986532110  11236778999999999986632


Q ss_pred             ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          137 ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       137 ~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      -.++  .+.+.+.. +.|++++||++|+|++++++.+.+..+..
T Consensus       126 i~ID--~~~L~~~L-GvPVv~tvA~~g~G~~~l~~~i~~~~~~~  166 (653)
T COG0370         126 IRID--IEKLSKLL-GVPVVPTVAKRGEGLEELKRAIIELAESK  166 (653)
T ss_pred             Cccc--HHHHHHHh-CCCEEEEEeecCCCHHHHHHHHHHhcccc
Confidence            1221  22333322 57999999999999999999887655443

>PRK12739 elongation factor G; Reviewed

Probab=97.74  E-value=3.3e-05  Score=70.99  Aligned_cols=63  Identities=14%  Similarity=0.120  Sum_probs=41.1

Q ss_pred             cCCcEEEEecCCCe--eEEe-eeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCc
Q 029893           72 FKADLLLCESGGDN--LAAN-FSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~--l~~~-~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~  134 (186)
                      .+..+.||+|+|..  .... .....+|.+++|+|+..+...+..    +......+.++++||+|+.+.
T Consensus        71 ~~~~i~liDTPG~~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~~i~~~~~~~~~p~iv~iNK~D~~~~  140 (691)
T PRK12739         71 KGHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVSGVEPQSETVWRQADKYGVPRIVFVNKMDRIGA  140 (691)
T ss_pred             CCEEEEEEcCCCHHHHHHHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECCCCCCC
Confidence            47789999999931  0000 012346999999999887543211    112234578999999999854

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=97.74  E-value=7.1e-05  Score=62.87  Aligned_cols=113  Identities=17%  Similarity=0.265  Sum_probs=72.7

Q ss_pred             hhhhhcCCcEEEEecCCC-eeEEee--eeecCceEEEEEeCCCCCCCccCC----CCCCCceeEEEEecCCCCCccc--c
Q 029893           67 ELSNLFKADLLLCESGGD-NLAANF--SRELADYIIYIIDVSGGDKIPRKG----GPGITQADLLVINKTDLASAIG--A  137 (186)
Q Consensus        67 ~l~~~~~~D~iiIEtsG~-~l~~~~--~~~~ad~~v~VvDa~~~~~~~~~~----~~~~~~adiivlNK~Dl~~~~~--~  137 (186)
                      .|.+..+..+-+|++.|- .+..+.  ....-|+.++|+|+..|.+.+...    .+.+...-++|+||+|+.++..  .
T Consensus        63 rLpq~e~lq~tlvDCPGHasLIRtiiggaqiiDlm~lviDv~kG~QtQtAEcLiig~~~c~klvvvinkid~lpE~qr~s  142 (522)
T KOG0461|consen   63 RLPQGEQLQFTLVDCPGHASLIRTIIGGAQIIDLMILVIDVQKGKQTQTAECLIIGELLCKKLVVVINKIDVLPENQRAS  142 (522)
T ss_pred             ccCccccceeEEEeCCCcHHHHHHHHhhhheeeeeeEEEehhcccccccchhhhhhhhhccceEEEEeccccccchhhhh
Confidence            455556789999999992 111111  001238889999999886654321    2223445789999999887621  2


Q ss_pred             cHHHHHHHHHhh------CCCCCEEEEeccCC----CCHHHHHHHHHHHHHH
Q 029893          138 DLAVMERDALRM------RDGGPFIFAQVKHG----LGVEEIVNHILQAWEA  179 (186)
Q Consensus       138 ~~~~~~~~l~~~------~p~a~i~~~Sa~~g----~gi~~l~~~i~~~~~~  179 (186)
                      .++.....+++-      ...+||+++||+.|    +++.+|.+.+...+.+
T Consensus       143 ki~k~~kk~~KtLe~t~f~g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~if~  194 (522)
T KOG0461|consen  143 KIEKSAKKVRKTLESTGFDGNSPIVEVSAADGYFKEEMIQELKEALESRIFE  194 (522)
T ss_pred             HHHHHHHHHHHHHHhcCcCCCCceeEEecCCCccchhHHHHHHHHHHHhhcC
Confidence            333333344321      24589999999999    8899998888765543

>PRK00007 elongation factor G; Reviewed

Probab=97.72  E-value=5.3e-05  Score=69.71  Aligned_cols=61  Identities=18%  Similarity=0.263  Sum_probs=41.5

Q ss_pred             hcCCcEEEEecCCCeeEEee------eeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCc
Q 029893           71 LFKADLLLCESGGDNLAANF------SRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l~~~~------~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~  134 (186)
                      ..+..+.||+|.|.  . .|      ....+|++++|+|+..+...+..    +......+.++++||+|+.+.
T Consensus        72 ~~~~~~~liDTPG~--~-~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~~~~~~~~~~~p~iv~vNK~D~~~~  142 (693)
T PRK00007         72 WKDHRINIIDTPGH--V-DFTIEVERSLRVLDGAVAVFDAVGGVEPQSETVWRQADKYKVPRIAFVNKMDRTGA  142 (693)
T ss_pred             ECCeEEEEEeCCCc--H-HHHHHHHHHHHHcCEEEEEEECCCCcchhhHHHHHHHHHcCCCEEEEEECCCCCCC
Confidence            34778999999992  1 11      12346999999999887543321    122345678999999999753

>cd01882 BMS1 Bms1

Probab=97.72  E-value=2.9e-05  Score=61.78  Aligned_cols=90  Identities=18%  Similarity=0.146  Sum_probs=54.3

Q ss_pred             CCcEEEEecCCCeeEEee-eeecCceEEEEEeCCCCCCCccC----CCCCCCceeEE-EEecCCCCCcccccHHHHHHHH
Q 029893           73 KADLLLCESGGDNLAANF-SRELADYIIYIIDVSGGDKIPRK----GGPGITQADLL-VINKTDLASAIGADLAVMERDA  146 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~~-~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adii-vlNK~Dl~~~~~~~~~~~~~~l  146 (186)
                      +..+.|+||.|. +.... ....+|++++|+|+..+......    .......+.++ |+||+|+.++. ...+...+.+
T Consensus        82 ~~~i~~vDtPg~-~~~~l~~ak~aDvVllviDa~~~~~~~~~~i~~~l~~~g~p~vi~VvnK~D~~~~~-~~~~~~~~~l  159 (225)
T cd01882          82 KRRLTFIECPND-INAMIDIAKVADLVLLLIDASFGFEMETFEFLNILQVHGFPRVMGVLTHLDLFKKN-KTLRKTKKRL  159 (225)
T ss_pred             CceEEEEeCCch-HHHHHHHHHhcCEEEEEEecCcCCCHHHHHHHHHHHHcCCCeEEEEEeccccCCcH-HHHHHHHHHH
Confidence            456788888882 10000 11347999999999876542211    11112345454 99999998542 2233444333


Q ss_pred             H-----hhCCCCCEEEEeccCCC
Q 029893          147 L-----RMRDGGPFIFAQVKHGL  164 (186)
Q Consensus       147 ~-----~~~p~a~i~~~Sa~~g~  164 (186)
                      +     +..++++++++||++.-
T Consensus       160 ~~~~~~~~~~~~ki~~iSa~~~~  182 (225)
T cd01882         160 KHRFWTEVYQGAKLFYLSGIVHG  182 (225)
T ss_pred             HHHHHHhhCCCCcEEEEeeccCC
Confidence            3     35688999999999873

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=97.71  E-value=0.00012  Score=52.88  Aligned_cols=53  Identities=21%  Similarity=0.209  Sum_probs=40.0

Q ss_pred             CceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHH
Q 029893          119 TQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHIL  174 (186)
Q Consensus       119 ~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~  174 (186)
                      ..+.++++||+|+...  ....+....+... +..+++++||++|.|++++++++.
T Consensus       108 ~~p~ivv~nK~D~~~~--~~~~~~~~~~~~~-~~~~~~~~sa~~~~gv~~~~~~l~  160 (161)
T TIGR00231       108 NVPIILVGNKIDLRDA--KLKTHVAFLFAKL-NGEPIIPLSAETGKNIDSAFKIVE  160 (161)
T ss_pred             CCcEEEEEEcccCCcc--hhhHHHHHHHhhc-cCCceEEeecCCCCCHHHHHHHhh
Confidence            5689999999999875  3333344344433 456799999999999999999874

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.

>PLN03126 Elongation factor Tu; Provisional

Probab=97.68  E-value=4.6e-05  Score=67.14  Aligned_cols=92  Identities=13%  Similarity=0.085  Sum_probs=55.0

Q ss_pred             cCCcEEEEecCCCe--eEEee-eeecCceEEEEEeCCCCCCCcc-CC---CCCCCce-eEEEEecCCCCCcccccHH---
Q 029893           72 FKADLLLCESGGDN--LAANF-SRELADYIIYIIDVSGGDKIPR-KG---GPGITQA-DLLVINKTDLASAIGADLA---  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~--l~~~~-~~~~ad~~v~VvDa~~~~~~~~-~~---~~~~~~a-diivlNK~Dl~~~~~~~~~---  140 (186)
                      .+..+.||+|+|-.  +.... ....+|++++|+|+..+...+. .+   ......+ .++++||+|+.+.. ...+   
T Consensus       142 ~~~~i~liDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~~qt~e~~~~~~~~gi~~iIvvvNK~Dl~~~~-~~~~~i~  220 (478)
T PLN03126        142 ENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSGADGPMPQTKEHILLAKQVGVPNMVVFLNKQDQVDDE-ELLELVE  220 (478)
T ss_pred             CCcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEecccccCHH-HHHHHHH
Confidence            35678999999921  00011 1124799999999998754321 11   1123456 46789999998741 1122   


Q ss_pred             -HHHHHHHhh--C-CCCCEEEEeccCCC
Q 029893          141 -VMERDALRM--R-DGGPFIFAQVKHGL  164 (186)
Q Consensus       141 -~~~~~l~~~--~-p~a~i~~~Sa~~g~  164 (186)
                       ++...++..  . ...|++++||.+|.
T Consensus       221 ~~i~~~l~~~g~~~~~~~~vp~Sa~~g~  248 (478)
T PLN03126        221 LEVRELLSSYEFPGDDIPIISGSALLAL  248 (478)
T ss_pred             HHHHHHHHhcCCCcCcceEEEEEccccc
Confidence             333334432  1 25799999999884

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

Probab=97.68  E-value=8.8e-05  Score=55.11  Aligned_cols=108  Identities=14%  Similarity=0.094  Sum_probs=72.7

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc--cCCC------CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP--RKGG------PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~--~~~~------~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ..++=+-+|.|-..   ..+..++.++..+++.|.++.+...  ..|.      .....+.++|.||+|+-+++.-..++
T Consensus        69 RiklQiwDTagqEryrtiTTayyRgamgfiLmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDmd~eRvis~e~  148 (193)
T KOG0093|consen   69 RIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDMDSERVISHER  148 (193)
T ss_pred             EEEEEEEecccchhhhHHHHHHhhccceEEEEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCCccceeeeHHH
Confidence            46677777777211   1233456788999999998854321  1121      22345789999999998875433455


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      .+....++.  -..|++|||.+.+++.+++.+......+++
T Consensus       149 g~~l~~~LG--fefFEtSaK~NinVk~~Fe~lv~~Ic~kms  187 (193)
T KOG0093|consen  149 GRQLADQLG--FEFFETSAKENINVKQVFERLVDIICDKMS  187 (193)
T ss_pred             HHHHHHHhC--hHHhhhcccccccHHHHHHHHHHHHHHHhh
Confidence            555555542  488999999999999999988776655544

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=97.67  E-value=4.6e-05  Score=59.23  Aligned_cols=108  Identities=13%  Similarity=0.076  Sum_probs=65.2

Q ss_pred             CCcEEEEecCCCeeE----Ee----eeeecCceEEEEEeCCCCCCCccC---CCCCCCceeEEEEecCCCCCccc-----
Q 029893           73 KADLLLCESGGDNLA----AN----FSRELADYIIYIIDVSGGDKIPRK---GGPGITQADLLVINKTDLASAIG-----  136 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~----~~----~~~~~ad~~v~VvDa~~~~~~~~~---~~~~~~~adiivlNK~Dl~~~~~-----  136 (186)
                      .+++.+++|.|..-.    ..    ..+..+|+++++.|.. .......   .......+.++|+||+|+..+..     
T Consensus        51 ~~~l~l~DtpG~~~~~~~~~~~l~~~~~~~~d~~l~v~~~~-~~~~d~~~~~~l~~~~~~~ilV~nK~D~~~~~~~~~~~  129 (197)
T cd04104          51 FPNVTLWDLPGIGSTAFPPDDYLEEMKFSEYDFFIIISSTR-FSSNDVKLAKAIQCMGKKFYFVRTKVDRDLSNEQRSKP  129 (197)
T ss_pred             CCCceEEeCCCCCcccCCHHHHHHHhCccCcCEEEEEeCCC-CCHHHHHHHHHHHHhCCCEEEEEecccchhhhhhcccc
Confidence            468899999994210    01    1123457777765432 1111111   11123457799999999964311     


Q ss_pred             ------ccHHHHHHHHHhhC-----CCCCEEEEecc--CCCCHHHHHHHHHHHHHHhh
Q 029893          137 ------ADLAVMERDALRMR-----DGGPFIFAQVK--HGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       137 ------~~~~~~~~~l~~~~-----p~a~i~~~Sa~--~g~gi~~l~~~i~~~~~~~~  181 (186)
                            ..++++++.+.+..     +..+||.+|+.  .+.|+..|.+.+...+|..+
T Consensus       130 ~~~~~~~~l~~i~~~~~~~~~~~~~~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~~~  187 (197)
T cd04104         130 RSFNREQVLQEIRDNCLENLQEAGVSEPPVFLVSNFDPSDYDFPKLRETLLKDLPAHK  187 (197)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEEeCCChhhcChHHHHHHHHHHhhHHH
Confidence                  11233333443322     35699999998  68999999999999998765

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

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=97.65  E-value=3.4e-05  Score=64.83  Aligned_cols=93  Identities=19%  Similarity=0.220  Sum_probs=58.6

Q ss_pred             CCcEEEEecCCC-----eeEEeeeeecCceEEEEEeCCCCCCCccC---C-CCCCCc-eeEEEEecCCCCCcccccHHHH
Q 029893           73 KADLLLCESGGD-----NLAANFSRELADYIIYIIDVSGGDKIPRK---G-GPGITQ-ADLLVINKTDLASAIGADLAVM  142 (186)
Q Consensus        73 ~~D~iiIEtsG~-----~l~~~~~~~~ad~~v~VvDa~~~~~~~~~---~-~~~~~~-adiivlNK~Dl~~~~~~~~~~~  142 (186)
                      +-++|+.+|+|=     |++.-.  .-+|+.|+++|+..|...+..   + ...+.. -.++.+||+||++...+..+++
T Consensus        85 KRkFIiADTPGHeQYTRNMaTGA--STadlAIlLVDAR~Gvl~QTrRHs~I~sLLGIrhvvvAVNKmDLvdy~e~~F~~I  162 (431)
T COG2895          85 KRKFIIADTPGHEQYTRNMATGA--STADLAILLVDARKGVLEQTRRHSFIASLLGIRHVVVAVNKMDLVDYSEEVFEAI  162 (431)
T ss_pred             cceEEEecCCcHHHHhhhhhccc--ccccEEEEEEecchhhHHHhHHHHHHHHHhCCcEEEEEEeeecccccCHHHHHHH
Confidence            568999999992     111111  236899999999887533211   1 112322 4678899999998743444444


Q ss_pred             HHHH----HhhC-CCCCEEEEeccCCCCHH
Q 029893          143 ERDA----LRMR-DGGPFIFAQVKHGLGVE  167 (186)
Q Consensus       143 ~~~l----~~~~-p~a~i~~~Sa~~g~gi~  167 (186)
                      ....    +++. .....+|+||+.|.|+-
T Consensus       163 ~~dy~~fa~~L~~~~~~~IPiSAl~GDNV~  192 (431)
T COG2895         163 VADYLAFAAQLGLKDVRFIPISALLGDNVV  192 (431)
T ss_pred             HHHHHHHHHHcCCCcceEEechhccCCccc
Confidence            4333    2222 34588999999999984

>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.62  E-value=3.1e-05  Score=58.91  Aligned_cols=86  Identities=24%  Similarity=0.301  Sum_probs=61.6

Q ss_pred             ecCceEEEEEeCCCCCCCccC---------CCCCCCceeEEEEecCCCCCcccccHHHHHHHHH--hhC--CCCCEEEEe
Q 029893           93 ELADYIIYIIDVSGGDKIPRK---------GGPGITQADLLVINKTDLASAIGADLAVMERDAL--RMR--DGGPFIFAQ  159 (186)
Q Consensus        93 ~~ad~~v~VvDa~~~~~~~~~---------~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~--~~~--p~a~i~~~S  159 (186)
                      ..+|.+++++|+++.+..+..         ...+-..|.+++.||-|+-+.  .+.+++...+.  +..  |..++.++|
T Consensus        91 ~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~--~~~~El~~~~~~~e~~~~rd~~~~pvS  168 (197)
T KOG0076|consen   91 WLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNA--MEAAELDGVFGLAELIPRRDNPFQPVS  168 (197)
T ss_pred             HHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhh--hhHHHHHHHhhhhhhcCCccCccccch
Confidence            357999999999986543221         112234578999999999776  34444443333  333  456999999


Q ss_pred             ccCCCCHHHHHHHHHHHHHHh
Q 029893          160 VKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       160 a~~g~gi~~l~~~i~~~~~~~  180 (186)
                      |.+|+|+++-++|+.+.++..
T Consensus       169 al~gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  169 ALTGEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             hhhcccHHHHHHHHHHHHhhc
Confidence            999999999999999888765

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

Probab=97.62  E-value=4.4e-05  Score=62.49  Aligned_cols=89  Identities=11%  Similarity=0.072  Sum_probs=54.6

Q ss_pred             hcCCcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccccHHHHH
Q 029893           71 LFKADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGADLAVME  143 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~  143 (186)
                      ..+..+.||+|+|.. ....  .....+|.+++|+|+..+.....    ........+.++++||+|+.+.   ..+...
T Consensus        61 ~~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVVDa~~g~~~~t~~~~~~~~~~~~p~ivviNK~D~~~a---~~~~~~  137 (270)
T cd01886          61 WKDHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVAGVEPQTETVWRQADRYNVPRIAFVNKMDRTGA---DFFRVV  137 (270)
T ss_pred             ECCEEEEEEECCCcHHHHHHHHHHHHHcCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECCCCCCC---CHHHHH
Confidence            347789999999931 0000  12235799999999988754321    1122345688999999999754   233333


Q ss_pred             HHHHh---hCCCCCEEEEeccC
Q 029893          144 RDALR---MRDGGPFIFAQVKH  162 (186)
Q Consensus       144 ~~l~~---~~p~a~i~~~Sa~~  162 (186)
                      +.+++   ..+...++++|+..
T Consensus       138 ~~l~~~l~~~~~~~~~Pisa~~  159 (270)
T cd01886         138 EQIREKLGANPVPLQLPIGEED  159 (270)
T ss_pred             HHHHHHhCCCceEEEeccccCC
Confidence            33333   23556778888863

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

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.61  E-value=0.00029  Score=57.80  Aligned_cols=148  Identities=16%  Similarity=0.268  Sum_probs=81.1

Q ss_pred             HHHHHHhcC-CcEEEEEcccC-Cc-hhHH--HHHhcCCCCcCceEeccCCCcccCCcccccccCcchhHhhhhhcCCcEE
Q 029893            3 ALCKFLRDK-YSLAAVTNDIF-TK-EDGE--FLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLL   77 (186)
Q Consensus         3 ~~~~~l~~~-~~vaVi~nd~g-~~-iD~~--~i~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~~~l~~l~~~~~~D~i   77 (186)
                      +++.++.+. +|+++|--|.. .+ .+..  +..+.+.    ++.....+..+.       ....+++... ...++|+|
T Consensus        91 kLA~~l~~~g~~V~li~~D~~r~~a~~ql~~~~~~~~i----~~~~~~~~~dp~-------~~~~~~l~~~-~~~~~D~V  158 (272)
T TIGR00064        91 KLANKLKKQGKSVLLAAGDTFRAAAIEQLEEWAKRLGV----DVIKQKEGADPA-------AVAFDAIQKA-KARNIDVV  158 (272)
T ss_pred             HHHHHHHhcCCEEEEEeCCCCCHHHHHHHHHHHHhCCe----EEEeCCCCCCHH-------HHHHHHHHHH-HHCCCCEE
Confidence            566666654 89999999964 32 3211  2233333    334332322111       1111333332 24689999


Q ss_pred             EEecCCCeeEE-e--------------eeeecCceEEEEEeCCCCCCCcc---CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           78 LCESGGDNLAA-N--------------FSRELADYIIYIIDVSGGDKIPR---KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        78 iIEtsG~~l~~-~--------------~~~~~ad~~v~VvDa~~~~~~~~---~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ||+|+|..-.. .              +.....|-+++|+|++.+.+...   .+...+ ..+-+++||.|.......  
T Consensus       159 iIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~f~~~~-~~~g~IlTKlDe~~~~G~--  235 (272)
T TIGR00064       159 LIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQNALEQAKVFNEAV-GLTGIILTKLDGTAKGGI--  235 (272)
T ss_pred             EEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCHHHHHHHHHHHhhC-CCCEEEEEccCCCCCccH--
Confidence            99999932100 0              00112577899999987643211   111111 258999999998755322  


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVN  171 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~  171 (186)
                        +.......  ..|+.+++  +|+++++|..
T Consensus       236 --~l~~~~~~--~~Pi~~~~--~Gq~~~dl~~  261 (272)
T TIGR00064       236 --ILSIAYEL--KLPIKFIG--VGEKIDDLAP  261 (272)
T ss_pred             --HHHHHHHH--CcCEEEEe--CCCChHhCcc
Confidence              22222222  36899888  8999988754

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.

>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.61  E-value=0.00015  Score=53.66  Aligned_cols=86  Identities=16%  Similarity=0.231  Sum_probs=55.6

Q ss_pred             eecCceEEEEEeCCCCCCCccC--------CCCCCCc-eeEEEEecCCCCCcccccHHHHHHHH--Hhh-CCCCCEEEEe
Q 029893           92 RELADYIIYIIDVSGGDKIPRK--------GGPGITQ-ADLLVINKTDLASAIGADLAVMERDA--LRM-RDGGPFIFAQ  159 (186)
Q Consensus        92 ~~~ad~~v~VvDa~~~~~~~~~--------~~~~~~~-adiivlNK~Dl~~~~~~~~~~~~~~l--~~~-~p~a~i~~~S  159 (186)
                      +...|.+|+|||.++.+.....        ..+.+.. .-+++.||.|....  ....++...+  .++ +....|+.+|
T Consensus        83 y~dt~avIyVVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~--~t~~E~~~~L~l~~Lk~r~~~Iv~tS  160 (182)
T KOG0072|consen   83 YADTDAVIYVVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGA--LTRSEVLKMLGLQKLKDRIWQIVKTS  160 (182)
T ss_pred             hcccceEEEEEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhh--hhHHHHHHHhChHHHhhheeEEEeec
Confidence            3456889999999886543211        0122333 46778999997654  2222222211  111 2346999999


Q ss_pred             ccCCCCHHHHHHHHHHHHHH
Q 029893          160 VKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       160 a~~g~gi~~l~~~i~~~~~~  179 (186)
                      |.+|+|+++.++|+.+-++.
T Consensus       161 A~kg~Gld~~~DWL~~~l~~  180 (182)
T KOG0072|consen  161 AVKGEGLDPAMDWLQRPLKS  180 (182)
T ss_pred             cccccCCcHHHHHHHHHHhc
Confidence            99999999999999887654

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=97.57  E-value=0.00039  Score=58.28  Aligned_cols=149  Identities=15%  Similarity=0.226  Sum_probs=81.1

Q ss_pred             HHHHHHhcC-CcEEEEEcccC-C-chhHH--HHHhcCCCCcCceEeccCCCcccCCcccccccCcchhHhhhhhcCCcEE
Q 029893            3 ALCKFLRDK-YSLAAVTNDIF-T-KEDGE--FLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLL   77 (186)
Q Consensus         3 ~~~~~l~~~-~~vaVi~nd~g-~-~iD~~--~i~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~~~l~~l~~~~~~D~i   77 (186)
                      +++..+... ++|+++.-|.. . .++..  .-.+.++    .++....|.-+.       ....+++... ...++|+|
T Consensus       133 kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i----~~~~~~~~~dpa-------~~v~~~l~~~-~~~~~D~V  200 (318)
T PRK10416        133 KLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGV----PVIAQKEGADPA-------SVAFDAIQAA-KARGIDVL  200 (318)
T ss_pred             HHHHHHHhcCCeEEEEecCccchhhHHHHHHHHHHcCc----eEEEeCCCCCHH-------HHHHHHHHHH-HhCCCCEE
Confidence            456666654 89999998875 3 22221  1122233    233322232221       1111333322 24689999


Q ss_pred             EEecCCCeeE-E--------------eeeeecCceEEEEEeCCCCCCCccCCCCC--CCceeEEEEecCCCCCcccccHH
Q 029893           78 LCESGGDNLA-A--------------NFSRELADYIIYIIDVSGGDKIPRKGGPG--ITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        78 iIEtsG~~l~-~--------------~~~~~~ad~~v~VvDa~~~~~~~~~~~~~--~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ||+|+|..-. .              ...+...+-+++|+|++.+..........  .-..+-+|+||.|.....    -
T Consensus       201 iIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~~~~~~a~~f~~~~~~~giIlTKlD~t~~~----G  276 (318)
T PRK10416        201 IIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQNALSQAKAFHEAVGLTGIILTKLDGTAKG----G  276 (318)
T ss_pred             EEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCChHHHHHHHHHHhhCCCCEEEEECCCCCCCc----c
Confidence            9999993210 0              00011235678999999765432211111  113578999999965442    2


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVN  171 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~  171 (186)
                      .+.......  ..||.+++  +|+++++|..
T Consensus       277 ~~l~~~~~~--~~Pi~~v~--~Gq~~~Dl~~  303 (318)
T PRK10416        277 VVFAIADEL--GIPIKFIG--VGEGIDDLQP  303 (318)
T ss_pred             HHHHHHHHH--CCCEEEEe--CCCChhhCcc
Confidence            233333333  46999999  8999988854

>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]

Probab=97.56  E-value=0.00063  Score=50.63  Aligned_cols=86  Identities=14%  Similarity=0.134  Sum_probs=60.3

Q ss_pred             ecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccHHHHHHHHH--hhC-CCCCEEEEec
Q 029893           93 ELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLAVMERDAL--RMR-DGGPFIFAQV  160 (186)
Q Consensus        93 ~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~--~~~-p~a~i~~~Sa  160 (186)
                      +..+.++++||+.+.+....         ..+...+.|.+++.||.|+.++  -...++..++.  ++. ...-.|.+|+
T Consensus        87 R~v~aivY~VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~A--L~~~~li~rmgL~sitdREvcC~siSc  164 (186)
T KOG0075|consen   87 RGVSAIVYVVDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGA--LSKIALIERMGLSSITDREVCCFSISC  164 (186)
T ss_pred             hcCcEEEEEeecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCccc--ccHHHHHHHhCccccccceEEEEEEEE
Confidence            35688999999998654321         1123346789999999999877  33344444332  221 2346799999


Q ss_pred             cCCCCHHHHHHHHHHHHHHh
Q 029893          161 KHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       161 ~~g~gi~~l~~~i~~~~~~~  180 (186)
                      ++..+++.+++|+.++.+..
T Consensus       165 ke~~Nid~~~~Wli~hsk~~  184 (186)
T KOG0075|consen  165 KEKVNIDITLDWLIEHSKSL  184 (186)
T ss_pred             cCCccHHHHHHHHHHHhhhh
Confidence            99999999999999876644

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=97.54  E-value=0.00019  Score=64.10  Aligned_cols=63  Identities=16%  Similarity=0.112  Sum_probs=40.6

Q ss_pred             cCCcEEEEecCCCe-eEE-e-eeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCc
Q 029893           72 FKADLLLCESGGDN-LAA-N-FSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~-~-~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~  134 (186)
                      .+..+.+++|.|.. ... . ..+..+|.+++|+|+..+.....    ........+.++++||+|+...
T Consensus        77 ~~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~~~iPiiv~iNK~D~~~a  146 (526)
T PRK00741         77 RDCLINLLDTPGHEDFSEDTYRTLTAVDSALMVIDAAKGVEPQTRKLMEVCRLRDTPIFTFINKLDRDGR  146 (526)
T ss_pred             CCEEEEEEECCCchhhHHHHHHHHHHCCEEEEEEecCCCCCHHHHHHHHHHHhcCCCEEEEEECCccccc
Confidence            36778999999921 000 0 11235799999999988753221    1122345689999999998653

>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=97.54  E-value=0.00019  Score=57.40  Aligned_cols=50  Identities=26%  Similarity=0.337  Sum_probs=38.4

Q ss_pred             ceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          120 QADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       120 ~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .+.++|+||+|+.+.  .+.+.    +..   ..+++++||++|.|++++++.+.+.+.
T Consensus       177 ~p~iiV~NK~Dl~~~--~~~~~----~~~---~~~~~~~SA~~g~gi~~l~~~i~~~L~  226 (233)
T cd01896         177 IPCLYVYNKIDLISI--EELDL----LAR---QPNSVVISAEKGLNLDELKERIWDKLG  226 (233)
T ss_pred             eeEEEEEECccCCCH--HHHHH----Hhc---CCCEEEEcCCCCCCHHHHHHHHHHHhC
Confidence            478899999999866  33332    211   236899999999999999999988764

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.

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

Probab=97.53  E-value=0.00013  Score=63.54  Aligned_cols=116  Identities=22%  Similarity=0.187  Sum_probs=69.8

Q ss_pred             chhHhhhhhcCCcEEEEecCCCeeE-----Eee-------eeecCceEEEEEeCCCCCCCcc-C---------------C
Q 029893           63 GPLEELSNLFKADLLLCESGGDNLA-----ANF-------SRELADYIIYIIDVSGGDKIPR-K---------------G  114 (186)
Q Consensus        63 ~~l~~l~~~~~~D~iiIEtsG~~l~-----~~~-------~~~~ad~~v~VvDa~~~~~~~~-~---------------~  114 (186)
                      |+++...+-.++-+.+++|+|+.-.     ...       ....+|++++|+|+.+.+.... +               .
T Consensus       305 Daiea~v~~~G~~v~L~DTAGiRe~~~~~iE~~gI~rA~k~~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~  384 (531)
T KOG1191|consen  305 DAIEAQVTVNGVPVRLSDTAGIREESNDGIEALGIERARKRIERADVILLVVDAEESDTESDLKIARILETEGVGLVVIV  384 (531)
T ss_pred             hhheeEeecCCeEEEEEeccccccccCChhHHHhHHHHHHHHhhcCEEEEEecccccccccchHHHHHHHHhccceEEEe
Confidence            4555555567999999999995320     001       1234799999999955322110 0               0


Q ss_pred             CCCCCceeEEEEecCCCCCcccccHHHHHHHHH-hhCCCCCE-EEEeccCCCCHHHHHHHHHHHHH
Q 029893          115 GPGITQADLLVINKTDLASAIGADLAVMERDAL-RMRDGGPF-IFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       115 ~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~-~~~p~a~i-~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ..+.....+++.||+|+.++..........+.. ...+.-++ .++|++|++|++.|...+.+.+.
T Consensus       385 ~~~~~~~~i~~~nk~D~~s~~~~~~~~~~~~~~~~~~~~~~i~~~vs~~tkeg~~~L~~all~~~~  450 (531)
T KOG1191|consen  385 NKMEKQRIILVANKSDLVSKIPEMTKIPVVYPSAEGRSVFPIVVEVSCTTKEGCERLSTALLNIVE  450 (531)
T ss_pred             ccccccceEEEechhhccCccccccCCceeccccccCcccceEEEeeechhhhHHHHHHHHHHHHH
Confidence            112346789999999998762111110111111 11222344 45999999999999998877654

>PRK13351 elongation factor G; Reviewed

Probab=97.52  E-value=0.00018  Score=66.20  Aligned_cols=63  Identities=19%  Similarity=0.189  Sum_probs=40.9

Q ss_pred             cCCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCc
Q 029893           72 FKADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~  134 (186)
                      .+..+.|++|+|.. ...  ......+|.+++|+|+..+......    .......+.++++||+|+...
T Consensus        71 ~~~~i~liDtPG~~df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~iiviNK~D~~~~  140 (687)
T PRK13351         71 DNHRINLIDTPGHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVWRQADRYGIPRLIFINKMDRVGA  140 (687)
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCCEEEEEECCCCCCC
Confidence            46788999999931 000  0122457999999999887543211    112235678999999998754

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

Probab=97.50  E-value=0.00021  Score=53.16  Aligned_cols=107  Identities=19%  Similarity=0.185  Sum_probs=70.6

Q ss_pred             cCCcEEEEecCCCe----eEEeeeeecCceEEEEEeCCCCCCCcc--CCC----CCC-CceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDN----LAANFSRELADYIIYIIDVSGGDKIPR--KGG----PGI-TQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~----l~~~~~~~~ad~~v~VvDa~~~~~~~~--~~~----~~~-~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      .....-|-+|+|-.    +..+ .++..+.+++|.|+++++....  .+.    .+. ..+-++|.||.|..+...-..+
T Consensus        55 ~~VkLqIwDtAGqErFrtitst-yyrgthgv~vVYDVTn~ESF~Nv~rWLeei~~ncdsv~~vLVGNK~d~~~RrvV~t~  133 (198)
T KOG0079|consen   55 DRVKLQIWDTAGQERFRTITST-YYRGTHGVIVVYDVTNGESFNNVKRWLEEIRNNCDSVPKVLVGNKNDDPERRVVDTE  133 (198)
T ss_pred             cEEEEEEeecccHHHHHHHHHH-HccCCceEEEEEECcchhhhHhHHHHHHHHHhcCccccceecccCCCCccceeeehH
Confidence            35666677888821    0011 2456789999999999875321  111    111 3478999999999876323334


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      ..+.+..++  ....|++|||..++++..|.-|.+..-..+
T Consensus       134 dAr~~A~~m--gie~FETSaKe~~NvE~mF~cit~qvl~~k  172 (198)
T KOG0079|consen  134 DARAFALQM--GIELFETSAKENENVEAMFHCITKQVLQAK  172 (198)
T ss_pred             HHHHHHHhc--CchheehhhhhcccchHHHHHHHHHHHHHH
Confidence            445554444  468999999999999999988877655443

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=97.49  E-value=0.0002  Score=65.27  Aligned_cols=106  Identities=15%  Similarity=0.152  Sum_probs=67.6

Q ss_pred             CCcEEEEecCCC----eeEEeeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCccc--------
Q 029893           73 KADLLLCESGGD----NLAANFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASAIG--------  136 (186)
Q Consensus        73 ~~D~iiIEtsG~----~l~~~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~~~--------  136 (186)
                      -|-+++|+|.|-    ++. .....++|+.|+|+|..+|.+.+..    ..+.-..+-||.+||+|.+=.+.        
T Consensus       539 vPg~lvIdtpghEsFtnlR-srgsslC~~aIlvvdImhGlepqtiESi~lLR~rktpFivALNKiDRLYgwk~~p~~~i~  617 (1064)
T KOG1144|consen  539 VPGLLVIDTPGHESFTNLR-SRGSSLCDLAILVVDIMHGLEPQTIESINLLRMRKTPFIVALNKIDRLYGWKSCPNAPIV  617 (1064)
T ss_pred             CCeeEEecCCCchhhhhhh-hccccccceEEEEeehhccCCcchhHHHHHHHhcCCCeEEeehhhhhhcccccCCCchHH
Confidence            578999999992    111 1112357999999999999765432    22233458899999999752110        


Q ss_pred             --------ccHHHHHHHHHh---------hC-----------CCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          137 --------ADLAVMERDALR---------MR-----------DGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       137 --------~~~~~~~~~l~~---------~~-----------p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                              ....++..++..         +|           .+.-+++|||.+|+|+.+|+-+|.+.-+.
T Consensus       618 ~~lkkQ~k~v~~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQk  688 (1064)
T KOG1144|consen  618 EALKKQKKDVQNEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQK  688 (1064)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHHH
Confidence                    011112222211         11           23578999999999999999988765543

>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=97.46  E-value=4.2e-05  Score=61.50  Aligned_cols=103  Identities=22%  Similarity=0.205  Sum_probs=53.7

Q ss_pred             CCcEEEEecCCCeeEEee-------------eeecCceEEEEEeCCCCCCCccCCC----------CCCCceeEEEEecC
Q 029893           73 KADLLLCESGGDNLAANF-------------SRELADYIIYIIDVSGGDKIPRKGG----------PGITQADLLVINKT  129 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~~-------------~~~~ad~~v~VvDa~~~~~~~~~~~----------~~~~~adiivlNK~  129 (186)
                      ..+|++++|+|  ...-|             .....-++|+++|+....+. .++.          -.++.|.+.|+||+
T Consensus        90 ~~~y~l~DtPG--QiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~-~~f~s~~L~s~s~~~~~~lP~vnvlsK~  166 (238)
T PF03029_consen   90 EDDYLLFDTPG--QIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDP-SKFVSSLLLSLSIMLRLELPHVNVLSKI  166 (238)
T ss_dssp             H-SEEEEE--S--SHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSH-HHHHHHHHHHHHHHHHHTSEEEEEE--G
T ss_pred             CCcEEEEeCCC--CEEEEEechhHHHHHHHHhhhcceEEEEEEecccccCh-hhHHHHHHHHHHHHhhCCCCEEEeeecc
Confidence            45999999999  22111             00112357899998765431 1111          12567999999999


Q ss_pred             CCCCccc-cc---------H--------HHHHHHHHhh---CCCC-CEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          130 DLASAIG-AD---------L--------AVMERDALRM---RDGG-PFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       130 Dl~~~~~-~~---------~--------~~~~~~l~~~---~p~a-~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      |+.++.. ..         +        ..+.+.+.+.   +... +++++|+++++|+++|+..+.+...
T Consensus       167 Dl~~~~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~~~~~~L~~~id~a~~  237 (238)
T PF03029_consen  167 DLLSKYLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDGEGMEELLAAIDKANQ  237 (238)
T ss_dssp             GGS-HHHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTTTTHHHHHHHHHHHHH
T ss_pred             CcccchhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCChHHHHHHHHHHHHHhc
Confidence            9998310 00         0        1111222222   2344 8999999999999999999987653

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

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

Probab=97.43  E-value=0.00062  Score=50.34  Aligned_cols=104  Identities=20%  Similarity=0.254  Sum_probs=69.2

Q ss_pred             hcCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--C-------CCCCCCceeEEEEecCCCCCccccc
Q 029893           71 LFKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--K-------GGPGITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~-------~~~~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      ...+.+-|.|++|...-   .+..+..+|.+++++|..+......  .       +.. -..+.+++.||.|+.+...-.
T Consensus        45 ~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd~~~~~S~~~~~~~~~~i~~~~~-~~~~iivvg~K~D~~~~~~v~  123 (162)
T PF00071_consen   45 GKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFDVTDEESFENLKKWLEEIQKYKP-EDIPIIVVGNKSDLSDEREVS  123 (162)
T ss_dssp             TEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEETTBHHHHHTHHHHHHHHHHHST-TTSEEEEEEETTTGGGGSSSC
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccceeeeccccccccccch
Confidence            34667888999993210   0112345789999999877432110  1       111 235789999999998742234


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      .++..+..++.+  .+++++||+++.|+.++|..+.+.+
T Consensus       124 ~~~~~~~~~~~~--~~~~e~Sa~~~~~v~~~f~~~i~~i  160 (162)
T PF00071_consen  124 VEEAQEFAKELG--VPYFEVSAKNGENVKEIFQELIRKI  160 (162)
T ss_dssp             HHHHHHHHHHTT--SEEEEEBTTTTTTHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHhC--CEEEEEECCCCCCHHHHHHHHHHHH
Confidence            455555555544  8999999999999999999887654

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 ....

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=97.37  E-value=0.00018  Score=57.34  Aligned_cols=60  Identities=22%  Similarity=0.219  Sum_probs=38.8

Q ss_pred             CCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCC
Q 029893           73 KADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLA  132 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~  132 (186)
                      ++.+.|++|+|.. ...  ...+..+|.+++|+|+.++...+..    .......+.++++||+|+.
T Consensus        72 ~~~i~iiDTPG~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l~~~~~~~~p~ilviNKiD~~  138 (222)
T cd01885          72 EYLINLIDSPGHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTETVLRQALKERVKPVLVINKIDRL  138 (222)
T ss_pred             ceEEEEECCCCccccHHHHHHHHHhcCeeEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECCCcc
Confidence            5678899999921 000  1123457999999999987543211    1111235789999999986

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

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.34  E-value=0.00097  Score=55.19  Aligned_cols=77  Identities=25%  Similarity=0.361  Sum_probs=49.7

Q ss_pred             CceEEEEEeCCCCCCCc---cCC---CCCCCceeEEEEecCCCCCcccccHHH--HHHHHHhhCCCCCEEEEeccCCCCH
Q 029893           95 ADYIIYIIDVSGGDKIP---RKG---GPGITQADLLVINKTDLASAIGADLAV--MERDALRMRDGGPFIFAQVKHGLGV  166 (186)
Q Consensus        95 ad~~v~VvDa~~~~~~~---~~~---~~~~~~adiivlNK~Dl~~~~~~~~~~--~~~~l~~~~p~a~i~~~Sa~~g~gi  166 (186)
                      .|-+++|+.+..++-..   ..+   .+.-...-+|++||+||+++  +....  .....+.+  ..+++.+|++++.|+
T Consensus        80 ~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~~gi~pvIvlnK~DL~~~--~~~~~~~~~~~y~~~--gy~v~~~s~~~~~~~  155 (301)
T COG1162          80 NDQAIIVVSLVDPDFNTNLLDRYLVLAEAGGIEPVIVLNKIDLLDD--EEAAVKELLREYEDI--GYPVLFVSAKNGDGL  155 (301)
T ss_pred             cceEEEEEeccCCCCCHHHHHHHHHHHHHcCCcEEEEEEccccCcc--hHHHHHHHHHHHHhC--CeeEEEecCcCcccH
Confidence            35567777776654221   111   11223467999999999987  44432  33233333  469999999999999


Q ss_pred             HHHHHHHHH
Q 029893          167 EEIVNHILQ  175 (186)
Q Consensus       167 ~~l~~~i~~  175 (186)
                      ++|.+++..
T Consensus       156 ~~l~~~l~~  164 (301)
T COG1162         156 EELAELLAG  164 (301)
T ss_pred             HHHHHHhcC
Confidence            999988754

>cd01899 Ygr210 Ygr210 subfamily

Probab=97.34  E-value=0.00025  Score=59.39  Aligned_cols=57  Identities=9%  Similarity=0.075  Sum_probs=43.8

Q ss_pred             CceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHH-HHHHHHHHh
Q 029893          119 TQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVN-HILQAWEAS  180 (186)
Q Consensus       119 ~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~-~i~~~~~~~  180 (186)
                      .+|.++|+||+|+.+.  .+.   .+.++...+..+++++||+.+.|+++|.+ .+.+++|+.
T Consensus       214 ~KPvI~VlNK~Dl~~~--~~~---~~~l~~~~~~~~iI~iSA~~e~~L~~L~~~~i~~~lPe~  271 (318)
T cd01899         214 SKPMVIAANKADIPDA--ENN---ISKLRLKYPDEIVVPTSAEAELALRRAAKQGLIKYDPGD  271 (318)
T ss_pred             CCcEEEEEEHHHccCh--HHH---HHHHHhhCCCCeEEEEeCcccccHHHHHHhhHHHhCCCC
Confidence            3589999999998654  222   22444445677999999999999999998 699998764

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.

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

Probab=97.29  E-value=0.00046  Score=52.07  Aligned_cols=102  Identities=20%  Similarity=0.106  Sum_probs=68.6

Q ss_pred             cCCcEEEEecCCCe---eEEeeeeecCceEEEEEeCCCCCCCc--c-------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDN---LAANFSRELADYIIYIIDVSGGDKIP--R-------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~---l~~~~~~~~ad~~v~VvDa~~~~~~~--~-------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ....+-|=+|+|-.   --.|..++.|..+|+|.|.+..+...  .       .|...-....++|.||+|.-+++....
T Consensus        58 ~~~KlaiWDTAGqErFRtLTpSyyRgaqGiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~r  137 (209)
T KOG0080|consen   58 KRLKLAIWDTAGQERFRTLTPSYYRGAQGIILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKESERVVDR  137 (209)
T ss_pred             ceEEEEEEeccchHhhhccCHhHhccCceeEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccchhcccccH
Confidence            46677888999921   01234567889999999998865421  1       122222345789999999775533344


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      ++-.+..++.  .+-.+++||++.+|++..|+.+..
T Consensus       138 eEG~kfAr~h--~~LFiE~SAkt~~~V~~~Feelve  171 (209)
T KOG0080|consen  138 EEGLKFARKH--RCLFIECSAKTRENVQCCFEELVE  171 (209)
T ss_pred             HHHHHHHHhh--CcEEEEcchhhhccHHHHHHHHHH
Confidence            4445555554  367899999999999888887654

>TIGR00503 prfC peptide chain release factor 3

Probab=97.28  E-value=0.00065  Score=60.68  Aligned_cols=63  Identities=14%  Similarity=0.103  Sum_probs=40.0

Q ss_pred             hcCCcEEEEecCCCe-eEE-e-eeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCC
Q 029893           71 LFKADLLLCESGGDN-LAA-N-FSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLAS  133 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~-l~~-~-~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~  133 (186)
                      ..+..+.|++|+|.. ... . ..+..+|.+|+|+|+..+.....    ........+.++++||+|+..
T Consensus        77 ~~~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~~~~PiivviNKiD~~~  146 (527)
T TIGR00503        77 YRDCLVNLLDTPGHEDFSEDTYRTLTAVDNCLMVIDAAKGVETRTRKLMEVTRLRDTPIFTFMNKLDRDI  146 (527)
T ss_pred             eCCeEEEEEECCChhhHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHhcCCCEEEEEECccccC
Confidence            347888999999931 000 0 11234799999999988643221    111223458899999999853

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.

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=97.27  E-value=0.0008  Score=50.86  Aligned_cols=106  Identities=17%  Similarity=0.175  Sum_probs=68.2

Q ss_pred             hcCCcEEEEecCCCeeEEee---eeecCceEEEEEeCCCCCCCccC--------CCCC-CCceeEEEEecCCCCCccccc
Q 029893           71 LFKADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPRK--------GGPG-ITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l~~~~---~~~~ad~~v~VvDa~~~~~~~~~--------~~~~-~~~adiivlNK~Dl~~~~~~~  138 (186)
                      ..++...+-|--|-.--.+|   +++.+|..|+|+|.+.....+.-        ..++ ...+.+++.||.|+.+.  -.
T Consensus        57 ~~~~~L~iwDvGGq~~lr~~W~nYfestdglIwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~--l~  134 (185)
T KOG0073|consen   57 YKGYTLNIWDVGGQKTLRSYWKNYFESTDGLIWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGA--LS  134 (185)
T ss_pred             ecceEEEEEEcCCcchhHHHHHHhhhccCeEEEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccc--cC
Confidence            45677777777771111222   24567999999999664322110        1122 44689999999999865  33


Q ss_pred             HHHHH--HHHHhhC--CCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          139 LAVME--RDALRMR--DGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       139 ~~~~~--~~l~~~~--p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .+.+.  ..+.++.  .+.+++.+||.+|+++.+=++|+...+.
T Consensus       135 ~~~i~~~~~L~~l~ks~~~~l~~cs~~tge~l~~gidWL~~~l~  178 (185)
T KOG0073|consen  135 LEEISKALDLEELAKSHHWRLVKCSAVTGEDLLEGIDWLCDDLM  178 (185)
T ss_pred             HHHHHHhhCHHHhccccCceEEEEeccccccHHHHHHHHHHHHH
Confidence            44333  2344443  3569999999999999988888876554

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

Probab=97.25  E-value=0.00018  Score=52.63  Aligned_cols=89  Identities=19%  Similarity=0.153  Sum_probs=57.6

Q ss_pred             eeecCceEEEEEeCCCCCCCc--cCCCC------CCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccC
Q 029893           91 SRELADYIIYIIDVSGGDKIP--RKGGP------GITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKH  162 (186)
Q Consensus        91 ~~~~ad~~v~VvDa~~~~~~~--~~~~~------~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~  162 (186)
                      .++.+|..+++.|..+.....  ..+..      +-..+..++.||+|+.+++....+. -+.+.+.+ ..|..++||+|
T Consensus        67 yyrda~allllydiankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~er~v~~dd-g~kla~~y-~ipfmetsakt  144 (192)
T KOG0083|consen   67 YYRDADALLLLYDIANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAHERAVKRDD-GEKLAEAY-GIPFMETSAKT  144 (192)
T ss_pred             hhcccceeeeeeecccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccchhhccccch-HHHHHHHH-CCCceeccccc
Confidence            456789999999987754321  11111      1234678999999998753111112 22333322 46999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhh
Q 029893          163 GLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       163 g~gi~~l~~~i~~~~~~~~  181 (186)
                      |.+++--|-.|.+.+...+
T Consensus       145 g~nvd~af~~ia~~l~k~~  163 (192)
T KOG0083|consen  145 GFNVDLAFLAIAEELKKLK  163 (192)
T ss_pred             cccHhHHHHHHHHHHHHhc
Confidence            9999999888887665543

>TIGR00484 EF-G translation elongation factor EF-G

Probab=97.24  E-value=0.00056  Score=62.96  Aligned_cols=90  Identities=11%  Similarity=0.064  Sum_probs=56.5

Q ss_pred             hcCCcEEEEecCCCee-EE--eeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCcccccHHHHH
Q 029893           71 LFKADLLLCESGGDNL-AA--NFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASAIGADLAVME  143 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l-~~--~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~~~~~~~~~~  143 (186)
                      ..+..+.|++|+|..- ..  ......+|.+++|+|+..+...+..    +......+.++++||+|+...   ......
T Consensus        72 ~~~~~i~liDTPG~~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~p~ivviNK~D~~~~---~~~~~~  148 (689)
T TIGR00484        72 WKGHRINIIDTPGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSETVWRQANRYEVPRIAFVNKMDKTGA---NFLRVV  148 (689)
T ss_pred             ECCeEEEEEECCCCcchhHHHHHHHHHhCEEEEEEeCCCCCChhHHHHHHHHHHcCCCEEEEEECCCCCCC---CHHHHH
Confidence            3477899999999310 00  0112346999999999887543211    112245688999999999865   344455


Q ss_pred             HHHHhhC---CCCCEEEEeccCC
Q 029893          144 RDALRMR---DGGPFIFAQVKHG  163 (186)
Q Consensus       144 ~~l~~~~---p~a~i~~~Sa~~g  163 (186)
                      +.+++..   +...++++|+.++
T Consensus       149 ~~i~~~l~~~~~~~~ipis~~~~  171 (689)
T TIGR00484       149 NQIKQRLGANAVPIQLPIGAEDN  171 (689)
T ss_pred             HHHHHHhCCCceeEEeccccCCC
Confidence            5554433   3345788888766

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.

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

Probab=97.21  E-value=0.0006  Score=52.60  Aligned_cols=103  Identities=17%  Similarity=0.081  Sum_probs=65.7

Q ss_pred             hcCCcEEEEecCCCe-eE--EeeeeecCceEEEEEeCCCCCCCc--cCCCC---C---CCceeEEEEecCCCCCcccccH
Q 029893           71 LFKADLLLCESGGDN-LA--ANFSRELADYIIYIIDVSGGDKIP--RKGGP---G---ITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~-l~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~~~---~---~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .++..+=|-+|.|-. ..  ....++.+-.+++|.|.++.+...  ..+..   |   -...-+++.||+||...+.-..
T Consensus        52 ~k~IKlqiwDtaGqe~frsv~~syYr~a~GalLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~~rR~Vs~  131 (216)
T KOG0098|consen   52 GKQIKLQIWDTAGQESFRSVTRSYYRGAAGALLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDLEARREVSK  131 (216)
T ss_pred             CceEEEEEEecCCcHHHHHHHHHHhccCcceEEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhhccccccH
Confidence            456777788888821 00  111345678889999998765421  11110   1   1124688899999987643344


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      ++-+.+.++.  .-...+|||+|++|+++.|..+..
T Consensus       132 EEGeaFA~eh--gLifmETSakt~~~VEEaF~nta~  165 (216)
T KOG0098|consen  132 EEGEAFAREH--GLIFMETSAKTAENVEEAFINTAK  165 (216)
T ss_pred             HHHHHHHHHc--CceeehhhhhhhhhHHHHHHHHHH
Confidence            5555555652  346779999999999999986654

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=97.19  E-value=0.00066  Score=58.17  Aligned_cols=97  Identities=16%  Similarity=0.198  Sum_probs=57.5

Q ss_pred             CCcEEEEecCCCe--eEEee-eeecCceEEEEEeCCCCCC-CccCCCCC----------CCc-eeEEEEecCCCCCcccc
Q 029893           73 KADLLLCESGGDN--LAANF-SRELADYIIYIIDVSGGDK-IPRKGGPG----------ITQ-ADLLVINKTDLASAIGA  137 (186)
Q Consensus        73 ~~D~iiIEtsG~~--l~~~~-~~~~ad~~v~VvDa~~~~~-~~~~~~~~----------~~~-adiivlNK~Dl~~~~~~  137 (186)
                      .+-+-|++|.|-+  +-... ....||+.|+|+|+..+.- .......|          +.. .-++++||+|+++..+.
T Consensus        84 k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlGi~~lIVavNKMD~v~wde~  163 (428)
T COG5256          84 KYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLGIKQLIVAVNKMDLVSWDEE  163 (428)
T ss_pred             CceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhcCCceEEEEEEcccccccCHH
Confidence            4567788888821  00000 1224799999999988631 10011111          222 46888999999975333


Q ss_pred             cHHHHHHHHHh------hCC-CCCEEEEeccCCCCHHHH
Q 029893          138 DLAVMERDALR------MRD-GGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       138 ~~~~~~~~l~~------~~p-~a~i~~~Sa~~g~gi~~l  169 (186)
                      ..+++...+..      .+| ..+++++||.+|.|+.+.
T Consensus       164 rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~~  202 (428)
T COG5256         164 RFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTKK  202 (428)
T ss_pred             HHHHHHHHHHHHHHHcCCCccCCeEEecccccCCccccc
Confidence            44444443332      233 368999999999998653

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=97.01  E-value=0.003  Score=56.22  Aligned_cols=98  Identities=18%  Similarity=0.160  Sum_probs=56.8

Q ss_pred             cCCcEEEEecCCCeeEEe--e-eeecCceEEEEEeCCCCC-CCccCCCCC----------CCc-eeEEEEecCCCCCccc
Q 029893           72 FKADLLLCESGGDNLAAN--F-SRELADYIIYIIDVSGGD-KIPRKGGPG----------ITQ-ADLLVINKTDLASAIG  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~--~-~~~~ad~~v~VvDa~~~~-~~~~~~~~~----------~~~-adiivlNK~Dl~~~~~  136 (186)
                      ...-+.++++.|..--.|  . ...-+|+.++|+|++.+. +......+|          +.. .-++++||.|+++-..
T Consensus       253 ~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~Lgi~qlivaiNKmD~V~Wsq  332 (603)
T KOG0458|consen  253 KSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTGEFESGFDPGGQTREHALLLRSLGISQLIVAINKMDLVSWSQ  332 (603)
T ss_pred             CceeEEEecCCCccccchhhhccccccceEEEEEECCcchhhhccCCCCchHHHHHHHHHcCcceEEEEeecccccCccH
Confidence            345667777777210000  0 112368999999998752 111111111          222 4788899999997533


Q ss_pred             ccHHHHHHHHHhh----C----CCCCEEEEeccCCCCHHHH
Q 029893          137 ADLAVMERDALRM----R----DGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       137 ~~~~~~~~~l~~~----~----p~a~i~~~Sa~~g~gi~~l  169 (186)
                      ...+.+...+...    .    +....+++|+.+|+|+-..
T Consensus       333 ~RF~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k~  373 (603)
T KOG0458|consen  333 DRFEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENLIKI  373 (603)
T ss_pred             HHHHHHHHHHHHHHHHhcCcccCCcceEecccccCCccccc
Confidence            4444444443322    1    3458999999999998554

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

Probab=96.92  E-value=0.00039  Score=56.59  Aligned_cols=96  Identities=15%  Similarity=0.167  Sum_probs=57.2

Q ss_pred             cCCcEEEEecCCCe-eEE-e-eeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccccHHHHHH
Q 029893           72 FKADLLLCESGGDN-LAA-N-FSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGADLAVMER  144 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~-~-~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~  144 (186)
                      .+.++.||+|+|.. ... . .....+|.+++|+|++.+.....    ......+.+.++++||+|+...   ..+...+
T Consensus        62 ~~~~i~liDtPG~~~f~~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~~~~~~~~~p~iivvNK~D~~~~---~~~~~~~  138 (268)
T cd04170          62 KGHKINLIDTPGYADFVGETRAALRAADAALVVVSAQSGVEVGTEKLWEFADEAGIPRIIFINKMDRERA---DFDKTLA  138 (268)
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECCccCCC---CHHHHHH
Confidence            46789999999931 000 0 11235799999999988754321    1122345688999999998865   3445555


Q ss_pred             HHHhhCCCCCEEEE--eccCCCCHHHHHH
Q 029893          145 DALRMRDGGPFIFA--QVKHGLGVEEIVN  171 (186)
Q Consensus       145 ~l~~~~p~a~i~~~--Sa~~g~gi~~l~~  171 (186)
                      .+++... .+++++  +..+|.|+..+.+
T Consensus       139 ~l~~~~~-~~~~~~~ip~~~~~~~~~~vd  166 (268)
T cd04170         139 ALQEAFG-RPVVPLQLPIGEGDDFKGVVD  166 (268)
T ss_pred             HHHHHhC-CCeEEEEecccCCCceeEEEE
Confidence            6655432 234444  3455555544433

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

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=96.92  E-value=0.0017  Score=55.39  Aligned_cols=82  Identities=13%  Similarity=0.212  Sum_probs=53.4

Q ss_pred             CceEEEEEeCCCCCCCccC-C---CCCCCceeEEEEecCCCCCcccccHHHHHHHHHh----h-----------------
Q 029893           95 ADYIIYIIDVSGGDKIPRK-G---GPGITQADLLVINKTDLASAIGADLAVMERDALR----M-----------------  149 (186)
Q Consensus        95 ad~~v~VvDa~~~~~~~~~-~---~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~----~-----------------  149 (186)
                      .|+.++++-|.+|.....+ +   ..-++.|.+++++|+|++++  +.++.+.+.+.+    .                 
T Consensus       227 ~dYglLvVaAddG~~~~tkEHLgi~~a~~lPviVvvTK~D~~~d--dr~~~v~~ei~~~Lk~v~Rip~~vk~~~d~v~aa  304 (527)
T COG5258         227 VDYGLLVVAADDGVTKMTKEHLGIALAMELPVIVVVTKIDMVPD--DRFQGVVEEISALLKRVGRIPLIVKDTDDVVLAA  304 (527)
T ss_pred             cceEEEEEEccCCcchhhhHhhhhhhhhcCCEEEEEEecccCcH--HHHHHHHHHHHHHHHHhcccceeeeccchhHHhh
Confidence            3666777777666554322 1   12267799999999999987  444443333221    1                 


Q ss_pred             -----CC-CCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          150 -----RD-GGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       150 -----~p-~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                           +. -+|||.+|+.||+|++-|.+.+....+
T Consensus       305 ~a~k~~~~vvPi~~tSsVTg~GldlL~e~f~~Lp~  339 (527)
T COG5258         305 KAMKAGRGVVPIFYTSSVTGEGLDLLDEFFLLLPK  339 (527)
T ss_pred             hhhhcCCceEEEEEEecccCccHHHHHHHHHhCCc
Confidence                 11 259999999999999888777654433

>COG2229 Predicted GTPase [General function prediction only]

Probab=96.91  E-value=0.0049  Score=47.36  Aligned_cols=100  Identities=18%  Similarity=0.088  Sum_probs=67.3

Q ss_pred             CcEEEEecCCCeeEEeee----eecCceEEEEEeCCCCCCCcc----CCCCCCC-ceeEEEEecCCCCCcccccHHHHHH
Q 029893           74 ADLLLCESGGDNLAANFS----RELADYIIYIIDVSGGDKIPR----KGGPGIT-QADLLVINKTDLASAIGADLAVMER  144 (186)
Q Consensus        74 ~D~iiIEtsG~~l~~~~~----~~~ad~~v~VvDa~~~~~~~~----~~~~~~~-~adiivlNK~Dl~~~~~~~~~~~~~  144 (186)
                      .-.=+.-|.| .....|.    .+.+...|+++|.+.+.....    .+..... .+.+|.+||.||.+.  .-.+.+.+
T Consensus        68 ~~v~LfgtPG-q~RF~fm~~~l~~ga~gaivlVDss~~~~~~a~~ii~f~~~~~~ip~vVa~NK~DL~~a--~ppe~i~e  144 (187)
T COG2229          68 TGVHLFGTPG-QERFKFMWEILSRGAVGAIVLVDSSRPITFHAEEIIDFLTSRNPIPVVVAINKQDLFDA--LPPEKIRE  144 (187)
T ss_pred             ceEEEecCCC-cHHHHHHHHHHhCCcceEEEEEecCCCcchHHHHHHHHHhhccCCCEEEEeeccccCCC--CCHHHHHH
Confidence            4555667777 1111121    124678899999988765311    1111112 578999999999987  45566666


Q ss_pred             HHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          145 DALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       145 ~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      .+..-+-..|++.++|..++|..+.++.+...
T Consensus       145 ~l~~~~~~~~vi~~~a~e~~~~~~~L~~ll~~  176 (187)
T COG2229         145 ALKLELLSVPVIEIDATEGEGARDQLDVLLLK  176 (187)
T ss_pred             HHHhccCCCceeeeecccchhHHHHHHHHHhh
Confidence            66654446799999999999999999887765

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

Probab=96.89  E-value=0.0047  Score=48.23  Aligned_cols=104  Identities=15%  Similarity=0.121  Sum_probs=65.7

Q ss_pred             CCcEEEEecCCCeeEEe----eeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           73 KADLLLCESGGDNLAAN----FSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~----~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ...+-|++|+|- ...+    ......|..++|++.++......         .....-..|.++|.||+||.....-..
T Consensus        50 ~~~l~ilDt~g~-~~~~~~~~~~~~~~~gF~lVysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~V~~  128 (196)
T KOG0395|consen   50 VCMLEILDTAGQ-EEFSAMRDLYIRNGDGFLLVYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLERERQVSE  128 (196)
T ss_pred             EEEEEEEcCCCc-ccChHHHHHhhccCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccchhccccCH
Confidence            455668899991 1111    12334688899999877532110         011112258999999999987532333


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ++..+..+.+  ..+.+++||+...+++++|..+.+....
T Consensus       129 eeg~~la~~~--~~~f~E~Sak~~~~v~~~F~~L~r~~~~  166 (196)
T KOG0395|consen  129 EEGKALARSW--GCAFIETSAKLNYNVDEVFYELVREIRL  166 (196)
T ss_pred             HHHHHHHHhc--CCcEEEeeccCCcCHHHHHHHHHHHHHh
Confidence            3333332332  4579999999999999999988876554

>COG1084 Predicted GTPase [General function prediction only]

Probab=96.88  E-value=0.0023  Score=53.48  Aligned_cols=100  Identities=20%  Similarity=0.266  Sum_probs=65.3

Q ss_pred             CCcEEEEecCCCeeEEeee-------------eecCceEEEEEeCCCCCCC----cc----CCCCCCCceeEEEEecCCC
Q 029893           73 KADLLLCESGGDNLAANFS-------------RELADYIIYIIDVSGGDKI----PR----KGGPGITQADLLVINKTDL  131 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~~~-------------~~~ad~~v~VvDa~~~~~~----~~----~~~~~~~~adiivlNK~Dl  131 (186)
                      .+-+=+|+|.|+ +..|++             -.+++++++++|+++.-..    +.    .....+..+.++|+||+|+
T Consensus       214 ~~R~QvIDTPGl-LDRPl~ErN~IE~qAi~AL~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~~p~v~V~nK~D~  292 (346)
T COG1084         214 YLRIQVIDTPGL-LDRPLEERNEIERQAILALRHLAGVILFLFDPSETCGYSLEEQISLLEEIKELFKAPIVVVINKIDI  292 (346)
T ss_pred             CceEEEecCCcc-cCCChHHhcHHHHHHHHHHHHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcCCCeEEEEecccc
Confidence            446778999994 223321             1246889999999763211    11    1122355679999999999


Q ss_pred             CCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          132 ASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       132 ~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      .+.  +.+++....+.... ....+..|+..+.+++.+.+.+.+.
T Consensus       293 ~~~--e~~~~~~~~~~~~~-~~~~~~~~~~~~~~~d~~~~~v~~~  334 (346)
T COG1084         293 ADE--EKLEEIEASVLEEG-GEEPLKISATKGCGLDKLREEVRKT  334 (346)
T ss_pred             cch--hHHHHHHHHHHhhc-cccccceeeeehhhHHHHHHHHHHH
Confidence            977  66666665554432 2234677888899999888777665

>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.83  E-value=0.0057  Score=46.94  Aligned_cols=104  Identities=16%  Similarity=0.179  Sum_probs=65.4

Q ss_pred             CCcEEEEecCCCeeEEe---eeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLAAN---FSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~---~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      +..+-+-+..|-.--.+   .++...+.+|+|+|.++.+....         ..+..-..+-++..||-|+..+  -...
T Consensus        60 n~~f~vWDvGGq~k~R~lW~~Y~~~t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~a--ls~~  137 (181)
T KOG0070|consen   60 NISFTVWDVGGQEKLRPLWKHYFQNTQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGA--LSAA  137 (181)
T ss_pred             ceEEEEEecCCCcccccchhhhccCCcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhcccc--CCHH
Confidence            55566666666100011   13445789999999987643221         1122123467888999999876  3444


Q ss_pred             HHHHHH--HhhCC-CCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          141 VMERDA--LRMRD-GGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       141 ~~~~~l--~~~~p-~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ++.+.+  .++.+ .-.+..++|.+|+|+.+-++++.+.+.
T Consensus       138 ei~~~L~l~~l~~~~w~iq~~~a~~G~GL~egl~wl~~~~~  178 (181)
T KOG0070|consen  138 EITNKLGLHSLRSRNWHIQSTCAISGEGLYEGLDWLSNNLK  178 (181)
T ss_pred             HHHhHhhhhccCCCCcEEeeccccccccHHHHHHHHHHHHh
Confidence            444433  22322 347888999999999999999988764

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=96.82  E-value=0.0026  Score=53.09  Aligned_cols=50  Identities=24%  Similarity=0.407  Sum_probs=40.1

Q ss_pred             ceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          120 QADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       120 ~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .+.++|+||+|+.+.  ++++.+.+.     |  ..+++||++|.|+++|.+.|-..+.
T Consensus       240 ~p~l~v~NKiD~~~~--e~~~~l~~~-----~--~~v~isa~~~~nld~L~e~i~~~L~  289 (365)
T COG1163         240 KPALYVVNKIDLPGL--EELERLARK-----P--NSVPISAKKGINLDELKERIWDVLG  289 (365)
T ss_pred             eeeEEEEecccccCH--HHHHHHHhc-----c--ceEEEecccCCCHHHHHHHHHHhhC
Confidence            478999999999986  555544322     2  7899999999999999999887664

>COG1161 Predicted GTPases [General function prediction only]

Probab=96.75  E-value=0.0042  Score=52.14  Aligned_cols=78  Identities=21%  Similarity=0.163  Sum_probs=51.9

Q ss_pred             cCceEEEEEeCCCCCCCccCCC-CC-CCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHH
Q 029893           94 LADYIIYIIDVSGGDKIPRKGG-PG-ITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVN  171 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~~~~~~-~~-~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~  171 (186)
                      ..|+++-|+|+..+........ .. -..+.++|+||.||++.  ...+...+.+.+.+ ....+.+|++++.+...+..
T Consensus        34 ~~d~vvevvDar~P~~s~~~~l~~~v~~k~~i~vlNK~DL~~~--~~~~~W~~~~~~~~-~~~~~~v~~~~~~~~~~i~~  110 (322)
T COG1161          34 SVDVVVEVVDARDPLGTRNPELERIVKEKPKLLVLNKADLAPK--EVTKKWKKYFKKEE-GIKPIFVSAKSRQGGKKIRK  110 (322)
T ss_pred             cCCEEEEEEeccccccccCccHHHHHccCCcEEEEehhhcCCH--HHHHHHHHHHHhcC-CCccEEEEeecccCccchHH
Confidence            3689999999988654322111 11 12355999999999987  55555555555544 34567788888888888875


Q ss_pred             HHH
Q 029893          172 HIL  174 (186)
Q Consensus       172 ~i~  174 (186)
                      .+.
T Consensus       111 ~~~  113 (322)
T COG1161         111 ALE  113 (322)
T ss_pred             HHH
Confidence            444

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=96.75  E-value=0.0051  Score=48.12  Aligned_cols=101  Identities=12%  Similarity=-0.021  Sum_probs=62.1

Q ss_pred             cCCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ....+-+.+|+|..--.   ...+..++.+++++|.++......         ....  ..+.+++.||+|+.+.  ...
T Consensus        56 ~~i~i~~~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~i~lv~nK~Dl~~~--~~~  131 (215)
T PTZ00132         56 GPICFNVWDTAGQEKFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRVCE--NIPIVLVGNKVDVKDR--QVK  131 (215)
T ss_pred             eEEEEEEEECCCchhhhhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCC--CCCEEEEEECccCccc--cCC
Confidence            35667788888821000   111235688999999986432110         0111  2366789999998654  222


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .......+..  ..+++++||++|.|+++.+.++.+.+.
T Consensus       132 ~~~~~~~~~~--~~~~~e~Sa~~~~~v~~~f~~ia~~l~  168 (215)
T PTZ00132        132 ARQITFHRKK--NLQYYDISAKSNYNFEKPFLWLARRLT  168 (215)
T ss_pred             HHHHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHHHHh
Confidence            2222223322  357899999999999999998887654

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=96.69  E-value=0.002  Score=56.59  Aligned_cols=65  Identities=17%  Similarity=0.160  Sum_probs=46.5

Q ss_pred             cCceEEEEEeCCCCCCCc----cCCCC-CC-CceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccC
Q 029893           94 LADYIIYIIDVSGGDKIP----RKGGP-GI-TQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKH  162 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~~----~~~~~-~~-~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~  162 (186)
                      .+|++|.+|||.++.-..    ..|.. .- .++.++++||+||+++  ++.....++.++.|  .++++-||..
T Consensus       174 rSDivvqIVDARnPllfr~~dLe~Yvke~d~~K~~~LLvNKaDLl~~--~qr~aWa~YF~~~n--i~~vf~SA~~  244 (562)
T KOG1424|consen  174 RSDIVVQIVDARNPLLFRSPDLEDYVKEVDPSKANVLLVNKADLLPP--EQRVAWAEYFRQNN--IPVVFFSALA  244 (562)
T ss_pred             hcceEEEEeecCCccccCChhHHHHHhccccccceEEEEehhhcCCH--HHHHHHHHHHHhcC--ceEEEEeccc
Confidence            479999999998864221    12222 22 3688999999999988  66666666666655  7888889876

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

Probab=96.60  E-value=0.0053  Score=48.20  Aligned_cols=105  Identities=14%  Similarity=0.058  Sum_probs=66.0

Q ss_pred             hcCCcEEEEecCCCe--eE-EeeeeecCceEEEEEeCCCCCCCc--cCCCC------CCCceeEEEEecCCCCCcccccH
Q 029893           71 LFKADLLLCESGGDN--LA-ANFSRELADYIIYIIDVSGGDKIP--RKGGP------GITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~--l~-~~~~~~~ad~~v~VvDa~~~~~~~--~~~~~------~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+.+...|=+|+|--  .+ .+..++.|...++|.|.+......  ..|..      .-....++|.||+||...+.-..
T Consensus        60 ~k~vkaqIWDTAGQERyrAitSaYYrgAvGAllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~~lraV~t  139 (222)
T KOG0087|consen   60 GKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLNHLRAVPT  139 (222)
T ss_pred             CcEEEEeeecccchhhhccccchhhcccceeEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhhhccccch
Confidence            456777888999931  11 233457788899999997653321  11111      12457899999999987321111


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ++... ..+.+ .-..++|||+.+.++++.|+.+....
T Consensus       140 e~~k~-~Ae~~-~l~f~EtSAl~~tNVe~aF~~~l~~I  175 (222)
T KOG0087|consen  140 EDGKA-FAEKE-GLFFLETSALDATNVEKAFERVLTEI  175 (222)
T ss_pred             hhhHh-HHHhc-CceEEEecccccccHHHHHHHHHHHH
Confidence            22222 22222 35889999999999999998766533

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=96.59  E-value=0.0089  Score=49.54  Aligned_cols=80  Identities=15%  Similarity=0.180  Sum_probs=51.4

Q ss_pred             ceEEEEEeCCCCCCCccC----CCCCCCce-eEEEEecCCCCCcccccH-HHHHHHHHhh-----CC--CCCEEEEeccC
Q 029893           96 DYIIYIIDVSGGDKIPRK----GGPGITQA-DLLVINKTDLASAIGADL-AVMERDALRM-----RD--GGPFIFAQVKH  162 (186)
Q Consensus        96 d~~v~VvDa~~~~~~~~~----~~~~~~~a-diivlNK~Dl~~~~~~~~-~~~~~~l~~~-----~p--~a~i~~~Sa~~  162 (186)
                      |..|+|+.|.+|...+..    ...|...+ .++++||+|++++  +++ +.++..++.+     +|  ..||+.-||+.
T Consensus       100 DgAILVVsA~dGpmPqTrEHiLlarqvGvp~ivvflnK~Dmvdd--~ellelVemEvreLLs~y~f~gd~~Pii~gSal~  177 (394)
T COG0050         100 DGAILVVAATDGPMPQTREHILLARQVGVPYIVVFLNKVDMVDD--EELLELVEMEVRELLSEYGFPGDDTPIIRGSALK  177 (394)
T ss_pred             CccEEEEEcCCCCCCcchhhhhhhhhcCCcEEEEEEecccccCc--HHHHHHHHHHHHHHHHHcCCCCCCcceeechhhh
Confidence            778999999998765432    34567774 6677999999986  343 3333344433     34  57999999863


Q ss_pred             -CCCHHHHHHHHHHHH
Q 029893          163 -GLGVEEIVNHILQAW  177 (186)
Q Consensus       163 -g~gi~~l~~~i~~~~  177 (186)
                       .+|-..|.+.|.+++
T Consensus       178 ale~~~~~~~~i~eLm  193 (394)
T COG0050         178 ALEGDAKWEAKIEELM  193 (394)
T ss_pred             hhcCCcchHHHHHHHH
Confidence             455544544444433

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

Probab=96.58  E-value=0.028  Score=41.66  Aligned_cols=83  Identities=19%  Similarity=0.141  Sum_probs=50.3

Q ss_pred             ecCceEEEEEeCCCCCCCc--cCC------CCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCC
Q 029893           93 ELADYIIYIIDVSGGDKIP--RKG------GPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGL  164 (186)
Q Consensus        93 ~~ad~~v~VvDa~~~~~~~--~~~------~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~  164 (186)
                      +.+-..+.|.|.+......  ..+      .-.-....+++.||.||.+++....++..+...+ | ..-.++.||+||+
T Consensus        82 rgaagalmvyditrrstynhlsswl~dar~ltnpnt~i~lignkadle~qrdv~yeeak~faee-n-gl~fle~saktg~  159 (215)
T KOG0097|consen   82 RGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLESQRDVTYEEAKEFAEE-N-GLMFLEASAKTGQ  159 (215)
T ss_pred             ccccceeEEEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhhhhcccCcHHHHHHHHhh-c-CeEEEEecccccC
Confidence            4566678899987643211  111      1112335788899999987643333444443333 3 4578899999999


Q ss_pred             CHHHHH-HHHHHHH
Q 029893          165 GVEEIV-NHILQAW  177 (186)
Q Consensus       165 gi~~l~-~~i~~~~  177 (186)
                      ++++-| +...+.+
T Consensus       160 nvedafle~akkiy  173 (215)
T KOG0097|consen  160 NVEDAFLETAKKIY  173 (215)
T ss_pred             cHHHHHHHHHHHHH
Confidence            998765 4444443

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=96.57  E-value=0.0091  Score=44.81  Aligned_cols=74  Identities=22%  Similarity=0.206  Sum_probs=47.0

Q ss_pred             HHHHHHHhcC-CcEEEEEcccC-Cc-----hhHHHHHhcCCCCcCceEeccCCC-cccCCcccccccCcchhHhhhhh-c
Q 029893            2 LALCKFLRDK-YSLAAVTNDIF-TK-----EDGEFLMRNGALPEERIRAVETGG-CPHAAIREDISINLGPLEELSNL-F   72 (186)
Q Consensus         2 ~~~~~~l~~~-~~vaVi~nd~g-~~-----iD~~~i~~~~~~~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l~~l~~~-~   72 (186)
                      .++++.++.+ +|+|+|.++.+ ..     -|..++.+.|.    ..+.+.+|+ ||... +.  . ....+.++... .
T Consensus        17 ~~l~~~l~~~G~~V~viK~~~~~~~~d~~~~D~~~~~~aga----~~v~~~~~~~~~~~~-~~--~-~~~~l~~ll~~~~   88 (155)
T TIGR00176        17 ERLVKALKARGYRVATIKHDHHDFDIDKNGKDSYRHREAGA----DQVIVASSRRYAFMH-ET--Q-EERDLEALLDRLP   88 (155)
T ss_pred             HHHHHHHHhcCCeEEEEecccccccCCCccccHHHHHhCCC----CEEEEecCCeEEEEE-ec--C-CCcCHHHHHhhCC
Confidence            4677777764 89999999876 43     45556766654    456677888 76431 10  0 11234444333 2


Q ss_pred             CCcEEEEecCC
Q 029893           73 KADLLLCESGG   83 (186)
Q Consensus        73 ~~D~iiIEtsG   83 (186)
                      .+|+||||.-+
T Consensus        89 ~~D~vlVEG~k   99 (155)
T TIGR00176        89 DLDIILVEGFK   99 (155)
T ss_pred             CCCEEEECCCC
Confidence            58999999988

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>KOG2484 consensus GTPase [General function prediction only]

Probab=96.56  E-value=0.0034  Score=53.67  Aligned_cols=58  Identities=16%  Similarity=0.033  Sum_probs=42.6

Q ss_pred             cCceEEEEEeCCCCCCCccC----CC--CCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCC
Q 029893           94 LADYIIYIIDVSGGDKIPRK----GG--PGITQADLLVINKTDLASAIGADLAVMERDALRMRDGG  153 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~~~~----~~--~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a  153 (186)
                      .+|+++-|+||..++.....    ..  .+=.+--|+|+||+||++.  +.++....+++..+|..
T Consensus       146 ~sDVVleVlDARDPlgtR~~~vE~~V~~~~gnKkLILVLNK~DLVPr--Ev~e~Wl~YLr~~~ptv  209 (435)
T KOG2484|consen  146 ASDVVLEVLDARDPLGTRCPEVEEAVLQAHGNKKLILVLNKIDLVPR--EVVEKWLVYLRREGPTV  209 (435)
T ss_pred             hhheEEEeeeccCCCCCCChhHHHHHHhccCCceEEEEeehhccCCH--HHHHHHHHHHHhhCCcc
Confidence            46999999999887643211    11  1112457999999999998  78888888898888753

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.54  E-value=0.014  Score=50.78  Aligned_cols=145  Identities=17%  Similarity=0.200  Sum_probs=74.5

Q ss_pred             HHHHHHhc-CCcEEEEEcccC-C-chhHHHH--HhcCCCCcCceEeccCCCcccCCcccccccC-cchhHhhhhhcCCcE
Q 029893            3 ALCKFLRD-KYSLAAVTNDIF-T-KEDGEFL--MRNGALPEERIRAVETGGCPHAAIREDISIN-LGPLEELSNLFKADL   76 (186)
Q Consensus         3 ~~~~~l~~-~~~vaVi~nd~g-~-~iD~~~i--~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~-~~~l~~l~~~~~~D~   76 (186)
                      +++.+++. ++|+++|.-|.. . .++....  .+.++    ++....++.        |.... .+++..+ ...++|+
T Consensus       119 KLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~v----p~~~~~~~~--------dp~~i~~~~l~~~-~~~~~Dv  185 (429)
T TIGR01425       119 KLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARI----PFYGSYTES--------DPVKIASEGVEKF-KKENFDI  185 (429)
T ss_pred             HHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCC----eEEeecCCC--------CHHHHHHHHHHHH-HhCCCCE
Confidence            56666665 489999998876 3 3333211  11122    233322211        11110 1344433 2458999


Q ss_pred             EEEecCCCeeEE-e--------eeeecCceEEEEEeCCCCCCCc---cCCCCCCCceeEEEEecCCCCCcccccHHHHHH
Q 029893           77 LLCESGGDNLAA-N--------FSRELADYIIYIIDVSGGDKIP---RKGGPGITQADLLVINKTDLASAIGADLAVMER  144 (186)
Q Consensus        77 iiIEtsG~~l~~-~--------~~~~~ad~~v~VvDa~~~~~~~---~~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~  144 (186)
                      |||+|+|-.-.. .        ......+-+++|+|++.+....   ..+.. .-..+-+++||.|........+    .
T Consensus       186 ViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~~~a~~F~~-~~~~~g~IlTKlD~~argG~aL----s  260 (429)
T TIGR01425       186 IIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAEAQAKAFKD-SVDVGSVIITKLDGHAKGGGAL----S  260 (429)
T ss_pred             EEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHHHHHHHHHh-ccCCcEEEEECccCCCCccHHh----h
Confidence            999999931100 0        0111236689999998774321   11211 1235889999999865421122    1


Q ss_pred             HHHhhCCCCCEEEEeccCCCCHHHH
Q 029893          145 DALRMRDGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       145 ~l~~~~p~a~i~~~Sa~~g~gi~~l  169 (186)
                      .....  ..||.+++  +|++++++
T Consensus       261 ~~~~t--~~PI~fig--~Ge~v~Dl  281 (429)
T TIGR01425       261 AVAAT--KSPIIFIG--TGEHIDDF  281 (429)
T ss_pred             hHHHH--CCCeEEEc--CCCChhhc
Confidence            11111  34777666  56777665

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.

>cd04169 RF3 RF3 subfamily

Probab=96.52  E-value=0.0048  Score=50.42  Aligned_cols=64  Identities=16%  Similarity=0.107  Sum_probs=41.2

Q ss_pred             hcCCcEEEEecCCCe-eEE-e-eeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCc
Q 029893           71 LFKADLLLCESGGDN-LAA-N-FSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~-l~~-~-~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~  134 (186)
                      ..+..+.|++|+|.. ... . ..+..+|.+++|+|++.+.....    .+......+-++++||+|+...
T Consensus        68 ~~~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvda~~g~~~~~~~i~~~~~~~~~P~iivvNK~D~~~a  138 (267)
T cd04169          68 YRDCVINLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRLRGIPIITFINKLDREGR  138 (267)
T ss_pred             eCCEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCccHHHHHHHHHHHhcCCCEEEEEECCccCCC
Confidence            347889999999931 000 0 11234799999999987643211    1112235678999999998765

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.

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

Probab=96.47  E-value=0.0074  Score=45.60  Aligned_cols=82  Identities=20%  Similarity=0.210  Sum_probs=47.8

Q ss_pred             eEEEEEeCCCCCCCc--cCCCCC------CCceeEEE-EecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHH
Q 029893           97 YIIYIIDVSGGDKIP--RKGGPG------ITQADLLV-INKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVE  167 (186)
Q Consensus        97 ~~v~VvDa~~~~~~~--~~~~~~------~~~adiiv-lNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~  167 (186)
                      ..++++|.++.....  ..+..|      -+.|||++ .||+||.+.+....++..+...+.  ..|+|++||-||.+++
T Consensus        93 GFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~qa~~La~ky--glPYfETSA~tg~Nv~  170 (219)
T KOG0081|consen   93 GFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSEDQAAALADKY--GLPYFETSACTGTNVE  170 (219)
T ss_pred             cceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHHHHHHHHHHh--CCCeeeeccccCcCHH
Confidence            457888887643321  122222      24466654 799999876322222222222222  5799999999999997


Q ss_pred             HHHH----HHHHHHHHh
Q 029893          168 EIVN----HILQAWEAS  180 (186)
Q Consensus       168 ~l~~----~i~~~~~~~  180 (186)
                      +-.+    .+.+..+.+
T Consensus       171 kave~LldlvM~Rie~~  187 (219)
T KOG0081|consen  171 KAVELLLDLVMKRIEQC  187 (219)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            7554    444444444

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

Probab=96.34  E-value=0.0024  Score=47.73  Aligned_cols=101  Identities=18%  Similarity=0.128  Sum_probs=59.6

Q ss_pred             CCcEEEEecCCCe-e--EEeeeeecCceEEEEEeCCCCCCCcc--CCCCC------CCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDN-L--AANFSRELADYIIYIIDVSGGDKIPR--KGGPG------ITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l--~~~~~~~~ad~~v~VvDa~~~~~~~~--~~~~~------~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      +...=|-+|+|-. .  .....++.|+.+++|.|.+..+...-  .+.+.      -+.-.++|.||+|+.+.+ +.-++
T Consensus        55 kiklqiwdtagqerfrsitqsyyrsahalilvydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~drr-evp~q  133 (213)
T KOG0095|consen   55 KIKLQIWDTAGQERFRSITQSYYRSAHALILVYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLADRR-EVPQQ  133 (213)
T ss_pred             EEEEEEeeccchHHHHHHHHHHhhhcceEEEEEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchhhhh-hhhHH
Confidence            4455556666610 0  01123456899999999876443210  11111      123478999999998763 12223


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      ..+...+. ...-.+++||+..++++.||..+..
T Consensus       134 igeefs~~-qdmyfletsakea~nve~lf~~~a~  166 (213)
T KOG0095|consen  134 IGEEFSEA-QDMYFLETSAKEADNVEKLFLDLAC  166 (213)
T ss_pred             HHHHHHHh-hhhhhhhhcccchhhHHHHHHHHHH
Confidence            33333222 2346789999999999999987664

>PRK09602 translation-associated GTPase; Reviewed

Probab=96.29  E-value=0.0042  Score=53.63  Aligned_cols=56  Identities=11%  Similarity=0.100  Sum_probs=40.9

Q ss_pred             CceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHH-HHHHHHHHHHHh
Q 029893          119 TQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEE-IVNHILQAWEAS  180 (186)
Q Consensus       119 ~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~-l~~~i~~~~~~~  180 (186)
                      .+|.++|+||+|+.+.. ..+.    .+.+. +..+++++||+.+.++++ +.+.+.+++|.+
T Consensus       217 ~KPvI~VlNK~D~~~~~-~~l~----~i~~~-~~~~vvpISA~~e~~l~~~l~~~i~~~lp~~  273 (396)
T PRK09602        217 SKPMVIAANKADLPPAE-ENIE----RLKEE-KYYIVVPTSAEAELALRRAAKAGLIDYIPGD  273 (396)
T ss_pred             CCCEEEEEEchhcccch-HHHH----HHHhc-CCCcEEEEcchhhhhHHHHHHHhHHhhCCCC
Confidence            36899999999986431 2222    23333 667899999999999999 777888776654

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=96.20  E-value=0.0083  Score=50.58  Aligned_cols=82  Identities=18%  Similarity=0.255  Sum_probs=51.1

Q ss_pred             ceEEEEEeCCCCCCCccC----CCCCCCcee-EEEEecCCCCCcccccHHHHHHHHHhhC-------CCCCEEEEecc--
Q 029893           96 DYIIYIIDVSGGDKIPRK----GGPGITQAD-LLVINKTDLASAIGADLAVMERDALRMR-------DGGPFIFAQVK--  161 (186)
Q Consensus        96 d~~v~VvDa~~~~~~~~~----~~~~~~~ad-iivlNK~Dl~~~~~~~~~~~~~~l~~~~-------p~a~i~~~Sa~--  161 (186)
                      |..|+||.+++|...+.+    ...|+.... ++.+||.|++++. +.++-++-.+|++.       ...||+.-||+  
T Consensus       142 DGaILVVaatDG~MPQTrEHlLLArQVGV~~ivvfiNKvD~V~d~-e~leLVEmE~RElLse~gf~Gd~~PvI~GSAL~A  220 (449)
T KOG0460|consen  142 DGAILVVAATDGPMPQTREHLLLARQVGVKHIVVFINKVDLVDDP-EMLELVEMEIRELLSEFGFDGDNTPVIRGSALCA  220 (449)
T ss_pred             CceEEEEEcCCCCCcchHHHHHHHHHcCCceEEEEEecccccCCH-HHHHHHHHHHHHHHHHcCCCCCCCCeeecchhhh
Confidence            667999999998765432    345666654 5569999999652 44444444455431       35799998875  


Q ss_pred             -CCCC-------HHHHHHHHHHHHH
Q 029893          162 -HGLG-------VEEIVNHILQAWE  178 (186)
Q Consensus       162 -~g~g-------i~~l~~~i~~~~~  178 (186)
                       .|..       |.+|++.+..+.|
T Consensus       221 Leg~~peig~~aI~kLldavDsyip  245 (449)
T KOG0460|consen  221 LEGRQPEIGLEAIEKLLDAVDSYIP  245 (449)
T ss_pred             hcCCCccccHHHHHHHHHHHhccCC
Confidence             3422       4555555555443

>PRK07560 elongation factor EF-2; Reviewed

Probab=96.18  E-value=0.0095  Score=55.34  Aligned_cols=60  Identities=18%  Similarity=0.140  Sum_probs=37.4

Q ss_pred             CCcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCCCccC-C---CCCCCceeEEEEecCCCC
Q 029893           73 KADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDKIPRK-G---GPGITQADLLVINKTDLA  132 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~~~~~-~---~~~~~~adiivlNK~Dl~  132 (186)
                      ++-+.||+|.|.. ....  .....+|.+++|+|+..+...+.. .   ......+-++++||+|+.
T Consensus        86 ~~~i~liDtPG~~df~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~~~~~~~~~~~iv~iNK~D~~  152 (731)
T PRK07560         86 EYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQALRERVKPVLFINKVDRL  152 (731)
T ss_pred             cEEEEEEcCCCccChHHHHHHHHHhcCEEEEEEECCCCCCccHHHHHHHHHHcCCCeEEEEECchhh
Confidence            4567899999921 0000  012347999999999887543211 1   111234679999999986

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=96.17  E-value=0.0019  Score=51.67  Aligned_cols=59  Identities=20%  Similarity=0.285  Sum_probs=38.9

Q ss_pred             hcCCcEEEEec-CCCeeEEeee---eecCceEEEEEeCCCCCC----CccCCCCCCC-ceeEEEEecCCCC
Q 029893           71 LFKADLLLCES-GGDNLAANFS---RELADYIIYIIDVSGGDK----IPRKGGPGIT-QADLLVINKTDLA  132 (186)
Q Consensus        71 ~~~~D~iiIEt-sG~~l~~~~~---~~~ad~~v~VvDa~~~~~----~~~~~~~~~~-~adiivlNK~Dl~  132 (186)
                      ....|+|+++| +|+   ..|.   .+.+|.+++|+|++...-    ...+...++. ....+|+||+|-.
T Consensus       131 ~~~~e~VivDtEAGi---EHfgRg~~~~vD~vivVvDpS~~sl~taeri~~L~~elg~k~i~~V~NKv~e~  198 (255)
T COG3640         131 LNRYEVVIVDTEAGI---EHFGRGTIEGVDLVIVVVDPSYKSLRTAERIKELAEELGIKRIFVVLNKVDEE  198 (255)
T ss_pred             cccCcEEEEecccch---hhhccccccCCCEEEEEeCCcHHHHHHHHHHHHHHHHhCCceEEEEEeeccch
Confidence            45799999998 552   2332   245799999999876321    1122334455 5788999999954

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

Probab=96.16  E-value=0.0087  Score=46.75  Aligned_cols=101  Identities=21%  Similarity=0.219  Sum_probs=63.3

Q ss_pred             CcEEEEecCCC----eeEEeeeeecCceEEEEEeCCCCCCC---ccCCCCCC-----CceeEEEEecCCCCCcccccH--
Q 029893           74 ADLLLCESGGD----NLAANFSRELADYIIYIIDVSGGDKI---PRKGGPGI-----TQADLLVINKTDLASAIGADL--  139 (186)
Q Consensus        74 ~D~iiIEtsG~----~l~~~~~~~~ad~~v~VvDa~~~~~~---~~~~~~~~-----~~adiivlNK~Dl~~~~~~~~--  139 (186)
                      ...=+=+|+|-    ++ .|+++..+|++++.++..+....   ..+|.+.+     ..+.++|.+|.||.++. ..+  
T Consensus        53 v~L~LwDTAGqedYDrl-RplsY~~tdvfl~cfsv~~p~S~~nv~~kW~pEi~~~cp~vpiiLVGtk~DLr~d~-~~~~~  130 (198)
T KOG0393|consen   53 VELGLWDTAGQEDYDRL-RPLSYPQTDVFLLCFSVVSPESFENVKSKWIPEIKHHCPNVPIILVGTKADLRDDP-STLEK  130 (198)
T ss_pred             EEEeeeecCCCcccccc-cccCCCCCCEEEEEEEcCChhhHHHHHhhhhHHHHhhCCCCCEEEEeehHHhhhCH-HHHHH
Confidence            33445567772    12 36777788999888887665432   22333222     35799999999998541 111  


Q ss_pred             -----------HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          140 -----------AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       140 -----------~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                                 ++.....+++ ....++++||++.+|+.+.|+....+.
T Consensus       131 l~~~~~~~Vt~~~g~~lA~~i-ga~~y~EcSa~tq~~v~~vF~~a~~~~  178 (198)
T KOG0393|consen  131 LQRQGLEPVTYEQGLELAKEI-GAVKYLECSALTQKGVKEVFDEAIRAA  178 (198)
T ss_pred             HHhccCCcccHHHHHHHHHHh-CcceeeeehhhhhCCcHHHHHHHHHHH
Confidence                       1111112222 246899999999999999998665543

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

Probab=96.09  E-value=0.019  Score=43.18  Aligned_cols=81  Identities=19%  Similarity=0.105  Sum_probs=49.5

Q ss_pred             eecCceEEEEEeCCCCCCCcc--CC---CCCC---CceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCC
Q 029893           92 RELADYIIYIIDVSGGDKIPR--KG---GPGI---TQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHG  163 (186)
Q Consensus        92 ~~~ad~~v~VvDa~~~~~~~~--~~---~~~~---~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g  163 (186)
                      ++.|-..++|.|+++.+....  .+   .+.+   ....+++.||.||-+++.....+.....++ | ..-.+++||+||
T Consensus        79 YRGAAGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL~~~R~VtflEAs~FaqE-n-el~flETSa~TG  156 (214)
T KOG0086|consen   79 YRGAAGALLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQE-N-ELMFLETSALTG  156 (214)
T ss_pred             hccccceEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhcChhhhhhHHHHHhhhcc-c-ceeeeeeccccc
Confidence            345677899999988765321  11   1112   235677889999987632222222222222 2 236789999999


Q ss_pred             CCHHHHHHHHH
Q 029893          164 LGVEEIVNHIL  174 (186)
Q Consensus       164 ~gi~~l~~~i~  174 (186)
                      +++++-|-...
T Consensus       157 eNVEEaFl~c~  167 (214)
T KOG0086|consen  157 ENVEEAFLKCA  167 (214)
T ss_pred             ccHHHHHHHHH
Confidence            99999875444

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=96.02  E-value=0.022  Score=47.84  Aligned_cols=148  Identities=20%  Similarity=0.272  Sum_probs=81.7

Q ss_pred             HHHHHHHhcC-CcEEEEEcccC--CchhHHHH--HhcCCCCcCceEeccCCCcccCCcccccccC-cchhHhhhhhcCCc
Q 029893            2 LALCKFLRDK-YSLAAVTNDIF--TKEDGEFL--MRNGALPEERIRAVETGGCPHAAIREDISIN-LGPLEELSNLFKAD   75 (186)
Q Consensus         2 ~~~~~~l~~~-~~vaVi~nd~g--~~iD~~~i--~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~-~~~l~~l~~~~~~D   75 (186)
                      .+++++|... +++-+-..|=-  --++..-+  ++.|+    .++.-..|.        |-.+. ++++..- ..+++|
T Consensus       157 aKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv----~vI~~~~G~--------DpAaVafDAi~~A-kar~~D  223 (340)
T COG0552         157 AKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGV----PVISGKEGA--------DPAAVAFDAIQAA-KARGID  223 (340)
T ss_pred             HHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhCC----eEEccCCCC--------CcHHHHHHHHHHH-HHcCCC
Confidence            4677777765 88888776632  23332222  23344    455433343        22222 2777654 467999


Q ss_pred             EEEEecCCCeeE----------------EeeeeecC-ceEEEEEeCCCCCCCcc--CCCCCCCceeEEEEecCCCCCccc
Q 029893           76 LLLCESGGDNLA----------------ANFSRELA-DYIIYIIDVSGGDKIPR--KGGPGITQADLLVINKTDLASAIG  136 (186)
Q Consensus        76 ~iiIEtsG~~l~----------------~~~~~~~a-d~~v~VvDa~~~~~~~~--~~~~~~~~adiivlNK~Dl~~~~~  136 (186)
                      ++||+|+| ++-                .+.. ..+ +-+++++|++.|.....  +.-...-.=+=++++|.|-... .
T Consensus       224 vvliDTAG-RLhnk~nLM~EL~KI~rV~~k~~-~~ap~e~llvlDAttGqnal~QAk~F~eav~l~GiIlTKlDgtAK-G  300 (340)
T COG0552         224 VVLIDTAG-RLHNKKNLMDELKKIVRVIKKDD-PDAPHEILLVLDATTGQNALSQAKIFNEAVGLDGIILTKLDGTAK-G  300 (340)
T ss_pred             EEEEeCcc-cccCchhHHHHHHHHHHHhcccc-CCCCceEEEEEEcccChhHHHHHHHHHHhcCCceEEEEecccCCC-c
Confidence            99999999 321                1111 112 33677779998864321  1111111137899999994322 2


Q ss_pred             ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHH
Q 029893          137 ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNH  172 (186)
Q Consensus       137 ~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~  172 (186)
                      ..+-.+   ....  ..||.++-  -|+++++|.++
T Consensus       301 G~il~I---~~~l--~~PI~fiG--vGE~~~DL~~F  329 (340)
T COG0552         301 GIILSI---AYEL--GIPIKFIG--VGEGYDDLRPF  329 (340)
T ss_pred             ceeeeH---HHHh--CCCEEEEe--CCCChhhcccc
Confidence            222222   2223  36899887  59999998653

>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=96.00  E-value=0.007  Score=50.39  Aligned_cols=58  Identities=14%  Similarity=0.204  Sum_probs=42.9

Q ss_pred             eeEEEEecCCCCCccc--ccHHHHHHHHHhh-CCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          121 ADLLVINKTDLASAIG--ADLAVMERDALRM-RDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       121 adiivlNK~Dl~~~~~--~~~~~~~~~l~~~-~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      -.+++-||+||+.+..  ++-+++.++++.- ...+||+++||.-+.+++-+.++|.+..|
T Consensus       181 hiiilQNKiDli~e~~A~eq~e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIP  241 (466)
T KOG0466|consen  181 HIIILQNKIDLIKESQALEQHEQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIP  241 (466)
T ss_pred             eEEEEechhhhhhHHHHHHHHHHHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCC
Confidence            4678889999997621  2223344444433 35789999999999999999999998765

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

Probab=95.77  E-value=0.0097  Score=45.84  Aligned_cols=87  Identities=14%  Similarity=0.089  Sum_probs=57.6

Q ss_pred             eeecCceEEEEEeCCCCCCCcc--CC-----CCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCC
Q 029893           91 SRELADYIIYIIDVSGGDKIPR--KG-----GPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHG  163 (186)
Q Consensus        91 ~~~~ad~~v~VvDa~~~~~~~~--~~-----~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g  163 (186)
                      .++.|...|+|+..++......  .+     .+--+.|-++|-||+||+++..-....++...+.++  ...+.+|++..
T Consensus        89 yyrgaqa~vLVFSTTDr~SFea~~~w~~kv~~e~~~IPtV~vqNKIDlveds~~~~~evE~lak~l~--~RlyRtSvked  166 (246)
T KOG4252|consen   89 YYRGAQASVLVFSTTDRYSFEATLEWYNKVQKETERIPTVFVQNKIDLVEDSQMDKGEVEGLAKKLH--KRLYRTSVKED  166 (246)
T ss_pred             HhccccceEEEEecccHHHHHHHHHHHHHHHHHhccCCeEEeeccchhhHhhhcchHHHHHHHHHhh--hhhhhhhhhhh
Confidence            4567788888888766432211  11     011235889999999999873222234444445443  47899999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q 029893          164 LGVEEIVNHILQAWEA  179 (186)
Q Consensus       164 ~gi~~l~~~i~~~~~~  179 (186)
                      .|+...|.++.+.+..
T Consensus       167 ~NV~~vF~YLaeK~~q  182 (246)
T KOG4252|consen  167 FNVMHVFAYLAEKLTQ  182 (246)
T ss_pred             hhhHHHHHHHHHHHHH
Confidence            9999999988765543

>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.67  E-value=0.027  Score=41.76  Aligned_cols=81  Identities=17%  Similarity=0.178  Sum_probs=52.8

Q ss_pred             ceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccHHHHHHHHH--h-hCCCCCEEEEeccCC
Q 029893           96 DYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLAVMERDAL--R-MRDGGPFIFAQVKHG  163 (186)
Q Consensus        96 d~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~--~-~~p~a~i~~~Sa~~g  163 (186)
                      ..+|+|+|+...+...+         ..+++-...-+|+.||-|+.++  -..+++...++  . .+..--+.+++|.+|
T Consensus        86 qglIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A--~~pqei~d~leLe~~r~~~W~vqp~~a~~g  163 (180)
T KOG0071|consen   86 QGLIFVVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDA--MKPQEIQDKLELERIRDRNWYVQPSCALSG  163 (180)
T ss_pred             ceEEEEEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCcccccc--cCHHHHHHHhccccccCCccEeeccccccc
Confidence            45799999877654221         1122223456778899999877  33444444332  1 122346889999999


Q ss_pred             CCHHHHHHHHHHHHH
Q 029893          164 LGVEEIVNHILQAWE  178 (186)
Q Consensus       164 ~gi~~l~~~i~~~~~  178 (186)
                      .|+.+=+.|+....+
T Consensus       164 dgL~eglswlsnn~~  178 (180)
T KOG0071|consen  164 DGLKEGLSWLSNNLK  178 (180)
T ss_pred             hhHHHHHHHHHhhcc
Confidence            999999999887653

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

Probab=95.57  E-value=0.05  Score=41.37  Aligned_cols=114  Identities=21%  Similarity=0.211  Sum_probs=67.7

Q ss_pred             chhHhhhhhcCCcEEEEecCCCe-e-EEe-eeeecCceEEEEEeCCCCCCCc--cCC-------CC-CCCceeEEEEecC
Q 029893           63 GPLEELSNLFKADLLLCESGGDN-L-AAN-FSRELADYIIYIIDVSGGDKIP--RKG-------GP-GITQADLLVINKT  129 (186)
Q Consensus        63 ~~l~~l~~~~~~D~iiIEtsG~~-l-~~~-~~~~~ad~~v~VvDa~~~~~~~--~~~-------~~-~~~~adiivlNK~  129 (186)
                      .-+.++-.......=+=+|+|-. . ..+ ..++.+-.+++|.|.++.....  ..+       .. -.+.--.+|..|+
T Consensus        47 arlie~~pg~riklqlwdtagqerfrsitksyyrnsvgvllvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKs  126 (213)
T KOG0091|consen   47 ARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVGVLLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKS  126 (213)
T ss_pred             HHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccceEEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEecccc
Confidence            33444432345667778899910 0 001 1234456678999998754321  111       11 1222357889999


Q ss_pred             CCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          130 DLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       130 Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ||.+.+.-..++.+...+.  -....++|||++|.|+++-+..+.+...
T Consensus       127 DL~SqRqVt~EEaEklAa~--hgM~FVETSak~g~NVeEAF~mlaqeIf  173 (213)
T KOG0091|consen  127 DLQSQRQVTAEEAEKLAAS--HGMAFVETSAKNGCNVEEAFDMLAQEIF  173 (213)
T ss_pred             chhhhccccHHHHHHHHHh--cCceEEEecccCCCcHHHHHHHHHHHHH
Confidence            9998743333444333333  2468999999999999999988876543

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

Probab=95.47  E-value=0.064  Score=40.38  Aligned_cols=104  Identities=14%  Similarity=0.079  Sum_probs=68.4

Q ss_pred             CCcEEEEecCCCeeE---Ee-eeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccH
Q 029893           73 KADLLLCESGGDNLA---AN-FSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~-~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .-.++|-+|.|+.--   -| ..+..+|..|+|.+..+.+..+         +++...-+.+.+++.||.|+.++.....
T Consensus        59 rE~l~lyDTaGlq~~~~eLprhy~q~aDafVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd~  138 (198)
T KOG3883|consen   59 REQLRLYDTAGLQGGQQELPRHYFQFADAFVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREVDM  138 (198)
T ss_pred             hheEEEeecccccCchhhhhHhHhccCceEEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccchhcCH
Confidence            456788899994210   11 1223479999999987764322         2233345668999999999987732233


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      +....+.++  ...+.++++|.....+-+.|.++...+.
T Consensus       139 d~A~~Wa~r--Ekvkl~eVta~dR~sL~epf~~l~~rl~  175 (198)
T KOG3883|consen  139 DVAQIWAKR--EKVKLWEVTAMDRPSLYEPFTYLASRLH  175 (198)
T ss_pred             HHHHHHHhh--hheeEEEEEeccchhhhhHHHHHHHhcc
Confidence            333333332  2468999999999999999998876443

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.36  E-value=0.047  Score=47.31  Aligned_cols=96  Identities=19%  Similarity=0.230  Sum_probs=53.6

Q ss_pred             chhHhhhhhcCCcEEEEecCCCeeEEe---------eeeecCceEEEEEeCCCCCCC----ccCCCCCCCceeEEEEecC
Q 029893           63 GPLEELSNLFKADLLLCESGGDNLAAN---------FSRELADYIIYIIDVSGGDKI----PRKGGPGITQADLLVINKT  129 (186)
Q Consensus        63 ~~l~~l~~~~~~D~iiIEtsG~~l~~~---------~~~~~ad~~v~VvDa~~~~~~----~~~~~~~~~~adiivlNK~  129 (186)
                      +++..+.+..++|+|||+|+|-+....         ......+-+++|+|++.....    ...|..  ...+-++++|.
T Consensus       310 ~aL~~lk~~~~~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~~d~~~i~~~F~~--~~idglI~TKL  387 (436)
T PRK11889        310 RALTYFKEEARVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNFKD--IHIDGIVFTKF  387 (436)
T ss_pred             HHHHHHHhccCCCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccChHHHHHHHHHhcC--CCCCEEEEEcc
Confidence            455444323479999999999321100         000112557888998654321    111221  23588999999


Q ss_pred             CCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHH
Q 029893          130 DLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEE  168 (186)
Q Consensus       130 Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~  168 (186)
                      |-....    -.+.......  ..||.+++  +|+++.+
T Consensus       388 DET~k~----G~iLni~~~~--~lPIsyit--~GQ~VPe  418 (436)
T PRK11889        388 DETASS----GELLKIPAVS--SAPIVLMT--DGQDVKK  418 (436)
T ss_pred             cCCCCc----cHHHHHHHHH--CcCEEEEe--CCCCCCc
Confidence            987542    2233333332  35888877  6887754

>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]

Probab=95.22  E-value=0.2  Score=38.94  Aligned_cols=86  Identities=12%  Similarity=0.054  Sum_probs=57.4

Q ss_pred             eeecCceEEEEEeCCCCCCCc--c----------CCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEE
Q 029893           91 SRELADYIIYIIDVSGGDKIP--R----------KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFA  158 (186)
Q Consensus        91 ~~~~ad~~v~VvDa~~~~~~~--~----------~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~  158 (186)
                      .+..++....|+|.++.....  .          ..+..--.|.+++-||+|.-.....+-.+........|..+..++|
T Consensus        95 yykea~~~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~~~~~~~~d~f~kengf~gwtet  174 (229)
T KOG4423|consen   95 YYKEAHGAFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAKNEATRQFDNFKKENGFEGWTET  174 (229)
T ss_pred             EecCCcceEEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccChHhhhhhHHHHHHHHhccCccceeee
Confidence            345677788899987753321  0          1111223478999999998765221212334445556788999999


Q ss_pred             eccCCCCHHHHHHHHHHH
Q 029893          159 QVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       159 Sa~~g~gi~~l~~~i~~~  176 (186)
                      |+|...+++|..+.+.+.
T Consensus       175 s~Kenkni~Ea~r~lVe~  192 (229)
T KOG4423|consen  175 SAKENKNIPEAQRELVEK  192 (229)
T ss_pred             ccccccChhHHHHHHHHH
Confidence            999999999998877654

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=95.19  E-value=0.017  Score=45.08  Aligned_cols=145  Identities=17%  Similarity=0.187  Sum_probs=74.3

Q ss_pred             HHHHHHhc-CCcEEEEEcccC-CchhHHH---HHhcCCCCcCceEeccCCCcccCCcccccccCc-chhHhhhhhcCCcE
Q 029893            3 ALCKFLRD-KYSLAAVTNDIF-TKEDGEF---LMRNGALPEERIRAVETGGCPHAAIREDISINL-GPLEELSNLFKADL   76 (186)
Q Consensus         3 ~~~~~l~~-~~~vaVi~nd~g-~~iD~~~---i~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~-~~l~~l~~~~~~D~   76 (186)
                      +++.++.. ++|+++|.-|.. .+--.++   -+..++    ++....+        .+|-...+ +++... ...++|+
T Consensus        20 KLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~v----p~~~~~~--------~~~~~~~~~~~l~~~-~~~~~D~   86 (196)
T PF00448_consen   20 KLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILGV----PFYVART--------ESDPAEIAREALEKF-RKKGYDL   86 (196)
T ss_dssp             HHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTE----EEEESST--------TSCHHHHHHHHHHHH-HHTTSSE
T ss_pred             HHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhcc----ccchhhc--------chhhHHHHHHHHHHH-hhcCCCE
Confidence            56666654 599999999987 6433232   122233    2333211        11111111 334333 3568999


Q ss_pred             EEEecCCCeeEEe--------e-eeecCceEEEEEeCCCCCCCccC---CCCCCCceeEEEEecCCCCCcccccHHHHHH
Q 029893           77 LLCESGGDNLAAN--------F-SRELADYIIYIIDVSGGDKIPRK---GGPGITQADLLVINKTDLASAIGADLAVMER  144 (186)
Q Consensus        77 iiIEtsG~~l~~~--------~-~~~~ad~~v~VvDa~~~~~~~~~---~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~  144 (186)
                      |||+|+|.+-..+        + .....+-+++|+|++.+.+....   +...+ ..+-++++|.|-...    .-.+..
T Consensus        87 vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~~~~~~~~~~~~-~~~~lIlTKlDet~~----~G~~l~  161 (196)
T PF00448_consen   87 VLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQEDLEQALAFYEAF-GIDGLILTKLDETAR----LGALLS  161 (196)
T ss_dssp             EEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHHHHHHHHHHHHS-STCEEEEESTTSSST----THHHHH
T ss_pred             EEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChHHHHHHHHHhhcc-cCceEEEEeecCCCC----ccccee
Confidence            9999999321100        0 00123567899999876432111   10111 136788999998755    233444


Q ss_pred             HHHhhCCCCCEEEEeccCCCCHHHH
Q 029893          145 DALRMRDGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       145 ~l~~~~p~a~i~~~Sa~~g~gi~~l  169 (186)
                      .+.+.  ..|+-++|  +|+++++|
T Consensus       162 ~~~~~--~~Pi~~it--~Gq~V~Dl  182 (196)
T PF00448_consen  162 LAYES--GLPISYIT--TGQRVDDL  182 (196)
T ss_dssp             HHHHH--TSEEEEEE--SSSSTTGE
T ss_pred             HHHHh--CCCeEEEE--CCCChhcC
Confidence            44333  35888877  68887554

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>KOG2423 consensus Nucleolar GTPase [General function prediction only]

Probab=95.04  E-value=0.11  Score=44.79  Aligned_cols=85  Identities=16%  Similarity=0.135  Sum_probs=52.1

Q ss_pred             cCceEEEEEeCCCCCCCccCCC------CCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHH
Q 029893           94 LADYIIYIIDVSGGDKIPRKGG------PGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVE  167 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~~~~~~------~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~  167 (186)
                      .+|++|-|+||.++....-.+.      +.-.+--+.|+||+||++.  -........+.+.+|.... -.|-.+..|-.
T Consensus       213 SSDVvvqVlDARDPmGTrc~~ve~ylkke~phKHli~vLNKvDLVPt--wvt~~Wv~~lSkeyPTiAf-HAsi~nsfGKg  289 (572)
T KOG2423|consen  213 SSDVVVQVLDARDPMGTRCKHVEEYLKKEKPHKHLIYVLNKVDLVPT--WVTAKWVRHLSKEYPTIAF-HASINNSFGKG  289 (572)
T ss_pred             ccceeEEeeeccCCcccccHHHHHHHhhcCCcceeEEEeeccccccH--HHHHHHHHHHhhhCcceee-ehhhcCccchh
Confidence            4699999999988654332211      1123457899999999986  3334444455555664332 23444566777


Q ss_pred             HHHHHHHHHHHHhh
Q 029893          168 EIVNHILQAWEAST  181 (186)
Q Consensus       168 ~l~~~i~~~~~~~~  181 (186)
                      .|++.+.+...-..
T Consensus       290 alI~llRQf~kLh~  303 (572)
T KOG2423|consen  290 ALIQLLRQFAKLHS  303 (572)
T ss_pred             HHHHHHHHHHhhcc
Confidence            88887776655443

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

Probab=94.90  E-value=0.061  Score=41.72  Aligned_cols=107  Identities=20%  Similarity=0.130  Sum_probs=62.8

Q ss_pred             CCcEEEEecCCCe-e--EEeeeeecCceEEEEEeCCCCCCCc---cCCC----CC--CCceeEEEEecCCCCCcccc---
Q 029893           73 KADLLLCESGGDN-L--AANFSRELADYIIYIIDVSGGDKIP---RKGG----PG--ITQADLLVINKTDLASAIGA---  137 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l--~~~~~~~~ad~~v~VvDa~~~~~~~---~~~~----~~--~~~adiivlNK~Dl~~~~~~---  137 (186)
                      .++..+++|.|-. .  ..+..+..++.+++++|........   ..+.    ..  -..+-+++.||+|+......   
T Consensus        53 ~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~~~~~  132 (219)
T COG1100          53 NIKLQLWDTAGQEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEE  132 (219)
T ss_pred             EEEEEeecCCCHHHHHHHHHHHhcCCCEEEEEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccchhHHHH
Confidence            5668888999921 0  1122345678889999887632211   1110    11  23688999999999876210   


Q ss_pred             ---------cHHHHHHHHHhh-CCCCCEEEEecc--CCCCHHHHHHHHHHHHHH
Q 029893          138 ---------DLAVMERDALRM-RDGGPFIFAQVK--HGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       138 ---------~~~~~~~~l~~~-~p~a~i~~~Sa~--~g~gi~~l~~~i~~~~~~  179 (186)
                               ............ ......+.+|++  ++.++.+++.........
T Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~v~~~~~~~~~~~~~  186 (219)
T COG1100         133 ILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKELLRKLLE  186 (219)
T ss_pred             HHhhhhcCcchhhhHhHHhhhhhcccceeEeecccCCCcCHHHHHHHHHHHHHH
Confidence                     011111111111 112238999999  999999999888776643

>PRK10867 signal recognition particle protein; Provisional

Probab=94.85  E-value=0.11  Score=45.42  Aligned_cols=145  Identities=16%  Similarity=0.206  Sum_probs=73.2

Q ss_pred             HHHHHHhc--CCcEEEEEcccC-Cc-hhHH--HHHhcCCCCcCceEeccCCCcccCCcccccccCc-chhHhhhhhcCCc
Q 029893            3 ALCKFLRD--KYSLAAVTNDIF-TK-EDGE--FLMRNGALPEERIRAVETGGCPHAAIREDISINL-GPLEELSNLFKAD   75 (186)
Q Consensus         3 ~~~~~l~~--~~~vaVi~nd~g-~~-iD~~--~i~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~-~~l~~l~~~~~~D   75 (186)
                      +++.++..  ++++++|.-|.- .. ++.-  +-.+.++    ++.....+..+        .... +++ ......++|
T Consensus       119 kLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~gv----~v~~~~~~~dp--------~~i~~~a~-~~a~~~~~D  185 (433)
T PRK10867        119 KLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGV----PVFPSGDGQDP--------VDIAKAAL-EEAKENGYD  185 (433)
T ss_pred             HHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhcCC----eEEecCCCCCH--------HHHHHHHH-HHHHhcCCC
Confidence            45665553  589999999976 32 3222  1223333    34443222222        1111 223 233356899


Q ss_pred             EEEEecCCCe-eEEee--------eeecCceEEEEEeCCCCCCCcc---CCCCCCCceeEEEEecCCCCCcccccHHHHH
Q 029893           76 LLLCESGGDN-LAANF--------SRELADYIIYIIDVSGGDKIPR---KGGPGITQADLLVINKTDLASAIGADLAVME  143 (186)
Q Consensus        76 ~iiIEtsG~~-l~~~~--------~~~~ad~~v~VvDa~~~~~~~~---~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~  143 (186)
                      +|||+|+|-. .....        .....+-+++|+|+..+.+...   .+...+. -+-+|+||.|-.... ..   +.
T Consensus       186 vVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~gq~av~~a~~F~~~~~-i~giIlTKlD~~~rg-G~---al  260 (433)
T PRK10867        186 VVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTGQDAVNTAKAFNEALG-LTGVILTKLDGDARG-GA---AL  260 (433)
T ss_pred             EEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccHHHHHHHHHHHHhhCC-CCEEEEeCccCcccc-cH---HH
Confidence            9999999921 10000        0001255799999876533211   1111121 357888999965431 11   22


Q ss_pred             HHHHhhCCCCCEEEEeccCCCCHHHH
Q 029893          144 RDALRMRDGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       144 ~~l~~~~p~a~i~~~Sa~~g~gi~~l  169 (186)
                      ......  ..||.+++  +|+++++|
T Consensus       261 si~~~~--~~PI~fig--~Ge~v~DL  282 (433)
T PRK10867        261 SIRAVT--GKPIKFIG--TGEKLDDL  282 (433)
T ss_pred             HHHHHH--CcCEEEEe--CCCccccC
Confidence            222222  35888777  47766655

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=94.78  E-value=0.024  Score=53.51  Aligned_cols=57  Identities=19%  Similarity=0.276  Sum_probs=36.5

Q ss_pred             EEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCC
Q 029893           76 LLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLA  132 (186)
Q Consensus        76 ~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~  132 (186)
                      +=||+|+|-. ....  .....+|..++|+|+.+|...+..    .......+-++++||+|+.
T Consensus       100 inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~~~~~~~~~p~i~~iNK~D~~  163 (843)
T PLN00116        100 INLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVLRQALGERIRPVLTVNKMDRC  163 (843)
T ss_pred             EEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHHHHHHHHCCCCEEEEEECCccc
Confidence            4589999920 0000  112357999999999988654321    1122345789999999998

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=94.60  E-value=0.13  Score=38.63  Aligned_cols=118  Identities=13%  Similarity=0.169  Sum_probs=60.9

Q ss_pred             HHHHHHhc-CCcEEEEEcccC-CchhHHHHH---hcCCCCcCceEeccCCCcccCCcccccccCc-chhHhhhhhcCCcE
Q 029893            3 ALCKFLRD-KYSLAAVTNDIF-TKEDGEFLM---RNGALPEERIRAVETGGCPHAAIREDISINL-GPLEELSNLFKADL   76 (186)
Q Consensus         3 ~~~~~l~~-~~~vaVi~nd~g-~~iD~~~i~---~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~-~~l~~l~~~~~~D~   76 (186)
                      +++..+.+ ++++++|-.|+. .....++..   +.+.    ++.....  -.      |....+ +.+... ...++|+
T Consensus        19 ~la~~~~~~g~~v~~i~~D~~~~~~~~~l~~~~~~~~~----~~~~~~~--~~------~~~~~~~~~~~~~-~~~~~d~   85 (173)
T cd03115          19 KLALYLKKKGKKVLLVAADTYRPAAIEQLRVLGEQVGV----PVFEEGE--GK------DPVSIAKRAIEHA-REENFDV   85 (173)
T ss_pred             HHHHHHHHCCCcEEEEEcCCCChHHHHHHHHhcccCCe----EEEecCC--CC------CHHHHHHHHHHHH-HhCCCCE
Confidence            44555554 489999999987 333333321   1121    2222111  11      112111 223332 2468999


Q ss_pred             EEEecCCCe-eEEee--------eeecCceEEEEEeCCCCCCCcc---CCCCCCCceeEEEEecCCCCCc
Q 029893           77 LLCESGGDN-LAANF--------SRELADYIIYIIDVSGGDKIPR---KGGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        77 iiIEtsG~~-l~~~~--------~~~~ad~~v~VvDa~~~~~~~~---~~~~~~~~adiivlNK~Dl~~~  134 (186)
                      |||+|.|.. .....        .....+.+++|+|+....+...   .+..... .+-+++||.|....
T Consensus        86 viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~~~~~~~~~~~~~~~-~~~viltk~D~~~~  154 (173)
T cd03115          86 VIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQDAVNQAKAFNEALG-ITGVILTKLDGDAR  154 (173)
T ss_pred             EEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCChHHHHHHHHHHhhCC-CCEEEEECCcCCCC
Confidence            999999932 10010        0112577899999865432211   1112223 47889999998765

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=94.50  E-value=0.12  Score=39.84  Aligned_cols=104  Identities=9%  Similarity=0.075  Sum_probs=61.9

Q ss_pred             cCCcEEEEecCCCeeE-E-e------------eeeecCceEEEEEeCCCCCCCcc--------CCCCCCCceeEEEEecC
Q 029893           72 FKADLLLCESGGDNLA-A-N------------FSRELADYIIYIIDVSGGDKIPR--------KGGPGITQADLLVINKT  129 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~-~-~------------~~~~~ad~~v~VvDa~~~~~~~~--------~~~~~~~~adiivlNK~  129 (186)
                      .+..+.+|+|+|..-. . .            ......|++++|+|+.+......        .+...+-..-++|+||+
T Consensus        47 ~~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~~~~g~~~illVi~~~~~t~~d~~~l~~l~~~fg~~~~~~~ivv~T~~  126 (196)
T cd01852          47 DGRRVNVIDTPGLFDTSVSPEQLSKEIVRCLSLSAPGPHAFLLVVPLGRFTEEEEQAVETLQELFGEKVLDHTIVLFTRG  126 (196)
T ss_pred             CCeEEEEEECcCCCCccCChHHHHHHHHHHHHhcCCCCEEEEEEEECCCcCHHHHHHHHHHHHHhChHhHhcEEEEEECc
Confidence            4668999999995210 0 0            01224588999999876321111        11222234678999999


Q ss_pred             CCCCcccccHHH--------HHHHHHhhCCCCCEEEEe-----ccCCCCHHHHHHHHHHHHHH
Q 029893          130 DLASAIGADLAV--------MERDALRMRDGGPFIFAQ-----VKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       130 Dl~~~~~~~~~~--------~~~~l~~~~p~a~i~~~S-----a~~g~gi~~l~~~i~~~~~~  179 (186)
                      |....  ..+++        +...+++-.  ..++..+     +..+.++++|++.+.+..++
T Consensus       127 d~l~~--~~~~~~~~~~~~~l~~l~~~c~--~r~~~f~~~~~~~~~~~q~~~Ll~~i~~~~~~  185 (196)
T cd01852         127 DDLEG--GTLEDYLENSCEALKRLLEKCG--GRYVAFNNKAKGEEQEQQVKELLAKVESMVKE  185 (196)
T ss_pred             cccCC--CcHHHHHHhccHHHHHHHHHhC--CeEEEEeCCCCcchhHHHHHHHHHHHHHHHHh
Confidence            98765  22222        222333322  2343443     56789999999999998886

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).

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.49  E-value=0.21  Score=43.09  Aligned_cols=146  Identities=15%  Similarity=0.143  Sum_probs=71.3

Q ss_pred             HHHHHHh-cCCcEEEEEcccC-CchhHHHHHhcCCCCcCceEeccCCCcccCCcccccccCcchhHhhhhhcCCcEEEEe
Q 029893            3 ALCKFLR-DKYSLAAVTNDIF-TKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCE   80 (186)
Q Consensus         3 ~~~~~l~-~~~~vaVi~nd~g-~~iD~~~i~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~~~l~~l~~~~~~D~iiIE   80 (186)
                      +++..+. .++++++|.-|.. ++--.++-...... .-++...      +     |-....+++..+....++|+|||+
T Consensus       225 kLA~~l~~~g~~V~lItaDtyR~gAveQLk~yae~l-gvpv~~~------~-----dp~dL~~al~~l~~~~~~D~VLID  292 (407)
T PRK12726        225 KLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYADKL-DVELIVA------T-----SPAELEEAVQYMTYVNCVDHILID  292 (407)
T ss_pred             HHHHHHHHcCCeEEEEeCCccCccHHHHHHHHhhcC-CCCEEec------C-----CHHHHHHHHHHHHhcCCCCEEEEE
Confidence            4455454 3589999999977 43221222111110 0012211      1     111112455544323579999999


Q ss_pred             cCCCeeEEe--------e-eeecCceEEEEEeCCCCCCCccCCCCCC--CceeEEEEecCCCCCcccccHHHHHHHHHhh
Q 029893           81 SGGDNLAAN--------F-SRELADYIIYIIDVSGGDKIPRKGGPGI--TQADLLVINKTDLASAIGADLAVMERDALRM  149 (186)
Q Consensus        81 tsG~~l~~~--------~-~~~~ad~~v~VvDa~~~~~~~~~~~~~~--~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~  149 (186)
                      |+|-.-...        + .....+.+++|+++.............+  -..+-+++||.|-....    -.+.......
T Consensus       293 TAGr~~~d~~~l~EL~~l~~~~~p~~~~LVLsag~~~~d~~~i~~~f~~l~i~glI~TKLDET~~~----G~~Lsv~~~t  368 (407)
T PRK12726        293 TVGRNYLAEESVSEISAYTDVVHPDLTCFTFSSGMKSADVMTILPKLAEIPIDGFIITKMDETTRI----GDLYTVMQET  368 (407)
T ss_pred             CCCCCccCHHHHHHHHHHhhccCCceEEEECCCcccHHHHHHHHHhcCcCCCCEEEEEcccCCCCc----cHHHHHHHHH
Confidence            999311000        0 0001255667777644321111111111  12578999999976542    2233333332


Q ss_pred             CCCCCEEEEeccCCCCHHH
Q 029893          150 RDGGPFIFAQVKHGLGVEE  168 (186)
Q Consensus       150 ~p~a~i~~~Sa~~g~gi~~  168 (186)
                        ..|+.++|  +|+++.+
T Consensus       369 --glPIsylt--~GQ~Vpd  383 (407)
T PRK12726        369 --NLPVLYMT--DGQNITE  383 (407)
T ss_pred             --CCCEEEEe--cCCCCCc
Confidence              35888887  6888875

>PTZ00416 elongation factor 2; Provisional

Probab=94.47  E-value=0.042  Score=51.88  Aligned_cols=60  Identities=20%  Similarity=0.201  Sum_probs=39.0

Q ss_pred             CCcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCC
Q 029893           73 KADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLA  132 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~  132 (186)
                      +.-+.||+|+|.. ....  .....+|.+++|+|+..+...+..    .......+-++++||+|+.
T Consensus        91 ~~~i~liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~~~~~~~~~~~~p~iv~iNK~D~~  157 (836)
T PTZ00416         91 PFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTETVLRQALQERIRPVLFINKVDRA  157 (836)
T ss_pred             ceEEEEEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHHHHHHHHHHcCCCEEEEEEChhhh
Confidence            4557899999931 0000  122457999999999987554321    1112345889999999997

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

Probab=94.29  E-value=0.027  Score=43.92  Aligned_cols=63  Identities=19%  Similarity=0.139  Sum_probs=38.7

Q ss_pred             cCCcEEEEecCCCe-eEE--eeeeecC-ceEEEEEeCCCCCC-Ccc--CC-------CC--CCCceeEEEEecCCCCCc
Q 029893           72 FKADLLLCESGGDN-LAA--NFSRELA-DYIIYIIDVSGGDK-IPR--KG-------GP--GITQADLLVINKTDLASA  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~--~~~~~~a-d~~v~VvDa~~~~~-~~~--~~-------~~--~~~~adiivlNK~Dl~~~  134 (186)
                      .+..+.+++++|-. +..  ...+..+ +.+|+|+|+..... ...  .+       ..  .-..+.+++.||+|+...
T Consensus        46 ~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a  124 (203)
T cd04105          46 KGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTA  124 (203)
T ss_pred             CCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEEECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhccc
Confidence            35678999999931 111  1112345 89999999988621 110  00       00  124588999999999765

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

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=94.22  E-value=0.13  Score=45.05  Aligned_cols=88  Identities=17%  Similarity=0.286  Sum_probs=49.8

Q ss_pred             CCcEEEEecCCCeeEE-e-------e-eeecCceEEEEEeCCCCCCCcc---CCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLAA-N-------F-SRELADYIIYIIDVSGGDKIPR---KGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~-~-------~-~~~~ad~~v~VvDa~~~~~~~~---~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ..|+|||+|+|-.-.. .       + .....|.+++|+|++.+.+...   .+...+ ..+-+|+||.|-....    -
T Consensus       175 ~~DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~gq~av~~a~~F~~~l-~i~gvIlTKlD~~a~~----G  249 (437)
T PRK00771        175 KADVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQQAKNQAKAFHEAV-GIGGIIITKLDGTAKG----G  249 (437)
T ss_pred             cCCEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEeccccHHHHHHHHHHHhcC-CCCEEEEecccCCCcc----c
Confidence            4699999999921100 0       0 0112477899999987643211   111111 1367899999975442    2


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l  169 (186)
                      .+.......  ..||.+++  +|+.+++|
T Consensus       250 ~~ls~~~~~--~~Pi~fig--~Ge~v~Dl  274 (437)
T PRK00771        250 GALSAVAET--GAPIKFIG--TGEKIDDL  274 (437)
T ss_pred             HHHHHHHHH--CcCEEEEe--cCCCcccC
Confidence            222222222  35888887  57777665

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=93.91  E-value=0.067  Score=49.43  Aligned_cols=60  Identities=18%  Similarity=0.232  Sum_probs=41.6

Q ss_pred             CcEEEEecCCCeeEEee----eeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCc
Q 029893           74 ADLLLCESGGDNLAANF----SRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        74 ~D~iiIEtsG~~l~~~~----~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~  134 (186)
                      +.+=||+|+| .+.-+.    +.+..|..|+|+|+.+|-..+..    .......+-++++||+|.+..
T Consensus        76 ~~iNlIDTPG-HVDFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~rqa~~~~vp~i~fiNKmDR~~a  143 (697)
T COG0480          76 YRINLIDTPG-HVDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQADKYGVPRILFVNKMDRLGA  143 (697)
T ss_pred             eEEEEeCCCC-ccccHHHHHHHHHhhcceEEEEECCCCeeecHHHHHHHHhhcCCCeEEEEECcccccc
Confidence            7778999999 432221    12235999999999998654432    222345589999999999875

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=93.79  E-value=0.064  Score=48.92  Aligned_cols=86  Identities=14%  Similarity=0.152  Sum_probs=51.9

Q ss_pred             cEEEEecCCCeeEEee--ee----ecCceEEEEEeCCCCCCCccC-----CCCCCCceeEEEEecCCCCCcccccHHHHH
Q 029893           75 DLLLCESGGDNLAANF--SR----ELADYIIYIIDVSGGDKIPRK-----GGPGITQADLLVINKTDLASAIGADLAVME  143 (186)
Q Consensus        75 D~iiIEtsG~~l~~~~--~~----~~ad~~v~VvDa~~~~~~~~~-----~~~~~~~adiivlNK~Dl~~~~~~~~~~~~  143 (186)
                      |.++|+..|+.+....  ++    ..+|++|+|+.+.+......+     .... +.-.+|+.||||.....++..+.+.
T Consensus       207 DivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~sek~Ff~~vs~~-KpniFIlnnkwDasase~ec~e~V~  285 (749)
T KOG0448|consen  207 DIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSEKQFFHKVSEE-KPNIFILNNKWDASASEPECKEDVL  285 (749)
T ss_pred             cceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHHHHHHHHhhcc-CCcEEEEechhhhhcccHHHHHHHH
Confidence            8899999996543221  11    247999999988764432111     1111 2235677889998755334445555


Q ss_pred             HHHHhhCC------CCCEEEEecc
Q 029893          144 RDALRMRD------GGPFIFAQVK  161 (186)
Q Consensus       144 ~~l~~~~p------~a~i~~~Sa~  161 (186)
                      .+++++.|      .-.|+++||+
T Consensus       286 ~Qi~eL~v~~~~eA~DrvfFVS~~  309 (749)
T KOG0448|consen  286 KQIHELSVVTEKEAADRVFFVSAK  309 (749)
T ss_pred             HHHHhcCcccHhhhcCeeEEEecc
Confidence            55555543      2388999954

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=93.76  E-value=0.57  Score=40.87  Aligned_cols=145  Identities=19%  Similarity=0.230  Sum_probs=80.3

Q ss_pred             HHHHHHHhcC-CcEEEEEcccC--CchhHHHH--HhcCCCCcCceEeccCCCcc-cCCcccccccCcchhHhhhhhcCCc
Q 029893            2 LALCKFLRDK-YSLAAVTNDIF--TKEDGEFL--MRNGALPEERIRAVETGGCP-HAAIREDISINLGPLEELSNLFKAD   75 (186)
Q Consensus         2 ~~~~~~l~~~-~~vaVi~nd~g--~~iD~~~i--~~~~~~~~~~~~~l~~Gccc-~l~~r~d~~~~~~~l~~l~~~~~~D   75 (186)
                      .+|+++|+++ +|++++.-|..  --+|....  .+.++    ++....++--+ ..        .-.++... ....+|
T Consensus       118 ~KLA~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v----~~f~~~~~~~Pv~I--------ak~al~~a-k~~~~D  184 (451)
T COG0541         118 GKLAKYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGV----PFFGSGTEKDPVEI--------AKAALEKA-KEEGYD  184 (451)
T ss_pred             HHHHHHHHHcCCceEEEecccCChHHHHHHHHHHHHcCC----ceecCCCCCCHHHH--------HHHHHHHH-HHcCCC
Confidence            3678888875 99999999987  35664432  33344    45554333222 11        01455443 356899


Q ss_pred             EEEEecCCCeeE--Eee-----ee---ecCceEEEEEeCCCCCCCcc---CCCCCCCceeEEEEecCCCCCcccccHHHH
Q 029893           76 LLLCESGGDNLA--ANF-----SR---ELADYIIYIIDVSGGDKIPR---KGGPGITQADLLVINKTDLASAIGADLAVM  142 (186)
Q Consensus        76 ~iiIEtsG~~l~--~~~-----~~---~~ad~~v~VvDa~~~~~~~~---~~~~~~~~adiivlNK~Dl~~~~~~~~~~~  142 (186)
                      +|||+|+| ++.  ...     .+   -.-|=+++|+|+..|.+...   .|.+.+.. .=++++|.|--......+   
T Consensus       185 vvIvDTAG-Rl~ide~Lm~El~~Ik~~~~P~E~llVvDam~GQdA~~~A~aF~e~l~i-tGvIlTKlDGdaRGGaAL---  259 (451)
T COG0541         185 VVIVDTAG-RLHIDEELMDELKEIKEVINPDETLLVVDAMIGQDAVNTAKAFNEALGI-TGVILTKLDGDARGGAAL---  259 (451)
T ss_pred             EEEEeCCC-cccccHHHHHHHHHHHhhcCCCeEEEEEecccchHHHHHHHHHhhhcCC-ceEEEEcccCCCcchHHH---
Confidence            99999999 332  111     00   01256899999998865321   12222222 346899999643311111   


Q ss_pred             HHHHHhhCCCCCEEEEeccCCCCHHHH
Q 029893          143 ERDALRMRDGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       143 ~~~l~~~~p~a~i~~~Sa~~g~gi~~l  169 (186)
                       . ++.. -..||-++.  +|+.+++|
T Consensus       260 -S-~~~~-tg~PIkFiG--tGEki~dL  281 (451)
T COG0541         260 -S-ARAI-TGKPIKFIG--TGEKIDDL  281 (451)
T ss_pred             -h-hHHH-HCCCeEEEe--cCCCcccC
Confidence             1 1222 246787776  56655543

>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]

Probab=93.36  E-value=0.35  Score=43.80  Aligned_cols=62  Identities=19%  Similarity=0.206  Sum_probs=44.4

Q ss_pred             cCCcEEEEecCCCeeEEeeeeecC----ceEEEEEeCCCCCCCccC-CCCC---CCceeEEEEecCCCCCc
Q 029893           72 FKADLLLCESGGDNLAANFSRELA----DYIIYIIDVSGGDKIPRK-GGPG---ITQADLLVINKTDLASA  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~~~~~~a----d~~v~VvDa~~~~~~~~~-~~~~---~~~adiivlNK~Dl~~~  134 (186)
                      +.+-.-+|+|+| .+.-++..+.|    |..|+|+|+..|-+.+.. .-.|   ...|-+..+||.|.+..
T Consensus       102 ~~~~iNiIDTPG-HvDFT~EVeRALrVlDGaVlvl~aV~GVqsQt~tV~rQ~~ry~vP~i~FiNKmDRmGa  171 (721)
T KOG0465|consen  102 RDYRINIIDTPG-HVDFTFEVERALRVLDGAVLVLDAVAGVESQTETVWRQMKRYNVPRICFINKMDRMGA  171 (721)
T ss_pred             ccceeEEecCCC-ceeEEEEehhhhhhccCeEEEEEcccceehhhHHHHHHHHhcCCCeEEEEehhhhcCC
Confidence            367889999999 55455544433    788999999888654432 2223   34589999999999987

>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional

Probab=93.32  E-value=0.22  Score=42.54  Aligned_cols=77  Identities=17%  Similarity=0.102  Sum_probs=48.1

Q ss_pred             CHHHHHHHhcC-CcEEEEEcccC-C-----chhHHHHHhcCCCCcCceEeccCCCcccCCcccccccCcchhHhhhhh--
Q 029893            1 MLALCKFLRDK-YSLAAVTNDIF-T-----KEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNL--   71 (186)
Q Consensus         1 ~~~~~~~l~~~-~~vaVi~nd~g-~-----~iD~~~i~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~~~l~~l~~~--   71 (186)
                      +.++++.|+++ .|+|||..|-- .     +-|..++++.|.    ..+.+.++..|++..+.+-..  ..+.++...  
T Consensus       222 ~~~l~~~l~~~g~~v~~iKh~~h~~~~d~~g~Ds~r~~~aGa----~~v~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~  295 (366)
T PRK14489        222 LEKLIPELIARGYRIGLIKHSHHRVDIDKPGKDSHRLRAAGA----NPTMIVCPERWALMRETPEEA--VPFKVLIATFD  295 (366)
T ss_pred             HHHHHHHHHHcCCEEEEEEECCcccCCCCCCChhHHHHhCCC----ceEEEEcCCeEEEEEeCCCCC--cCHHHHHHhcC
Confidence            36788889875 99999997644 3     358999998887    456665666565421111110  123333322  


Q ss_pred             -cCCcEEEEecCC
Q 029893           72 -FKADLLLCESGG   83 (186)
Q Consensus        72 -~~~D~iiIEtsG   83 (186)
                       .+.|+||||.--
T Consensus       296 ~~~~D~vlvEG~k  308 (366)
T PRK14489        296 PEEVDLILVEGFK  308 (366)
T ss_pred             CcCCCEEEEcccc
Confidence             368999999643

>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional

Probab=93.20  E-value=0.38  Score=38.54  Aligned_cols=72  Identities=24%  Similarity=0.338  Sum_probs=45.5

Q ss_pred             HHHHHHHhcC-CcEEEEEc---ccC-CchhHHHHHhcCCCCcCceEeccCCCcccCCcccccccCcchhHhhhhhcCCcE
Q 029893            2 LALCKFLRDK-YSLAAVTN---DIF-TKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADL   76 (186)
Q Consensus         2 ~~~~~~l~~~-~~vaVi~n---d~g-~~iD~~~i~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~~~l~~l~~~~~~D~   76 (186)
                      .+++++|+.+ +|+|+|-.   ++- .+-|..++++.|.    .++.+.++..+.+ ...  ..   .+.++....++|+
T Consensus        19 ~~l~~~L~~~G~~V~viK~~~~~~d~~~~Dt~r~~~aGA----~~v~~~~~~~~~~-~~~--~~---~l~~ll~~l~~Dl   88 (229)
T PRK14494         19 EKILKNLKERGYRVATAKHTHHEFDKPDTDTYRFKKAGA----EVVVVSTDETAAF-LYD--RM---DLNEILSLLDADF   88 (229)
T ss_pred             HHHHHHHHhCCCeEEEEEecccCCCCCCchHHHHHHcCC----cEEEEecCCeEEE-Eec--CC---CHHHHHhhcCCCE
Confidence            5678888864 99999964   222 3578999988876    4566655554543 111  12   2333333337899


Q ss_pred             EEEecCC
Q 029893           77 LLCESGG   83 (186)
Q Consensus        77 iiIEtsG   83 (186)
                      ||||.-.
T Consensus        89 vlVEGfk   95 (229)
T PRK14494         89 LLIEGFK   95 (229)
T ss_pred             EEEeCCC
Confidence            9999444

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=93.18  E-value=0.08  Score=43.42  Aligned_cols=96  Identities=20%  Similarity=0.273  Sum_probs=54.8

Q ss_pred             chhHhhhhhcCCcEEEEecCCCeeEE-e--------eeeecCceEEEEEeCCCCCC-C---ccCCCCCCCceeEEEEecC
Q 029893           63 GPLEELSNLFKADLLLCESGGDNLAA-N--------FSRELADYIIYIIDVSGGDK-I---PRKGGPGITQADLLVINKT  129 (186)
Q Consensus        63 ~~l~~l~~~~~~D~iiIEtsG~~l~~-~--------~~~~~ad~~v~VvDa~~~~~-~---~~~~~~~~~~adiivlNK~  129 (186)
                      +++..+.+..++|+|||+|.|-+-.. .        ......+.+++|+|++.... .   ...|..  -..+-++++|.
T Consensus       144 ~~l~~l~~~~~~D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~~~d~~~~~~~f~~--~~~~~~I~TKl  221 (270)
T PRK06731        144 RALTYFKEEARVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNFKD--IHIDGIVFTKF  221 (270)
T ss_pred             HHHHHHHhcCCCCEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccCHHHHHHHHHHhCC--CCCCEEEEEee
Confidence            44555533357999999999932100 0        00111256789999875432 1   112222  23588999999


Q ss_pred             CCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHH
Q 029893          130 DLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEE  168 (186)
Q Consensus       130 Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~  168 (186)
                      |-.....    .+.......  ..||.+++  +|+++.+
T Consensus       222 Det~~~G----~~l~~~~~~--~~Pi~~it--~Gq~vp~  252 (270)
T PRK06731        222 DETASSG----ELLKIPAVS--SAPIVLMT--DGQDVKK  252 (270)
T ss_pred             cCCCCcc----HHHHHHHHH--CcCEEEEe--CCCCCCc
Confidence            9876522    233333332  35888887  6888763

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=92.93  E-value=0.086  Score=49.01  Aligned_cols=63  Identities=16%  Similarity=0.018  Sum_probs=40.2

Q ss_pred             hcCCcEEEEecCCCee-EE--eeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCC
Q 029893           71 LFKADLLLCESGGDNL-AA--NFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLAS  133 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l-~~--~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~  133 (186)
                      ..++++.|++|+|..- ..  ......+|.+++|+|+..+......    .......+.++++||+|...
T Consensus        83 ~~~~~i~liDTPG~~~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~~~~~~~~~p~ivviNKiD~~~  152 (720)
T TIGR00490        83 GNEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVLRQALKENVKPVLFINKVDRLI  152 (720)
T ss_pred             CCceEEEEEeCCCccccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHHHHHHHcCCCEEEEEEChhccc
Confidence            3578899999999310 00  0123457999999999886433211    11122346689999999864

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.

>TIGR00959 ffh signal recognition particle protein

Probab=92.87  E-value=0.58  Score=40.93  Aligned_cols=145  Identities=16%  Similarity=0.178  Sum_probs=74.0

Q ss_pred             HHHHHHh--cCCcEEEEEcccC-CchhHHH---HHhcCCCCcCceEeccCCCcccCCcccccccCc-chhHhhhhhcCCc
Q 029893            3 ALCKFLR--DKYSLAAVTNDIF-TKEDGEF---LMRNGALPEERIRAVETGGCPHAAIREDISINL-GPLEELSNLFKAD   75 (186)
Q Consensus         3 ~~~~~l~--~~~~vaVi~nd~g-~~iD~~~---i~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~-~~l~~l~~~~~~D   75 (186)
                      +++.++.  .++|+++|--|.. ...-.++   -.+.++    ++....++.++.        ... +++.. ....++|
T Consensus       118 kLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~~gv----p~~~~~~~~~P~--------~i~~~al~~-~~~~~~D  184 (428)
T TIGR00959       118 KLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGV----PVFALGKGQSPV--------EIARRALEY-AKENGFD  184 (428)
T ss_pred             HHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcCC----ceEecCCCCCHH--------HHHHHHHHH-HHhcCCC
Confidence            5666664  3589999999976 4321122   122333    334432222221        111 23333 2356899


Q ss_pred             EEEEecCCCeeEEe--------e-eeecCceEEEEEeCCCCCCCcc---CCCCCCCceeEEEEecCCCCCcccccHHHHH
Q 029893           76 LLLCESGGDNLAAN--------F-SRELADYIIYIIDVSGGDKIPR---KGGPGITQADLLVINKTDLASAIGADLAVME  143 (186)
Q Consensus        76 ~iiIEtsG~~l~~~--------~-~~~~ad~~v~VvDa~~~~~~~~---~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~  143 (186)
                      +|||+|+|..-...        + .....+-+++|+|+..+.+...   .+...+. -+=+|+||.|-.... ..   +.
T Consensus       185 vVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tgq~~~~~a~~f~~~v~-i~giIlTKlD~~~~~-G~---~l  259 (428)
T TIGR00959       185 VVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTGQDAVNTAKTFNERLG-LTGVVLTKLDGDARG-GA---AL  259 (428)
T ss_pred             EEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccchHHHHHHHHHHHhhCC-CCEEEEeCccCcccc-cH---HH
Confidence            99999999311000        0 0011356799999986543211   1111222 367789999965431 11   22


Q ss_pred             HHHHhhCCCCCEEEEeccCCCCHHHH
Q 029893          144 RDALRMRDGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       144 ~~l~~~~p~a~i~~~Sa~~g~gi~~l  169 (186)
                      ......  ..||.+++  +|+.+++|
T Consensus       260 si~~~~--~~PI~fi~--~Ge~i~dl  281 (428)
T TIGR00959       260 SVRSVT--GKPIKFIG--VGEKIDDL  281 (428)
T ss_pred             HHHHHH--CcCEEEEe--CCCChhhC
Confidence            222222  35787776  46766655

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=92.84  E-value=0.17  Score=44.82  Aligned_cols=94  Identities=18%  Similarity=0.195  Sum_probs=58.0

Q ss_pred             CcEEEEecCCCeeEEeee----------eecCc---eEEEEEeCCCC--CCC--ccC-----CCCCCCceeEEEEecCCC
Q 029893           74 ADLLLCESGGDNLAANFS----------RELAD---YIIYIIDVSGG--DKI--PRK-----GGPGITQADLLVINKTDL  131 (186)
Q Consensus        74 ~D~iiIEtsG~~l~~~~~----------~~~ad---~~v~VvDa~~~--~~~--~~~-----~~~~~~~adiivlNK~Dl  131 (186)
                      .-|-+|+|.|+ +..|..          ..+||   .+++++|.++-  -..  +.+     .+....++-|+|+||+|+
T Consensus       215 lrwQViDTPGI-LD~plEdrN~IEmqsITALAHLraaVLYfmDLSe~CGySva~QvkLfhsIKpLFaNK~~IlvlNK~D~  293 (620)
T KOG1490|consen  215 LRWQVIDTPGI-LDRPEEDRNIIEMQIITALAHLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLFANKVTILVLNKIDA  293 (620)
T ss_pred             eeeeecCCccc-cCcchhhhhHHHHHHHHHHHHhhhhheeeeechhhhCCCHHHHHHHHHHhHHHhcCCceEEEeecccc
Confidence            35778999994 222221          11333   47899998752  211  111     122245689999999999


Q ss_pred             CCcccccHH----HHHHHHHhhCCCCCEEEEeccCCCCHHHHHH
Q 029893          132 ASAIGADLA----VMERDALRMRDGGPFIFAQVKHGLGVEEIVN  171 (186)
Q Consensus       132 ~~~~~~~~~----~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~  171 (186)
                      ...  +.+.    ++.+.+... +..+|+.+|..+.+|+.++..
T Consensus       294 m~~--edL~~~~~~ll~~~~~~-~~v~v~~tS~~~eegVm~Vrt  334 (620)
T KOG1490|consen  294 MRP--EDLDQKNQELLQTIIDD-GNVKVVQTSCVQEEGVMDVRT  334 (620)
T ss_pred             cCc--cccCHHHHHHHHHHHhc-cCceEEEecccchhceeeHHH
Confidence            876  4443    333444332 347999999999999987654

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=92.71  E-value=0.34  Score=40.98  Aligned_cols=59  Identities=19%  Similarity=0.311  Sum_probs=44.0

Q ss_pred             CCceeEEEEecCCCCCc-------ccccHHHHHHHHHhh--CCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          118 ITQADLLVINKTDLASA-------IGADLAVMERDALRM--RDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       118 ~~~adiivlNK~Dl~~~-------~~~~~~~~~~~l~~~--~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      +..+.++|++|+|+++-       +.+.++.+...+|+.  .-++..++||+|..+|++-|..+|...
T Consensus       221 lGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLiyTSvKE~KNidllyKYivhr  288 (473)
T KOG3905|consen  221 LGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALIYTSVKETKNIDLLYKYIVHR  288 (473)
T ss_pred             CCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeEEeecccccchHHHHHHHHHH
Confidence            56789999999998532       123444555566653  246899999999999999999998754

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=92.49  E-value=0.31  Score=41.85  Aligned_cols=90  Identities=13%  Similarity=0.172  Sum_probs=50.0

Q ss_pred             hcCCcEEEEecCCCeeEEe--------e-eeecCceEEEEEeCCCCCCCc----cCCCCC-------CCceeEEEEecCC
Q 029893           71 LFKADLLLCESGGDNLAAN--------F-SRELADYIIYIIDVSGGDKIP----RKGGPG-------ITQADLLVINKTD  130 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l~~~--------~-~~~~ad~~v~VvDa~~~~~~~----~~~~~~-------~~~adiivlNK~D  130 (186)
                      ..++|+|||+|.|..-...        + ......-.++|++++.+....    ..|...       +...+-++++|.|
T Consensus       213 l~~~DlVLIDTaG~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~evi~~f~~~~~~p~~~~~~~~~~I~TKlD  292 (374)
T PRK14722        213 LRNKHMVLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLLLNATSHGDTLNEVVQAYRSAAGQPKAALPDLAGCILTKLD  292 (374)
T ss_pred             hcCCCEEEEcCCCCCcccHHHHHHHHHHhccCCCCeEEEEecCccChHHHHHHHHHHHHhhcccccccCCCCEEEEeccc
Confidence            3578999999999421111        0 011123468899998764321    112111       1123678899999


Q ss_pred             CCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHH
Q 029893          131 LASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEE  168 (186)
Q Consensus       131 l~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~  168 (186)
                      -....    -.+...+...  ..|+.+++  +|+++.+
T Consensus       293 Et~~~----G~~l~~~~~~--~lPi~yvt--~Gq~VPe  322 (374)
T PRK14722        293 EASNL----GGVLDTVIRY--KLPVHYVS--TGQKVPE  322 (374)
T ss_pred             cCCCc----cHHHHHHHHH--CcCeEEEe--cCCCCCc
Confidence            77542    2333333322  35787777  6777754

>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.49  E-value=0.08  Score=45.52  Aligned_cols=145  Identities=19%  Similarity=0.264  Sum_probs=76.2

Q ss_pred             HHHHHHHhcC-CcEEEEEcccC--CchhHHHHHh--cCCCCcCceEeccCCCcccCCcccccccCc-chhHhhhhhcCCc
Q 029893            2 LALCKFLRDK-YSLAAVTNDIF--TKEDGEFLMR--NGALPEERIRAVETGGCPHAAIREDISINL-GPLEELSNLFKAD   75 (186)
Q Consensus         2 ~~~~~~l~~~-~~vaVi~nd~g--~~iD~~~i~~--~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~-~~l~~l~~~~~~D   75 (186)
                      .+++.+++++ +|++.|..|--  --+|......  .++ |   ++-  ++.      ..|-.... +.+... .+.+||
T Consensus       119 ~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~~i-P---~yg--syt------e~dpv~ia~egv~~f-Kke~fd  185 (483)
T KOG0780|consen  119 TKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKARV-P---FYG--SYT------EADPVKIASEGVDRF-KKENFD  185 (483)
T ss_pred             HHHHHHHHhcCCceeEEeecccccchHHHHHHHhHhhCC-e---eEe--ccc------ccchHHHHHHHHHHH-HhcCCc
Confidence            3677778765 99999998855  3566544322  122 1   221  111      00111101 333332 356999


Q ss_pred             EEEEecCCCeeEEe---ee----ee---cCceEEEEEeCCCCCCCcc---CCCCCCCceeEEEEecCCCCCcccccHHHH
Q 029893           76 LLLCESGGDNLAAN---FS----RE---LADYIIYIIDVSGGDKIPR---KGGPGITQADLLVINKTDLASAIGADLAVM  142 (186)
Q Consensus        76 ~iiIEtsG~~l~~~---~~----~~---~ad~~v~VvDa~~~~~~~~---~~~~~~~~adiivlNK~Dl~~~~~~~~~~~  142 (186)
                      +||++||| +.-..   |.    ..   .-|-+|+|+|++-|.....   .+...+.. --++++|.|--......+..+
T Consensus       186 vIIvDTSG-Rh~qe~sLfeEM~~v~~ai~Pd~vi~VmDasiGQaae~Qa~aFk~~vdv-g~vIlTKlDGhakGGgAlSaV  263 (483)
T KOG0780|consen  186 VIIVDTSG-RHKQEASLFEEMKQVSKAIKPDEIIFVMDASIGQAAEAQARAFKETVDV-GAVILTKLDGHAKGGGALSAV  263 (483)
T ss_pred             EEEEeCCC-chhhhHHHHHHHHHHHhhcCCCeEEEEEeccccHhHHHHHHHHHHhhcc-ceEEEEecccCCCCCceeeeh
Confidence            99999999 32111   10    00   1277899999988754211   12221222 246789999653322222222


Q ss_pred             HHHHHhhCCCCCEEEEeccCCCCHHHH
Q 029893          143 ERDALRMRDGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       143 ~~~l~~~~p~a~i~~~Sa~~g~gi~~l  169 (186)
                      .    .  ...||+++-  ||+++++|
T Consensus       264 a----a--TksPIiFIG--tGEhmdDl  282 (483)
T KOG0780|consen  264 A----A--TKSPIIFIG--TGEHMDDL  282 (483)
T ss_pred             h----h--hCCCEEEEe--cCcccccc
Confidence            1    1  234787776  67877766

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=92.39  E-value=0.26  Score=42.37  Aligned_cols=113  Identities=12%  Similarity=0.112  Sum_probs=65.0

Q ss_pred             hHhhhhhcCCcEEEEecCCCe--eEEee-ee--ecCceEEEEEeCCCCCCCcc-CC---CCCCCceeEEEEecCCCCCcc
Q 029893           65 LEELSNLFKADLLLCESGGDN--LAANF-SR--ELADYIIYIIDVSGGDKIPR-KG---GPGITQADLLVINKTDLASAI  135 (186)
Q Consensus        65 l~~l~~~~~~D~iiIEtsG~~--l~~~~-~~--~~ad~~v~VvDa~~~~~~~~-~~---~~~~~~adiivlNK~Dl~~~~  135 (186)
                      .+++.++...=+-||+-+|-.  +..+. ..  .--|+..+|+.|..|-..-. .+   ..-+..|-+++++|+|+.+. 
T Consensus       240 aEEi~e~SSKlvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~tTrEHLgl~~AL~iPfFvlvtK~Dl~~~-  318 (591)
T KOG1143|consen  240 AEEIVEKSSKLVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITWTTREHLGLIAALNIPFFVLVTKMDLVDR-  318 (591)
T ss_pred             HHHHHhhhcceEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCccccHHHHHHHHHhCCCeEEEEEeeccccc-
Confidence            344444445556778888821  11111 00  01267788888877643321 11   22356689999999999987 


Q ss_pred             cccHHHHHHHHHhh---------------------------CC-CCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          136 GADLAVMERDALRM---------------------------RD-GGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       136 ~~~~~~~~~~l~~~---------------------------~p-~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                       ..+++..+.+..+                           .+ -.|||.+|..+|+|+.-+..++.-..|.
T Consensus       319 -~~~~~tv~~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsGegl~ll~~fLn~Lsp~  389 (591)
T KOG1143|consen  319 -QGLKKTVKDLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPIFAVSSVSGEGLRLLRTFLNCLSPA  389 (591)
T ss_pred             -hhHHHHHHHHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeEEEEeecCccchhHHHHHHhhcCCc
Confidence             3333322222110                           11 2599999999999998776665544443

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=92.28  E-value=0.041  Score=50.18  Aligned_cols=60  Identities=23%  Similarity=0.251  Sum_probs=38.8

Q ss_pred             CCcEEEEecCC-CeeEE--eeeeecCceEEEEEeCCCCCCCc----cCCCCCCCceeEEEEecCCCC
Q 029893           73 KADLLLCESGG-DNLAA--NFSRELADYIIYIIDVSGGDKIP----RKGGPGITQADLLVINKTDLA  132 (186)
Q Consensus        73 ~~D~iiIEtsG-~~l~~--~~~~~~ad~~v~VvDa~~~~~~~----~~~~~~~~~adiivlNK~Dl~  132 (186)
                      .+=.=|++|+| ++...  +...+.+|.+|+++|+.+|-...    .++..|-..|.++|+||+|++
T Consensus       196 S~l~nilDTPGHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlntEr~ikhaiq~~~~i~vviNKiDRL  262 (971)
T KOG0468|consen  196 SYLMNILDTPGHVNFSDETTASLRLSDGVVLVVDVAEGVMLNTERIIKHAIQNRLPIVVVINKVDRL  262 (971)
T ss_pred             eeeeeeecCCCcccchHHHHHHhhhcceEEEEEEcccCceeeHHHHHHHHHhccCcEEEEEehhHHH
Confidence            33344677777 11111  12234579999999999986542    234445567999999999964

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=92.22  E-value=0.13  Score=38.87  Aligned_cols=75  Identities=16%  Similarity=0.038  Sum_probs=42.7

Q ss_pred             hcCCcEEEEecCCCeeEEe-e-eeecCceEEEEEeCCCCCCCc----cCCCCCCCceeEEEEecCCCCCcccccHHHHHH
Q 029893           71 LFKADLLLCESGGDNLAAN-F-SRELADYIIYIIDVSGGDKIP----RKGGPGITQADLLVINKTDLASAIGADLAVMER  144 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l~~~-~-~~~~ad~~v~VvDa~~~~~~~----~~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~  144 (186)
                      ..++|+|||+|.|. .... . ....+|.+++++.+.......    .+.......+..+|+||+|....   ..+.+.+
T Consensus        90 ~~~~d~viiDtpp~-~~~~~~~~l~~aD~vliv~~~~~~~~~~~~~~~~~l~~~~~~~~vV~N~~~~~~~---~~~~~~~  165 (179)
T cd03110          90 AEGAELIIIDGPPG-IGCPVIASLTGADAALLVTEPTPSGLHDLERAVELVRHFGIPVGVVINKYDLNDE---IAEEIED  165 (179)
T ss_pred             hcCCCEEEEECcCC-CcHHHHHHHHcCCEEEEEecCCcccHHHHHHHHHHHHHcCCCEEEEEeCCCCCcc---hHHHHHH
Confidence            36899999999972 2111 1 123579999999876542110    01111123345799999997543   2334455


Q ss_pred             HHHhh
Q 029893          145 DALRM  149 (186)
Q Consensus       145 ~l~~~  149 (186)
                      .+++.
T Consensus       166 ~~~~~  170 (179)
T cd03110         166 YCEEE  170 (179)
T ss_pred             HHHHc
Confidence            55543

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.19  E-value=0.28  Score=38.93  Aligned_cols=81  Identities=23%  Similarity=0.258  Sum_probs=47.6

Q ss_pred             CceEEEEEeCCCCCCCccC-----C-----C--CCCCceeEEEEecCCCCCcccccH--HHHHHHHHhh----C------
Q 029893           95 ADYIIYIIDVSGGDKIPRK-----G-----G--PGITQADLLVINKTDLASAIGADL--AVMERDALRM----R------  150 (186)
Q Consensus        95 ad~~v~VvDa~~~~~~~~~-----~-----~--~~~~~adiivlNK~Dl~~~~~~~~--~~~~~~l~~~----~------  150 (186)
                      +-.+|+|||+.........     |     .  ..-..+.+|..||.|+..+..++.  +.+++++..+    +      
T Consensus       109 akaiVFVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAkt~~~Ir~~LEkEi~~lr~sRsa~~~~~  188 (238)
T KOG0090|consen  109 AKAIVFVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAKTAEKIRQQLEKEIHKLRESRSALRSIS  188 (238)
T ss_pred             ceeEEEEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcCcHHHHHHHHHHHHHHHHHHHhhhhccc
Confidence            4568999998775432111     0     0  112236788899999987632211  1222222111    0      


Q ss_pred             ------------------------CCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          151 ------------------------DGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       151 ------------------------p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                                              ....+.+.|+++| ++++|-+|+.++
T Consensus       189 ~ed~~~~~tlg~~g~dF~fs~l~~~~V~F~e~S~~~~-~i~~~~~wi~~~  237 (238)
T KOG0090|consen  189 DEDIAKDFTLGKEGEDFKFSHLEDQKVTFAEASAKTG-EIDQWESWIREA  237 (238)
T ss_pred             cccccccccccccccccchhhcccceeEEeecccCcC-ChHHHHHHHHHh
Confidence                                    1124677888887 899999999875

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=92.18  E-value=0.16  Score=39.70  Aligned_cols=91  Identities=13%  Similarity=0.045  Sum_probs=50.1

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc--cCC-------------------------CCCCCcee
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP--RKG-------------------------GPGITQAD  122 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~--~~~-------------------------~~~~~~ad  122 (186)
                      .+.+-|-+|+|..-   ..+..+..+|.+++|+|.++.....  ..|                         ...-..|.
T Consensus        53 ~~~l~IwDtaG~e~~~~l~~~~yr~ad~iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~Pi  132 (202)
T cd04102          53 TFFVELWDVGGSESVKSTRAVFYNQVNGIILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPL  132 (202)
T ss_pred             EEEEEEEecCCchhHHHHHHHHhCcCCEEEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceE
Confidence            45677889999310   0122345689999999998764211  000                         00123588


Q ss_pred             EEEEecCCCCCcccccHHHH---HHHHHhhCCCCCEEEEeccCCC
Q 029893          123 LLVINKTDLASAIGADLAVM---ERDALRMRDGGPFIFAQVKHGL  164 (186)
Q Consensus       123 iivlNK~Dl~~~~~~~~~~~---~~~l~~~~p~a~i~~~Sa~~g~  164 (186)
                      ++|.||.|+.++.....+..   ...+... -.++-+..+++...
T Consensus       133 ilVGnK~Dl~~~r~~~~~~~~~~~~~ia~~-~~~~~i~~~c~~~~  176 (202)
T cd04102         133 LVIGTKLDQIPEKESSGNLVLTARGFVAEQ-GNAEEINLNCTNGR  176 (202)
T ss_pred             EEEEECccchhhcccchHHHhhHhhhHHHh-cCCceEEEecCCcc
Confidence            99999999976521111111   1222221 24567777776443

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.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=91.94  E-value=0.53  Score=41.10  Aligned_cols=89  Identities=17%  Similarity=0.229  Sum_probs=49.5

Q ss_pred             cCCcEEEEecCCCeeEE-----ee-e-ee---cCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccc
Q 029893           72 FKADLLLCESGGDNLAA-----NF-S-RE---LADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGA  137 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~-----~~-~-~~---~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~  137 (186)
                      .++|+|||+|.|..-..     .+ . ..   ...-+.+|++++.......    .+. .+. .+-+++||+|-...   
T Consensus       298 ~~~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~~~~l~~~~~~f~-~~~-~~~vI~TKlDet~~---  372 (424)
T PRK05703        298 RDCDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTKYEDLKDIYKHFS-RLP-LDGLIFTKLDETSS---  372 (424)
T ss_pred             CCCCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCCHHHHHHHHHHhC-CCC-CCEEEEeccccccc---
Confidence            47999999999942110     00 0 01   1124577788876532111    111 122 36799999998654   


Q ss_pred             cHHHHHHHHHhhCCCCCEEEEeccCCCCH-HHHH
Q 029893          138 DLAVMERDALRMRDGGPFIFAQVKHGLGV-EEIV  170 (186)
Q Consensus       138 ~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi-~~l~  170 (186)
                       ...+...+...  ..|+.+++  +|+++ ++|.
T Consensus       373 -~G~i~~~~~~~--~lPv~yit--~Gq~VpdDl~  401 (424)
T PRK05703        373 -LGSILSLLIES--GLPISYLT--NGQRVPDDIK  401 (424)
T ss_pred             -ccHHHHHHHHH--CCCEEEEe--CCCCChhhhh
Confidence             22344444433  35888777  68886 5554

>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1)

Probab=91.84  E-value=0.09  Score=32.81  Aligned_cols=37  Identities=35%  Similarity=0.419  Sum_probs=18.9

Q ss_pred             cCceEEEEEeCCCCCCCc----c----CCCCCC-CceeEEEEecCC
Q 029893           94 LADYIIYIIDVSGGDKIP----R----KGGPGI-TQADLLVINKTD  130 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~~----~----~~~~~~-~~adiivlNK~D  130 (186)
                      +.+.+++++|+++.-...    .    .....+ ..|-++|+||+|
T Consensus        13 L~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F~~~P~i~V~nK~D   58 (58)
T PF06858_consen   13 LADAILFIIDPSEQCGYSIEEQLSLFKEIKPLFPNKPVIVVLNKID   58 (58)
T ss_dssp             T-SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHTTTS-EEEEE--TT
T ss_pred             hcceEEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCEEEEEeccC
Confidence            457899999998742211    0    111224 578999999998

The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.

>smart00053 DYNc Dynamin, GTPase

Probab=91.75  E-value=0.14  Score=41.35  Aligned_cols=61  Identities=16%  Similarity=0.000  Sum_probs=38.5

Q ss_pred             CcEEEEecCCCeeE---E-ee------------eee-cCceEEEEEeCCCCCCCcc--C---CCCCCCceeEEEEecCCC
Q 029893           74 ADLLLCESGGDNLA---A-NF------------SRE-LADYIIYIIDVSGGDKIPR--K---GGPGITQADLLVINKTDL  131 (186)
Q Consensus        74 ~D~iiIEtsG~~l~---~-~~------------~~~-~ad~~v~VvDa~~~~~~~~--~---~~~~~~~adiivlNK~Dl  131 (186)
                      +|+.||+|.|..-.   . +.            ... ..+++++|+|+..+.....  .   +........++|+||+|.
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld~~~~rti~ViTK~D~  204 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVDPQGERTIGVITKLDL  204 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHHHcCCcEEEEEECCCC
Confidence            89999999995211   0 00            011 2368999999876533221  1   112234578999999999


Q ss_pred             CCc
Q 029893          132 ASA  134 (186)
Q Consensus       132 ~~~  134 (186)
                      .++
T Consensus       205 ~~~  207 (240)
T smart00053      205 MDE  207 (240)
T ss_pred             CCc
Confidence            876

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

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=91.52  E-value=1.2  Score=38.49  Aligned_cols=92  Identities=12%  Similarity=0.055  Sum_probs=53.0

Q ss_pred             hcCCcEEEEecCCCeeEEee---------eeecCc-eEEEEEeCCCCCCCccCCCCCCC--ceeEEEEecCCCCCccccc
Q 029893           71 LFKADLLLCESGGDNLAANF---------SRELAD-YIIYIIDVSGGDKIPRKGGPGIT--QADLLVINKTDLASAIGAD  138 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l~~~~---------~~~~ad-~~v~VvDa~~~~~~~~~~~~~~~--~adiivlNK~Dl~~~~~~~  138 (186)
                      ..++|+|||+|+|-......         .....+ -+++|+|++.+..........+.  ..+-++++|.|-....   
T Consensus       252 ~~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~~~~~~~~~~~~~~~~~I~TKlDet~~~---  328 (388)
T PRK12723        252 SKDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKTSDVKEIFHQFSPFSYKTVIFTKLDETTCV---  328 (388)
T ss_pred             hCCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHHHHHHHHHhcCCCCCEEEEEeccCCCcc---
Confidence            35899999999993211110         000113 47899999886432221111121  2578999999976542   


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCCCCH-HHHH
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHGLGV-EEIV  170 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g~gi-~~l~  170 (186)
                       -.+...+...  ..|+.+++  +|+++ ++|.
T Consensus       329 -G~~l~~~~~~--~~Pi~yit--~Gq~vPeDl~  356 (388)
T PRK12723        329 -GNLISLIYEM--RKEVSYVT--DGQIVPHNIS  356 (388)
T ss_pred             -hHHHHHHHHH--CCCEEEEe--CCCCChhhhh
Confidence             2333333332  35787777  68888 5664

>PF08438 MMR_HSR1_C: GTPase of unknown function C-terminal; InterPro: IPR013646 This domain is found at the C terminus of IPR002917 from INTERPRO in archaeal and eukaryotic GTP-binding proteins

Probab=91.10  E-value=0.2  Score=35.41  Aligned_cols=32  Identities=19%  Similarity=0.140  Sum_probs=18.5

Q ss_pred             EEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEecc
Q 029893          125 VINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVK  161 (186)
Q Consensus       125 vlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~  161 (186)
                      ++||+|+..+     ++-.+++++.+|..+++++||.
T Consensus         1 AaNK~D~~~a-----~~ni~kl~~~~~~~~vVp~SA~   32 (109)
T PF08438_consen    1 AANKADLPAA-----DENIEKLKEKYPDEPVVPTSAA   32 (109)
T ss_dssp             EEE-GGG-S------HHHHHHHHHHHTT-EEEEE-HH
T ss_pred             CCcccccccc-----HhHHHHHHHhCCCCceeeccHH
Confidence            5899997443     1233445555688899999986

; PDB: 1WXQ_A.

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=90.45  E-value=0.13  Score=43.32  Aligned_cols=97  Identities=21%  Similarity=0.122  Sum_probs=59.1

Q ss_pred             CCcEEEEecCCC----e--eEEeee-----eecCceEEEEEeCCCCCCCcc-----CCCCCCCc-------eeEEEEecC
Q 029893           73 KADLLLCESGGD----N--LAANFS-----RELADYIIYIIDVSGGDKIPR-----KGGPGITQ-------ADLLVINKT  129 (186)
Q Consensus        73 ~~D~iiIEtsG~----~--l~~~~~-----~~~ad~~v~VvDa~~~~~~~~-----~~~~~~~~-------adiivlNK~  129 (186)
                      +--+++.+|+|-    +  +.+.|.     ...+|+++.|+|.++++....     ....++..       .-+=|=||+
T Consensus       225 g~~vlltDTvGFisdLP~~LvaAF~ATLeeVaeadlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnki  304 (410)
T KOG0410|consen  225 GNFVLLTDTVGFISDLPIQLVAAFQATLEEVAEADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKI  304 (410)
T ss_pred             CcEEEEeechhhhhhCcHHHHHHHHHHHHHHhhcceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhcccc
Confidence            678999999992    1  111121     123699999999999753211     01112222       133456888


Q ss_pred             CCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          130 DLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       130 Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      |..+..  . +      .+.|   -.+.+||++|.|++++++.+.......+
T Consensus       305 D~e~~~--~-e------~E~n---~~v~isaltgdgl~el~~a~~~kv~~~t  344 (410)
T KOG0410|consen  305 DYEEDE--V-E------EEKN---LDVGISALTGDGLEELLKAEETKVASET  344 (410)
T ss_pred             cccccc--C-c------cccC---CccccccccCccHHHHHHHHHHHhhhhh
Confidence            876541  1 1      0112   2578899999999999999887665544

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=89.89  E-value=0.23  Score=45.96  Aligned_cols=58  Identities=24%  Similarity=0.164  Sum_probs=37.2

Q ss_pred             cCCcEEEEecCCCeeEEe----eeeecCceEEEEEeCCCCCCCccC-CCCC---CCceeEEEEecCC
Q 029893           72 FKADLLLCESGGDNLAAN----FSRELADYIIYIIDVSGGDKIPRK-GGPG---ITQADLLVINKTD  130 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~----~~~~~ad~~v~VvDa~~~~~~~~~-~~~~---~~~adiivlNK~D  130 (186)
                      .++=+-+|++.| .+.-.    ....++|..++++|+.+|--.+.. ..+|   -+...++|+||+|
T Consensus        70 ~~~~~nlidspg-hvdf~sevssas~l~d~alvlvdvvegv~~qt~~vlrq~~~~~~~~~lvinkid  135 (887)
T KOG0467|consen   70 KDYLINLIDSPG-HVDFSSEVSSASRLSDGALVLVDVVEGVCSQTYAVLRQAWIEGLKPILVINKID  135 (887)
T ss_pred             CceEEEEecCCC-ccchhhhhhhhhhhcCCcEEEEeeccccchhHHHHHHHHHHccCceEEEEehhh
Confidence            467778899999 33111    112357899999999988543221 1111   1336899999999

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=89.30  E-value=0.65  Score=41.78  Aligned_cols=88  Identities=11%  Similarity=0.108  Sum_probs=49.1

Q ss_pred             cCCcEEEEecCCCeeEEe-----e-eee--cCceEEEEEeCCCCCCCc----cCCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAAN-----F-SRE--LADYIIYIIDVSGGDKIP----RKGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~-----~-~~~--~ad~~v~VvDa~~~~~~~----~~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .++|+|||+|.|..-...     + .+.  ...-.++|+++.......    ..+..  ...+-+|+||+|....    +
T Consensus       427 ~~~DLVLIDTaG~s~~D~~l~eeL~~L~aa~~~a~lLVLpAtss~~Dl~eii~~f~~--~~~~gvILTKlDEt~~----l  500 (559)
T PRK12727        427 RDYKLVLIDTAGMGQRDRALAAQLNWLRAARQVTSLLVLPANAHFSDLDEVVRRFAH--AKPQGVVLTKLDETGR----F  500 (559)
T ss_pred             ccCCEEEecCCCcchhhHHHHHHHHHHHHhhcCCcEEEEECCCChhHHHHHHHHHHh--hCCeEEEEecCcCccc----h
Confidence            479999999999421110     0 000  112356778876542111    11111  1357899999998644    3


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCH-HHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGV-EEI  169 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi-~~l  169 (186)
                      -.+...+...  ..||.+++  +|+.+ ++|
T Consensus       501 G~aLsv~~~~--~LPI~yvt--~GQ~VPeDL  527 (559)
T PRK12727        501 GSALSVVVDH--QMPITWVT--DGQRVPDDL  527 (559)
T ss_pred             hHHHHHHHHh--CCCEEEEe--CCCCchhhh
Confidence            3444444333  35888887  68888 454

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=89.21  E-value=0.42  Score=43.01  Aligned_cols=82  Identities=20%  Similarity=0.058  Sum_probs=52.6

Q ss_pred             eecCceEEEEEeCCCCC---CCccCCC--------CCCCceeEEEEecCCCCCcccccHHH----HHHHHHhhCCCCCEE
Q 029893           92 RELADYIIYIIDVSGGD---KIPRKGG--------PGITQADLLVINKTDLASAIGADLAV----MERDALRMRDGGPFI  156 (186)
Q Consensus        92 ~~~ad~~v~VvDa~~~~---~~~~~~~--------~~~~~adiivlNK~Dl~~~~~~~~~~----~~~~l~~~~p~a~i~  156 (186)
                      ++.||++.++.+..+..   ....+|.        .-.+.|.|+|.||+|+.+......+.    +....+++   -..+
T Consensus        77 irkA~vi~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~s~e~~~~pim~~f~Ei---Etci  153 (625)
T KOG1707|consen   77 IRKADVICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENNSDEVNTLPIMIAFAEI---ETCI  153 (625)
T ss_pred             HhhcCEEEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccccchhHHHHHHHHHhHHH---HHHH
Confidence            34678988888776632   2222222        22567999999999998753221122    22222222   2668


Q ss_pred             EEeccCCCCHHHHHHHHHHH
Q 029893          157 FAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       157 ~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      .+||++..++.+++.+..+.
T Consensus       154 ecSA~~~~n~~e~fYyaqKa  173 (625)
T KOG1707|consen  154 ECSALTLANVSELFYYAQKA  173 (625)
T ss_pred             hhhhhhhhhhHhhhhhhhhe
Confidence            99999999999999887654

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

Probab=88.80  E-value=0.54  Score=38.08  Aligned_cols=29  Identities=14%  Similarity=0.279  Sum_probs=25.9

Q ss_pred             CCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          151 DGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       151 p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ...|++..||+++.|++.|++.+.+++|.
T Consensus       239 ~~~pv~~gSa~~~~G~~~ll~~~~~~~p~  267 (268)
T cd04170         239 LLVPVLCGSALTNIGVRELLDALVHLLPS  267 (268)
T ss_pred             CEEEEEEeeCCCCcCHHHHHHHHHHhCCC
Confidence            45699999999999999999999998763

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

>KOG0077 consensus Vesicle coat complex COPII, GTPase subunit SAR1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.75  E-value=0.15  Score=38.85  Aligned_cols=81  Identities=17%  Similarity=0.146  Sum_probs=50.0

Q ss_pred             cCceEEEEEeCCCCCCCccCC---------CCCCCceeEEEEecCCCCCcccccHHHHHHHHHhh-----------C-C-
Q 029893           94 LADYIIYIIDVSGGDKIPRKG---------GPGITQADLLVINKTDLASAIGADLAVMERDALRM-----------R-D-  151 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~~~~~---------~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~-----------~-p-  151 (186)
                      .+|.+|+++|+-+.+...+..         ......|.+|+.||+|...+  ...++++..+.-.           . + 
T Consensus        87 ~v~~iv~lvda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~a--~se~~l~~~l~l~~~t~~~~~v~~~~~~  164 (193)
T KOG0077|consen   87 QVDAIVYLVDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPYA--ASEDELRFHLGLSNFTTGKGKVNLTDSN  164 (193)
T ss_pred             hhceeEeeeehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCCc--ccHHHHHHHHHHHHHhcccccccccCCC
Confidence            468899999997754332211         11234588999999999876  3333333222110           0 1 


Q ss_pred             --CCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          152 --GGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       152 --~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                        -..++.+|...+.|-.+-+.|+.++
T Consensus       165 ~rp~evfmcsi~~~~gy~e~fkwl~qy  191 (193)
T KOG0077|consen  165 VRPLEVFMCSIVRKMGYGEGFKWLSQY  191 (193)
T ss_pred             CCeEEEEEEEEEccCccceeeeehhhh
Confidence              1367888988888877777776654

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=88.13  E-value=0.64  Score=40.64  Aligned_cols=90  Identities=12%  Similarity=0.041  Sum_probs=50.5

Q ss_pred             hcCCcEEEEecCCCeeEEe-----e----e---eecCceEEEEEeCCCCCCCccCCCC--CCCceeEEEEecCCCCCccc
Q 029893           71 LFKADLLLCESGGDNLAAN-----F----S---RELADYIIYIIDVSGGDKIPRKGGP--GITQADLLVINKTDLASAIG  136 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l~~~-----~----~---~~~ad~~v~VvDa~~~~~~~~~~~~--~~~~adiivlNK~Dl~~~~~  136 (186)
                      ..++|+|||+|+|.+-...     +    .   .....-+++|+|++.+.........  ..-..+-++++|.|-.... 
T Consensus       297 ~~~~D~VLIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~~~~~~~~~~f~~~~~~glIlTKLDEt~~~-  375 (432)
T PRK12724        297 RDGSELILIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSYHHTLTVLKAYESLNYRRILLTKLDEADFL-  375 (432)
T ss_pred             hCCCCEEEEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCHHHHHHHHHHhcCCCCCEEEEEcccCCCCc-
Confidence            4689999999999421100     0    0   0011246889999886532111111  1113588999999976542 


Q ss_pred             ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHH
Q 029893          137 ADLAVMERDALRMRDGGPFIFAQVKHGLGVEE  168 (186)
Q Consensus       137 ~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~  168 (186)
                         -.+.......  ..|+.+++  +|+++.+
T Consensus       376 ---G~il~i~~~~--~lPI~ylt--~GQ~VPe  400 (432)
T PRK12724        376 ---GSFLELADTY--SKSFTYLS--VGQEVPF  400 (432)
T ss_pred             ---cHHHHHHHHH--CCCEEEEe--cCCCCCC
Confidence               2233333333  35887777  5777743

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=88.09  E-value=0.52  Score=44.09  Aligned_cols=91  Identities=15%  Similarity=0.157  Sum_probs=51.5

Q ss_pred             cCCcEEEEecCCCeeEE-----e---e-eeecCceEEEEEeCCCCCCCc----cCCCCCC-CceeEEEEecCCCCCcccc
Q 029893           72 FKADLLLCESGGDNLAA-----N---F-SRELADYIIYIIDVSGGDKIP----RKGGPGI-TQADLLVINKTDLASAIGA  137 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~-----~---~-~~~~ad~~v~VvDa~~~~~~~----~~~~~~~-~~adiivlNK~Dl~~~~~~  137 (186)
                      .++|+|||+|+|.+-..     .   + .....+-+++|+|++...+..    ..|.... ...+=++++|.|-....  
T Consensus       262 ~~~D~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~~~~~l~~i~~~f~~~~~~~i~glIlTKLDEt~~~--  339 (767)
T PRK14723        262 GDKHLVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASHGDTLNEVVHAYRHGAGEDVDGCIITKLDEATHL--  339 (767)
T ss_pred             cCCCEEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCCcHHHHHHHHHHHhhcccCCCCEEEEeccCCCCCc--
Confidence            47899999999932100     0   0 011124578999998642211    1222111 02467899999977542  


Q ss_pred             cHHHHHHHHHhhCCCCCEEEEeccCCCCH-HHHH
Q 029893          138 DLAVMERDALRMRDGGPFIFAQVKHGLGV-EEIV  170 (186)
Q Consensus       138 ~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi-~~l~  170 (186)
                        -.+...+...  ..||.+++  +|+++ ++|.
T Consensus       340 --G~iL~i~~~~--~lPI~yit--~GQ~VPdDL~  367 (767)
T PRK14723        340 --GPALDTVIRH--RLPVHYVS--TGQKVPEHLE  367 (767)
T ss_pred             --cHHHHHHHHH--CCCeEEEe--cCCCChhhcc
Confidence              2233333332  35888888  78998 6664

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=87.97  E-value=1.2  Score=39.39  Aligned_cols=61  Identities=15%  Similarity=0.227  Sum_probs=45.9

Q ss_pred             CCceeEEEEecCCCCCc-------ccccHHHHHHHHHhh--CCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          118 ITQADLLVINKTDLASA-------IGADLAVMERDALRM--RDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       118 ~~~adiivlNK~Dl~~~-------~~~~~~~~~~~l~~~--~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      +..+.+||++|+|.+..       ..+.++.+.+.+|.+  .-+|-+++||.+...+++-|..+|...+.
T Consensus       195 lGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~yts~~~~~n~~~L~~yi~h~l~  264 (472)
T PF05783_consen  195 LGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGASLIYTSVKEEKNLDLLYKYILHRLY  264 (472)
T ss_pred             cCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEEEeeccccccHHHHHHHHHHHhc
Confidence            56789999999997542       113345566677764  35789999999999999999999876554

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 [].

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=87.83  E-value=1.2  Score=38.63  Aligned_cols=89  Identities=13%  Similarity=0.135  Sum_probs=47.2

Q ss_pred             cCCcEEEEecCCCeeEEe---------eeeecCceEEEEEeCCCCCCCccCCCCCCCc--eeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDNLAAN---------FSRELADYIIYIIDVSGGDKIPRKGGPGITQ--ADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~---------~~~~~ad~~v~VvDa~~~~~~~~~~~~~~~~--adiivlNK~Dl~~~~~~~~~  140 (186)
                      ...|+|+|+|+|-+-..+         +......-+-+|++++...........+++.  -+-++++|.|-.+.    +-
T Consensus       280 ~~~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~~~f~~~~i~~~I~TKlDET~s----~G  355 (407)
T COG1419         280 RDCDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIKQFSLFPIDGLIFTKLDETTS----LG  355 (407)
T ss_pred             hcCCEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcchHHHHHHHHHhccCCcceeEEEcccccCc----hh
Confidence            467999999999421111         1111112245667776532211111122221  36788999997654    33


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEE  168 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~  168 (186)
                      .+...+.+.  .-|+.++|  +|+.+.+
T Consensus       356 ~~~s~~~e~--~~PV~YvT--~GQ~VPe  379 (407)
T COG1419         356 NLFSLMYET--RLPVSYVT--NGQRVPE  379 (407)
T ss_pred             HHHHHHHHh--CCCeEEEe--CCCCCCc
Confidence            444444333  24777777  6887744

>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]

Probab=86.95  E-value=1.2  Score=37.41  Aligned_cols=77  Identities=18%  Similarity=0.143  Sum_probs=43.6

Q ss_pred             cCceEEEEEeCCCCCCCc----cCCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEecc--CCCCHH
Q 029893           94 LADYIIYIIDVSGGDKIP----RKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVK--HGLGVE  167 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~~----~~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~--~g~gi~  167 (186)
                      ..|.+|=|=||.-+....    ..+..  .++-+||+||+||++.  .+.....+.++..+-. .++..++.  +..++.
T Consensus        46 ~~D~iiEvrDaRiPLssrn~~~~~~~~--~k~riiVlNK~DLad~--~~~k~~iq~~~~~~~~-~~~~~~c~~~~~~~v~  120 (335)
T KOG2485|consen   46 LVDCIIEVRDARIPLSSRNELFQDFLP--PKPRIIVLNKMDLADP--KEQKKIIQYLEWQNLE-SYIKLDCNKDCNKQVS  120 (335)
T ss_pred             cccEEEEeeccccCCccccHHHHHhcC--CCceEEEEecccccCc--hhhhHHHHHHHhhccc-chhhhhhhhhhhhccc
Confidence            457888888875543211    11111  4578999999999996  4556666666554322 33333333  333455


Q ss_pred             HHHHHHHH
Q 029893          168 EIVNHILQ  175 (186)
Q Consensus       168 ~l~~~i~~  175 (186)
                      .++..+..
T Consensus       121 ~l~~il~~  128 (335)
T KOG2485|consen  121 PLLKILTI  128 (335)
T ss_pred             cHHHHHHH
Confidence            55554443

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=86.90  E-value=0.76  Score=39.56  Aligned_cols=68  Identities=19%  Similarity=0.224  Sum_probs=40.3

Q ss_pred             cEEEEecCCCe------eEEeee--------eecCceEEEEEeCCCCCCCcc-----CCCCCCCceeEEEEecCCCCCcc
Q 029893           75 DLLLCESGGDN------LAANFS--------RELADYIIYIIDVSGGDKIPR-----KGGPGITQADLLVINKTDLASAI  135 (186)
Q Consensus        75 D~iiIEtsG~~------l~~~~~--------~~~ad~~v~VvDa~~~~~~~~-----~~~~~~~~adiivlNK~Dl~~~~  135 (186)
                      .+-||||.|+-      +..-|.        .+.+|.+++++|+-.-+-..+     .....-+...-||+||.|.++. 
T Consensus       148 ~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG~EdkiRVVLNKADqVdt-  226 (532)
T KOG1954|consen  148 SVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKGHEDKIRVVLNKADQVDT-  226 (532)
T ss_pred             heeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhCCcceeEEEeccccccCH-
Confidence            46689999951      211121        235799999999854332111     0011123356899999999987 


Q ss_pred             cccHHHHHH
Q 029893          136 GADLAVMER  144 (186)
Q Consensus       136 ~~~~~~~~~  144 (186)
                       .++-++..
T Consensus       227 -qqLmRVyG  234 (532)
T KOG1954|consen  227 -QQLMRVYG  234 (532)
T ss_pred             -HHHHHHHH
Confidence             66655443

>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]

Probab=86.81  E-value=0.1  Score=38.78  Aligned_cols=109  Identities=18%  Similarity=0.130  Sum_probs=65.3

Q ss_pred             cCCcEEEEecCCC-ee----------EEee---eeecCceEEEEEeCCCCCCC---ccCC------CCCCCceeEEEEec
Q 029893           72 FKADLLLCESGGD-NL----------AANF---SRELADYIIYIIDVSGGDKI---PRKG------GPGITQADLLVINK  128 (186)
Q Consensus        72 ~~~D~iiIEtsG~-~l----------~~~~---~~~~ad~~v~VvDa~~~~~~---~~~~------~~~~~~adiivlNK  128 (186)
                      .+|...=+|.-|- .+          ..|+   .++..|.+|+|+|.++....   ...+      ....+.|..|.-||
T Consensus        49 ~GFn~k~v~~~g~f~LnvwDiGGqr~IRpyWsNYyenvd~lIyVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfank  128 (185)
T KOG0074|consen   49 NGFNTKKVEYDGTFHLNVWDIGGQRGIRPYWSNYYENVDGLIYVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANK  128 (185)
T ss_pred             CCcceEEEeecCcEEEEEEecCCccccchhhhhhhhccceEEEEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhh
Confidence            4677777777771 11          1233   23456899999995542111   1111      11234588999999


Q ss_pred             CCCCCcccccHHHHHHH--HHhhC-CCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          129 TDLASAIGADLAVMERD--ALRMR-DGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       129 ~Dl~~~~~~~~~~~~~~--l~~~~-p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      -|++.+  ...++....  +..+- ....|-.+||.+++|+..=.+|+.......+.
T Consensus       129 Qdllta--a~~eeia~klnl~~lrdRswhIq~csals~eg~~dg~~wv~sn~~~~tk  183 (185)
T KOG0074|consen  129 QDLLTA--AKVEEIALKLNLAGLRDRSWHIQECSALSLEGSTDGSDWVQSNPETGTK  183 (185)
T ss_pred             hHHHhh--cchHHHHHhcchhhhhhceEEeeeCccccccCccCcchhhhcCCCCCCC
Confidence            999877  333332221  11111 23488899999999999988888876654443

>TIGR03172 probable selenium-dependent hydroxylase accessory protein YqeC

Probab=86.46  E-value=3.8  Score=32.89  Aligned_cols=42  Identities=21%  Similarity=0.385  Sum_probs=25.4

Q ss_pred             chhHhhhhhcCCcEEEEecCCCe---eEEe-----eeeecCceEEEEEeC
Q 029893           63 GPLEELSNLFKADLLLCESGGDN---LAAN-----FSRELADYIIYIIDV  104 (186)
Q Consensus        63 ~~l~~l~~~~~~D~iiIEtsG~~---l~~~-----~~~~~ad~~v~VvDa  104 (186)
                      +.+..+.+...+|+|+||+=|..   +-.|     .-+...+.+|-|+..
T Consensus        87 e~l~~l~~~~~~D~vLVEADGAk~~PlKaP~~~EPVIP~~t~~VI~V~gl  136 (232)
T TIGR03172        87 STVDDLSDFQHFDVILVEADGAKCRPLKAPSDHEPVIPKSSTTVIGVAGI  136 (232)
T ss_pred             HHHHHHHhccCCCEEEEECCCcCCCcccCCCCCCCccCCCCCEEEEEeCH
Confidence            44555543334799999999952   2222     223346777777753

This uncharacterized protein family includes YqeC from Escherichia coli. A phylogenetic profiling analysis shows correlation with SelD, the selenium donor protein, even in species where SelD contributes to neither selenocysteine nor selenouridine biosynthesis. Instead, this family, and families TIGR03309 and TIGR03310 appear to mark selenium-dependent molybdenum hydroxylase maturation systems.

>PRK14491 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional

Probab=85.49  E-value=2.2  Score=38.97  Aligned_cols=77  Identities=21%  Similarity=0.135  Sum_probs=46.6

Q ss_pred             CHHHHHHHhcC-CcEEEEEc-----ccC-CchhHHHHHhcCCCCcCceEeccCCC-cccCCcccccccCcchhHhhhhh-
Q 029893            1 MLALCKFLRDK-YSLAAVTN-----DIF-TKEDGEFLMRNGALPEERIRAVETGG-CPHAAIREDISINLGPLEELSNL-   71 (186)
Q Consensus         1 ~~~~~~~l~~~-~~vaVi~n-----d~g-~~iD~~~i~~~~~~~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l~~l~~~-   71 (186)
                      +.+++++|+++ .|||+|..     |+- .+-|..++++.|.    ..+.+.++. +-.. .+.. ......+.++... 
T Consensus        27 ie~li~~L~~~G~rVavIKh~~h~~d~d~~gkDs~r~~~aGA----~~v~i~s~~~~a~~-~~~~-~~~~~~l~~~l~~l  100 (597)
T PRK14491         27 LEQLIPELNQRGLRLAVIKHAHHNFDVDQPGKDSYRLRKAGA----SQMLVASRVRWALM-TETP-RDGEPELPHLLKQI  100 (597)
T ss_pred             HHHHHHHHHhCCceEEEEEcCCcCCCCCCCCchHHHHHHcCC----cEEEEEcCCeEEEE-EEcC-cCCCcCHHHHHHhc
Confidence            46889999875 99999999     333 3578889988776    345555554 3211 1100 0000123333322 


Q ss_pred             --cCCcEEEEecCC
Q 029893           72 --FKADLLLCESGG   83 (186)
Q Consensus        72 --~~~D~iiIEtsG   83 (186)
                        .+.|+||||.-+
T Consensus       101 ~~~~~D~vlvEG~k  114 (597)
T PRK14491        101 DADKVDIVLVEGFK  114 (597)
T ss_pred             CcCCCCEEEEcCCC
Confidence              368999999888

>PLN00023 GTP-binding protein; Provisional

Probab=84.95  E-value=0.62  Score=39.38  Aligned_cols=62  Identities=18%  Similarity=0.261  Sum_probs=38.4

Q ss_pred             CCcEEEEecCCCe-e--EEeeeeecCceEEEEEeCCCCCCCc---------cCCCC-----------CCCceeEEEEecC
Q 029893           73 KADLLLCESGGDN-L--AANFSRELADYIIYIIDVSGGDKIP---------RKGGP-----------GITQADLLVINKT  129 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l--~~~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~-----------~~~~adiivlNK~  129 (186)
                      .+.+-|-+|+|-. .  ..+..+..++.+|+|+|.+......         .....           ....+.+||.||+
T Consensus        82 ~v~LqIWDTAGqErfrsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~  161 (334)
T PLN00023         82 DFFVELWDVSGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKA  161 (334)
T ss_pred             eEEEEEEECCCChhhhhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECc
Confidence            4667888999931 0  0122345689999999998743210         00100           0125789999999


Q ss_pred             CCCCc
Q 029893          130 DLASA  134 (186)
Q Consensus       130 Dl~~~  134 (186)
                      ||.+.
T Consensus       162 DL~~~  166 (334)
T PLN00023        162 DIAPK  166 (334)
T ss_pred             ccccc
Confidence            99754

>cd01850 CDC_Septin CDC/Septin

Probab=83.89  E-value=1.4  Score=36.13  Aligned_cols=63  Identities=17%  Similarity=0.112  Sum_probs=35.2

Q ss_pred             CceEEEEEeCCC-CCCCc-c---CCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhC--CCCCEEEEec
Q 029893           95 ADYIIYIIDVSG-GDKIP-R---KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR--DGGPFIFAQV  160 (186)
Q Consensus        95 ad~~v~VvDa~~-~~~~~-~---~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~--p~a~i~~~Sa  160 (186)
                      +|+++++++++. +.... .   +.... ..+.++|+||+|++++  .++....+.+++..  -..+++..+.
T Consensus       115 vh~~ly~i~~~~~~l~~~D~~~lk~l~~-~v~vi~VinK~D~l~~--~e~~~~k~~i~~~l~~~~i~~~~~~~  184 (276)
T cd01850         115 VHACLYFIEPTGHGLKPLDIEFMKRLSK-RVNIIPVIAKADTLTP--EELKEFKQRIMEDIEEHNIKIYKFPE  184 (276)
T ss_pred             eEEEEEEEeCCCCCCCHHHHHHHHHHhc-cCCEEEEEECCCcCCH--HHHHHHHHHHHHHHHHcCCceECCCC
Confidence            477889898764 22111 1   11111 4578999999999875  44444444333221  2356666554

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.

>KOG1487 consensus GTP-binding protein DRG1 (ODN superfamily) [Signal transduction mechanisms]

Probab=83.21  E-value=1.3  Score=36.35  Aligned_cols=53  Identities=15%  Similarity=0.225  Sum_probs=39.4

Q ss_pred             CCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          118 ITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       118 ~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      +-.+.+.++||+|-.+-  ++++-+     ..+|  .-+++||.++.+++++++.+-.++..
T Consensus       230 ~yVp~iyvLNkIdsISi--EELdii-----~~ip--havpISA~~~wn~d~lL~~mweyL~L  282 (358)
T KOG1487|consen  230 IYVPCIYVLNKIDSISI--EELDII-----YTIP--HAVPISAHTGWNFDKLLEKMWEYLKL  282 (358)
T ss_pred             eeeeeeeeecccceeee--ecccee-----eecc--ceeecccccccchHHHHHHHhhcchh
Confidence            45589999999998765  444321     1234  56889999999999999988776653

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=82.56  E-value=11  Score=33.40  Aligned_cols=75  Identities=9%  Similarity=0.102  Sum_probs=42.2

Q ss_pred             CceEEEEE-eCCCCCCCccCC----------CCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEecc--
Q 029893           95 ADYIIYII-DVSGGDKIPRKG----------GPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVK--  161 (186)
Q Consensus        95 ad~~v~Vv-Da~~~~~~~~~~----------~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~--  161 (186)
                      +++.++|. |++=++-....+          ...+.+|-++|+||+|-..+  + ...+.+.+++.+. .|++++|+.  
T Consensus       145 stIgivVtTDgsi~dI~Re~y~~aEe~~i~eLk~~~kPfiivlN~~dp~~~--e-t~~l~~~l~eky~-vpvl~v~c~~l  220 (492)
T TIGR02836       145 STIGVVVTTDGTITDIPREDYVEAEERVIEELKELNKPFIILLNSTHPYHP--E-TEALRQELEEKYD-VPVLAMDVESM  220 (492)
T ss_pred             CcEEEEEEcCCCccccccccchHHHHHHHHHHHhcCCCEEEEEECcCCCCc--h-hHHHHHHHHHHhC-CceEEEEHHHc
Confidence            45667777 775332211111          23467899999999994433  2 2334445544443 688899875  


Q ss_pred             CCCCHHHHHHHH
Q 029893          162 HGLGVEEIVNHI  173 (186)
Q Consensus       162 ~g~gi~~l~~~i  173 (186)
                      +.+.+..+++.+
T Consensus       221 ~~~DI~~il~~v  232 (492)
T TIGR02836       221 RESDILSVLEEV  232 (492)
T ss_pred             CHHHHHHHHHHH
Confidence            333444444433

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.

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=81.86  E-value=0.75  Score=38.03  Aligned_cols=80  Identities=15%  Similarity=0.108  Sum_probs=50.6

Q ss_pred             EEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCccc-------ccHHH-HHHHHHhhCC-CCCEEEEeccCCC
Q 029893           98 IIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIG-------ADLAV-MERDALRMRD-GGPFIFAQVKHGL  164 (186)
Q Consensus        98 ~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~-------~~~~~-~~~~l~~~~p-~a~i~~~Sa~~g~  164 (186)
                      +.+++|++-+....+    .+.++...+..+|+||+|......       ..... +....+..++ ..|.+.+|+.|+.
T Consensus       223 ~FLLvd~sv~i~~~D~~~i~~~ge~~VP~t~vfTK~DK~k~~~~~~kKp~~~i~~~f~~l~~~~f~~~~Pw~~~Ssvt~~  302 (320)
T KOG2486|consen  223 VFLLVDASVPIQPTDNPEIAWLGENNVPMTSVFTKCDKQKKVKRTGKKPGLNIKINFQGLIRGVFLVDLPWIYVSSVTSL  302 (320)
T ss_pred             eeeeeeccCCCCCCChHHHHHHhhcCCCeEEeeehhhhhhhccccccCccccceeehhhccccceeccCCceeeeccccc
Confidence            366778876644332    355666779999999999764421       11111 2222233222 3477789999999


Q ss_pred             CHHHHHHHHHHHH
Q 029893          165 GVEEIVNHILQAW  177 (186)
Q Consensus       165 gi~~l~~~i~~~~  177 (186)
                      |++.|+-.+.+..
T Consensus       303 Grd~Ll~~i~q~~  315 (320)
T KOG2486|consen  303 GRDLLLLHIAQLR  315 (320)
T ss_pred             Cceeeeeehhhhh
Confidence            9999987776654

>KOG0463 consensus GTP-binding protein GP-1 [General function prediction only]

Probab=81.85  E-value=4.1  Score=35.34  Aligned_cols=54  Identities=15%  Similarity=0.139  Sum_probs=37.3

Q ss_pred             CCceeEEEEecCCCCCcccccHHHHHHHHHhhC-------------------------C---CCCEEEEeccCCCCHHHH
Q 029893          118 ITQADLLVINKTDLASAIGADLAVMERDALRMR-------------------------D---GGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       118 ~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~-------------------------p---~a~i~~~Sa~~g~gi~~l  169 (186)
                      +..+..+|++|+|..+.  .-+++-.+.+.++.                         |   -.|||.+|-.+|++++-|
T Consensus       272 L~VPVfvVVTKIDMCPA--NiLqEtmKll~rllkS~gcrK~PvlVrs~DDVv~~A~NF~Ser~CPIFQvSNVtG~NL~LL  349 (641)
T KOG0463|consen  272 LHVPVFVVVTKIDMCPA--NILQETMKLLTRLLKSPGCRKLPVLVRSMDDVVHAAVNFPSERVCPIFQVSNVTGTNLPLL  349 (641)
T ss_pred             hcCcEEEEEEeeccCcH--HHHHHHHHHHHHHhcCCCcccCcEEEecccceEEeeccCccccccceEEeccccCCChHHH
Confidence            56789999999999987  44444333332211                         1   248999999999999866


Q ss_pred             HHHH
Q 029893          170 VNHI  173 (186)
Q Consensus       170 ~~~i  173 (186)
                      .-++
T Consensus       350 kmFL  353 (641)
T KOG0463|consen  350 KMFL  353 (641)
T ss_pred             HHHH
Confidence            5544

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=81.60  E-value=3.3  Score=31.29  Aligned_cols=73  Identities=21%  Similarity=0.225  Sum_probs=41.8

Q ss_pred             CHHHHHHHhcC-CcEEEEEcccC------CchhHHHHHhcCCCCcCceEeccCCC-cccCCcccccccCcchhHhhhhhc
Q 029893            1 MLALCKFLRDK-YSLAAVTNDIF------TKEDGEFLMRNGALPEERIRAVETGG-CPHAAIREDISINLGPLEELSNLF   72 (186)
Q Consensus         1 ~~~~~~~l~~~-~~vaVi~nd~g------~~iD~~~i~~~~~~~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l~~l~~~~   72 (186)
                      |.++++.|+.+ +|+|+|--.-.      .+-|.-+.++.|.    ..+-+.++. ---++-..|  ..|+.+..++...
T Consensus        19 ie~lv~~L~~~G~rVa~iKH~hh~~~~D~~GkDs~r~~~aGa----~~~v~~s~~~~~~~~~~~~--~~L~~vl~~l~~~   92 (161)
T COG1763          19 IEKLVRKLKARGYRVATVKHAHHDFDLDKPGKDTYRHRKAGA----DQVVVASDHRTALMTRTPD--RDLDAVLSRLDPL   92 (161)
T ss_pred             HHHHHHHHHhCCcEEEEEEecCCCCCCCCCCCccchhhcccc----ceEEEecCCEEEEEEecCC--cCHHHHHHhcCcc
Confidence            46788888876 99999986432      3568888887765    223333443 111100111  2334444443333


Q ss_pred             CCcEEEEe
Q 029893           73 KADLLLCE   80 (186)
Q Consensus        73 ~~D~iiIE   80 (186)
                       +|+|+||
T Consensus        93 -~D~vLVE   99 (161)
T COG1763          93 -LDLVLVE   99 (161)
T ss_pred             -cCEEEEe
Confidence             6999999

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	186
2hf9_A	226	Crystal Structure Of Hypb From Methanocaldococcus J		5e-13
2hf8_A	226	Crystal Structure Of Hypb From Methanocaldococcus J		5e-12
2wsm_A	221	Crystal Structure Of Hydrogenase Maturation Factor		3e-08

>pdb|2HF9|A Chain A, Crystal Structure Of Hypb From Methanocaldococcus Jannaschii In The Triphosphate Form Length = 226

Iteration: 1
 Score = 70.5 bits (171), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 57/168 (33%), Positives = 87/168 (51%), Gaps = 13/168 (7%)
Query: 8   LRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEE 67
           L+DKY +A +  D+  K D E + ++GA    ++  + TG   H     D  +    LE+
Sbjct: 62  LKDKYKIACIAGDVIAKFDAERMEKHGA----KVVPLNTGKECHL----DAHLVGHALED 113
Query: 68  LSNLFKADLLLCESGGDNLA-ANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ-ADLLV 125
           L NL + DLL  E+ G+ +  A+F       I+ I    G D I +   PGI + ADL+V
Sbjct: 114 L-NLDEIDLLFIENVGNLICPADFDLGTHKRIVVISTTEGDDTIEKH--PGIMKTADLIV 170
Query: 126 INKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHI 173
           INK DLA A+GAD+  ME DA R+      +   +K   G ++++  I
Sbjct: 171 INKIDLADAVGADIKKMENDAKRINPDAEVVLLSLKTMEGFDKVLEFI 218

>pdb|2HF8|A Chain A, Crystal Structure Of Hypb From Methanocaldococcus Jannaschii In The Triphosphate Form, In Complex With Zinc Length = 226

Iteration: 1
 Score = 67.4 bits (163), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 56/168 (33%), Positives = 85/168 (50%), Gaps = 13/168 (7%)
Query: 8   LRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEE 67
           L+DKY +A +  D+  K D E   ++GA    ++  + TG   H     D  +    LE+
Sbjct: 62  LKDKYKIACIAGDVIAKFDAERXEKHGA----KVVPLNTGKECHL----DAHLVGHALED 113
Query: 68  LSNLFKADLLLCESGGDNLA-ANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ-ADLLV 125
           L NL + DLL  E+ G+ +  A+F       I+ I    G D I +   PGI + ADL+V
Sbjct: 114 L-NLDEIDLLFIENVGNLICPADFDLGTHKRIVVISTTEGDDTIEKH--PGIXKTADLIV 170
Query: 126 INKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHI 173
           INK DLA A+GAD+   E DA R+      +   +K   G ++++  I
Sbjct: 171 INKIDLADAVGADIKKXENDAKRINPDAEVVLLSLKTXEGFDKVLEFI 218

>pdb|2WSM|A Chain A, Crystal Structure Of Hydrogenase Maturation Factor Hypb From Archaeoglobus Fulgidus Length = 221

Iteration: 1
 Score = 54.7 bits (130), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 51/163 (31%), Positives = 79/163 (48%), Gaps = 13/163 (7%)
Query: 10  DKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELS 69
           ++  + A+  D+ +K D E + R G   E    A+ TG   H     D  +    L++ S
Sbjct: 56  NEVKIGAMLGDVVSKADYERVRRFGIKAE----AISTGKECHL----DAHMIYHRLKKFS 107
Query: 70  NLFKADLLLCESGGDNLAANFSRELAD-YIIYIIDVSGGDKIPRKGGPGITQADLLVINK 128
           +    DLLL E+ G NL      +L + Y + ++ V+ GD +  K       ADL+VINK
Sbjct: 108 D---CDLLLIENVG-NLICPVDFDLGENYRVVMVSVTEGDDVVEKHPEIFRVADLIVINK 163
Query: 129 TDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVN 171
             LA A+GAD+  M+ DA  +      I   +K G G EE ++
Sbjct: 164 VALAEAVGADVEKMKADAKLINPRAKIIEMDLKTGKGFEEWID 206

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	186
2hf9_A	226	Probable hydrogenase nickel incorporation protein	5e-79
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	6e-77
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	1e-04
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	5e-04
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	8e-04

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A* Length = 226

 Score =  234 bits (598), Expect = 5e-79
 Identities = 53/179 (29%), Positives = 86/179 (48%), Gaps = 9/179 (5%)

Query: 1   MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
           +  L   L+DKY +A +  D+  K D E + ++GA    ++  + TG   H     D  +
Sbjct: 55  IEKLIDNLKDKYKIACIAGDVIAKFDAERMEKHGA----KVVPLNTGKECHL----DAHL 106

Query: 61  NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 120
               LE+L NL + DLL  E+ G+ +            I +I  + GD    K    +  
Sbjct: 107 VGHALEDL-NLDEIDLLFIENVGNLICPADFDLGTHKRIVVISTTEGDDTIEKHPGIMKT 165

Query: 121 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA 179
           ADL+VINK DLA A+GAD+  ME DA R+      +   +K   G ++++  I ++ + 
Sbjct: 166 ADLIVINKIDLADAVGADIKKMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVKE 224

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus} Length = 221

 Score =  228 bits (584), Expect = 6e-77
 Identities = 47/182 (25%), Positives = 82/182 (45%), Gaps = 11/182 (6%)

Query: 1   MLALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDISI 60
           +    + + ++  + A+  D+ +K D E + R G     +  A+ TG   H     D  +
Sbjct: 47  IERTIERIGNEVKIGAMLGDVVSKADYERVRRFGI----KAEAISTGKECHL----DAHM 98

Query: 61  NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ 120
               L++ S+    DLLL E+ G+ +         +Y + ++ V+ GD +  K       
Sbjct: 99  IYHRLKKFSDC---DLLLIENVGNLICPVDFDLGENYRVVMVSVTEGDDVVEKHPEIFRV 155

Query: 121 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS 180
           ADL+VINK  LA A+GAD+  M+ DA  +      I   +K G G EE ++ +       
Sbjct: 156 ADLIVINKVALAEAVGADVEKMKADAKLINPRAKIIEMDLKTGKGFEEWIDFLRGILNVH 215

Query: 181 TG 182
           + 
Sbjct: 216 SD 217

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens} Length = 349

 Score = 40.2 bits (94), Expect = 1e-04
 Identities = 36/173 (20%), Positives = 68/173 (39%), Gaps = 21/173 (12%)

Query: 34  GALPEERIRAVETGGCPHAAIRED--------ISINLGPLEELSNLFKADLLLCESGGDN 85
           G+L  ++ R  E     +A IR          ++        L      D++L E+ G  
Sbjct: 119 GSLLGDKTRMTELSRDMNAYIRPSPTRGTLGGVTRTTNEAILLCEGAGYDIILIETVGVG 178

Query: 86  LAANFSRELADYIIYIIDVSGGDKI-PRKGGPGITQADLLVINKTDLASAIGADLAVME- 143
            +     ++ D  + ++  +GGD++   K G  I  ADL+ + K+D    + A     E 
Sbjct: 179 QSEFAVADMVDMFVLLLPPAGGDELQGIKRGI-IEMADLVAVTKSDGDLIVPARRIQAEY 237

Query: 144 RDALRM---RDGG---PFIFAQVKHGLGVEEIVNHIL--QAWEASTG--KKRR 186
             AL++   R        I    + G G+ E+ + +   Q    ++G    +R
Sbjct: 238 VSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQDLMLASGELTAKR 290

>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* 3nxs_A* 3tk1_A* Length = 355

 Score = 38.7 bits (90), Expect = 5e-04
 Identities = 34/172 (19%), Positives = 63/172 (36%), Gaps = 19/172 (11%)

Query: 34  GALPEERIRAVETGGCPHAAIRE--------DISINLGPLEELSNLFKADLLLCESGGDN 85
           G++  ++ R       P+A IR          ++        L      D++L E+ G  
Sbjct: 124 GSILGDKTRMARLAVHPNAYIRPSPTSGTLGGVTRATRETVVLLEAAGFDVILIETVGVG 183

Query: 86  LAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVME-R 144
            +      + D  + +     GD++       +  AD++V+NK D      A LA  E  
Sbjct: 184 QSEVAVANMVDTFVLLTLARTGDQLQGIKKGVLELADIVVVNKADGEHHKEARLAARELS 243

Query: 145 DALRM---RDGG---PFIFAQVKHGLGVEEIVNHIL--QAWEASTG--KKRR 186
            A+R+   R+     P +      G G+ E+ + +   +      G    RR
Sbjct: 244 AAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQVLTGAGEFDARR 295

>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 Length = 172

 Score = 37.5 bits (88), Expect = 8e-04
 Identities = 19/91 (20%), Positives = 37/91 (40%), Gaps = 16/91 (17%)

Query: 93  ELADYIIYIIDVSGGD-----KIPRKGGPGITQAD--LLVINKTDLASAIGADLAVMERD 145
           E AD +++++D +  D     +I  +    +       +V NK D+           E  
Sbjct: 82  EQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKADITG---------ETL 132

Query: 146 ALRMRDGGPFIFAQVKHGLGVEEIVNHILQA 176
            +   +G   I    + G GV+ + NH+ Q+
Sbjct: 133 GMSEVNGHALIRLSARTGEGVDVLRNHLKQS 163

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	186
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.8
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.77
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.76
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.72
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	99.58
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.49
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	99.41
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.37
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.11
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	98.98
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	98.96
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	98.92
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	98.91
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	98.9
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	98.9
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	98.9
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	98.89
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	98.88
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	98.87
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	98.87
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	98.86
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	98.85
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	98.84
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	98.84
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	98.83
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	98.82
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	98.82
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	98.82
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	98.81
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	98.81
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	98.81
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	98.81
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	98.81
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	98.8
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	98.8
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	98.79
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	98.79
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	98.79
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	98.79
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	98.78
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	98.78
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	98.78
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	98.77
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	98.77
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	98.76
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	98.76
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	98.76
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	98.75
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	98.75
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	98.75
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	98.75
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	98.75
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	98.75
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	98.74
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	98.74
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	98.74
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	98.73
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	98.73
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	98.73
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	98.73
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	98.73
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	98.72
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	98.72
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	98.72
1wb1_A	482	Translation elongation factor SELB; selenocysteine	98.72
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	98.71
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	98.71
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	98.71
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	98.71
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	98.7
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	98.7
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	98.69
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	98.69
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	98.69
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	98.68
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	98.68
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	98.68
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	98.68
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	98.68
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	98.67
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	98.67
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	98.67
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	98.66
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	98.66
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	98.66
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	98.66
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	98.65
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	98.65
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	98.64
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	98.64
2fh5_B	214	SR-beta, signal recognition particle receptor beta	98.63
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	98.63
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	98.63
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	98.62
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	98.62
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	98.62
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	98.61
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	98.6
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	98.6
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	98.6
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	98.58
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	98.58
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	98.57
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	98.57
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	98.56
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	98.53
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	98.51
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	98.51
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	98.5
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	98.5
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	98.5
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	98.5
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	98.5
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	98.49
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	98.48
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	98.48
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	98.48
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	98.48
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	98.48
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	98.48
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	98.48
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	98.47
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	98.47
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	98.47
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	98.46
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	98.46
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	98.46
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	98.45
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	98.45
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	97.82
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	98.43
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	98.42
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	98.41
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	98.4
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	98.4
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	98.37
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	98.37
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.36
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	98.34
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	98.33
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	98.31
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	98.3
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	98.27
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	98.27
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	98.27
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	98.27
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.26
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	98.25
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	98.25
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	98.24
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	98.23
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	98.23
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	98.22
3llu_A	196	RAS-related GTP-binding protein C; structural geno	98.21
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	98.2
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	98.2
2wji_A	165	Ferrous iron transport protein B homolog; membrane	98.2
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.2
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	98.19
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	98.19
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	98.18
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.17
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	98.15
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	98.15
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	98.15
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	98.12
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	98.11
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	98.11
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	98.1
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	98.08
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	98.07
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	98.05
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	98.01
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	97.99
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	97.99
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	97.97
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	97.97
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	97.94
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	97.93
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	97.93
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	97.89
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	97.87
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	97.83
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	97.74
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	97.73
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	97.73
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	97.7
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	97.69
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	97.69
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	97.62
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	97.62
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.61
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	97.51
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.5
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	97.49
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	97.48
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	97.46
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	97.35
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	97.26
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	97.22
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	97.2
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	97.07
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	97.06
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	97.05
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	97.01
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.0
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	96.94
1nrj_B	218	SR-beta, signal recognition particle receptor beta	96.9
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	96.46
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	96.4
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	96.33
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	95.96
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	95.85
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	95.82
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	95.28
1wxq_A	397	GTP-binding protein; structural genomics, riken st	94.82
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	94.12
2ged_A	193	SR-beta, signal recognition particle receptor beta	93.94
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	93.8
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	91.79
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	90.83
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	90.83
2xxa_A	433	Signal recognition particle protein; protein trans	90.76
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	88.05
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	86.71
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	86.37
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	83.81
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	80.58

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.80  E-value=3.1e-20  Score=144.54  Aligned_cols=168  Identities=28%  Similarity=0.386  Sum_probs=116.8

Q ss_pred             HHHHHHHhcCCcEEEEEcccCCchhHHHHHhcCCCCcCceEeccCCC-cccCCcccccccCcchhHhhhhhcCCcEEEEe
Q 029893            2 LALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGG-CPHAAIREDISINLGPLEELSNLFKADLLLCE   80 (186)
Q Consensus         2 ~~~~~~l~~~~~vaVi~nd~g~~iD~~~i~~~~~~~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l~~l~~~~~~D~iiIE   80 (186)
                      .+++..+....++++|.+|++.++|...+...+.    .++.+.+|| ||..  .+.+.   +.+.   ...++|++++|
T Consensus        48 ~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~----~~~~~~~~~~~~~~--~~~~~---~~~~---~~~~~d~iiid  115 (221)
T 2wsm_A           48 ERTIERIGNEVKIGAMLGDVVSKADYERVRRFGI----KAEAISTGKECHLD--AHMIY---HRLK---KFSDCDLLLIE  115 (221)
T ss_dssp             HHHHHHHTTTSCEEEEECSCCCHHHHHHHHTTTC----EEEECCCTTCSSCC--HHHHH---TTGG---GGTTCSEEEEE
T ss_pred             HHHHHHhccCCeEEEEecCCCCchhHHHHHhCCC----cEEEecCCceeecc--cHHHH---HHHH---hcCCCCEEEEe
Confidence            3455555444789999999998899998886554    578888888 6532  11111   2222   34589999999


Q ss_pred             cCCCeeEEeeeee-cCceEEEEEeCCCCCCCccCCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEe
Q 029893           81 SGGDNLAANFSRE-LADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQ  159 (186)
Q Consensus        81 tsG~~l~~~~~~~-~ad~~v~VvDa~~~~~~~~~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~S  159 (186)
                      |+|. +..|..+. .++.+++|+|++.+......+..+...+.++|+||+|+.+......+++.+.+++.+|.++++++|
T Consensus       116 t~G~-~~~~~~~~~~~~~~i~vvd~~~~~~~~~~~~~~~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~i~~~S  194 (221)
T 2wsm_A          116 NVGN-LICPVDFDLGENYRVVMVSVTEGDDVVEKHPEIFRVADLIVINKVALAEAVGADVEKMKADAKLINPRAKIIEMD  194 (221)
T ss_dssp             EEEB-SSGGGGCCCSCSEEEEEEEGGGCTTHHHHCHHHHHTCSEEEEECGGGHHHHTCCHHHHHHHHHHHCTTSEEEECB
T ss_pred             CCCC-CCCCchhccccCcEEEEEeCCCcchhhhhhhhhhhcCCEEEEecccCCcchhhHHHHHHHHHHHhCCCCeEEEee
Confidence            9992 22232221 357789999998875433233333567899999999997531135667777788778889999999


Q ss_pred             ccCCCCHHHHHHHHHHHHHHhhc
Q 029893          160 VKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       160 a~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      |++|.|++++++++.+.+..+..
T Consensus       195 a~~g~gi~~l~~~l~~~~~~~~~  217 (221)
T 2wsm_A          195 LKTGKGFEEWIDFLRGILNVHSD  217 (221)
T ss_dssp             TTTTBTHHHHHHHHHHHHC----
T ss_pred             cCCCCCHHHHHHHHHHHHHHHHh
Confidence            99999999999999987765544

>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=99.77  E-value=7.4e-19  Score=147.25  Aligned_cols=171  Identities=18%  Similarity=0.192  Sum_probs=106.6

Q ss_pred             HHHHHHHhc-CCcEEEEEcccCCch-------hHHHHHhcCCCCcCceEeccCCC-cccCCcccccccCcchhHhhhhhc
Q 029893            2 LALCKFLRD-KYSLAAVTNDIFTKE-------DGEFLMRNGALPEERIRAVETGG-CPHAAIREDISINLGPLEELSNLF   72 (186)
Q Consensus         2 ~~~~~~l~~-~~~vaVi~nd~g~~i-------D~~~i~~~~~~~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l~~l~~~~   72 (186)
                      .+++..+.. ++|++++.+|++...       |..++...+..+...++++.++| ||.++     ....+++ ...+..
T Consensus        97 ~~L~~~l~~~g~kV~vi~~Dp~~~~~~g~~l~d~~~~~~~~~~~~~~i~~~~~~~~~~~~~-----~~t~d~i-~~~~~~  170 (355)
T 3p32_A           97 EALGMHLIERGHRVAVLAVDPSSTRTGGSILGDKTRMARLAVHPNAYIRPSPTSGTLGGVT-----RATRETV-VLLEAA  170 (355)
T ss_dssp             HHHHHHHHTTTCCEEEEEEC----------------CHHHHTCTTEEEECCC--CCHHHHH-----HHHHHHH-HHHHHT
T ss_pred             HHHHHHHHhCCCceEEEecCCCCCcccchhccchhhHHhhccCCCeeEEECCCCccccchh-----HHHHHHH-HHHhhC
Confidence            355555654 599999999999433       33333322222333677888888 76541     2222555 344467


Q ss_pred             CCcEEEEecCCCeeEEeeeeecCceEEEEEeCCCCCCCccCCCCCCCceeEEEEecCCCCCcccccHHHHHHHHH----h
Q 029893           73 KADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDAL----R  148 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~~~~~~ad~~v~VvDa~~~~~~~~~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~----~  148 (186)
                      ++|++||||+|+.-........+|++++|+|+..++.........++.++++|+||+|+.+.  .......+.++    .
T Consensus       171 ~~~~iiiDTpGi~~~~~~~~~~aD~vl~V~d~~~~~~~~~l~~~~~~~p~ivVlNK~Dl~~~--~~~~~~~~~l~~~l~~  248 (355)
T 3p32_A          171 GFDVILIETVGVGQSEVAVANMVDTFVLLTLARTGDQLQGIKKGVLELADIVVVNKADGEHH--KEARLAARELSAAIRL  248 (355)
T ss_dssp             TCCEEEEEECSCSSHHHHHHTTCSEEEEEEESSTTCTTTTCCTTSGGGCSEEEEECCCGGGH--HHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCcHHHHHHHhCCEEEEEECCCCCccHHHHHHhHhhcCCEEEEECCCCcCh--hHHHHHHHHHHHHHhh
Confidence            89999999999432111112468999999999877654332333456799999999999765  33333333333    2


Q ss_pred             hCC-----CCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          149 MRD-----GGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       149 ~~p-----~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      ..|     ..|++++||++|+|+++|++++.++++..
T Consensus       249 ~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~~~  285 (355)
T 3p32_A          249 IYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQVL  285 (355)
T ss_dssp             HSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHHHH
T ss_pred             ccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHHh
Confidence            322     47999999999999999999999988763

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.76  E-value=1.9e-18  Score=134.84  Aligned_cols=167  Identities=32%  Similarity=0.456  Sum_probs=117.4

Q ss_pred             HHHHHHhcCCcEEEEEcccCCchhHHHHHhcCCCCcCceEeccCCC-cccCCcccccccCcchhHhhhhhcCCcEEEEec
Q 029893            3 ALCKFLRDKYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGG-CPHAAIREDISINLGPLEELSNLFKADLLLCES   81 (186)
Q Consensus         3 ~~~~~l~~~~~vaVi~nd~g~~iD~~~i~~~~~~~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l~~l~~~~~~D~iiIEt   81 (186)
                      +++..+....++++|.+||+.++|...+...+.    .++.+.+|| || +. ..|.   .+.+..+ ...++|++++||
T Consensus        57 ~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~----~~~~~~~~~~~~-l~-~~~~---~~~~~~l-~~~~~d~~~id~  126 (226)
T 2hf9_A           57 KLIDNLKDKYKIACIAGDVIAKFDAERMEKHGA----KVVPLNTGKECH-LD-AHLV---GHALEDL-NLDEIDLLFIEN  126 (226)
T ss_dssp             HHHHHHTTTCCEEEEEEETTTHHHHHHHHTTTC----EEEEEECTTCSS-CC-HHHH---HHHHTTS-CGGGCSEEEEEC
T ss_pred             HHHHHhccCCeEEEEECCCCCCccHHHHHhcCC----cEEEecCCceEe-cc-HHHH---HHHHHHH-hcCCCCEEEEeC
Confidence            445544444789999999998899998887654    678888888 55 31 1121   1333333 235789999999


Q ss_pred             CCCeeEEeeeee-cCceEEEEEeCCCCCCCccCCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEec
Q 029893           82 GGDNLAANFSRE-LADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQV  160 (186)
Q Consensus        82 sG~~l~~~~~~~-~ad~~v~VvDa~~~~~~~~~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa  160 (186)
                      +|. +..+.++. ..+..+.++|+..+...+..+..++..|+++|+||+|+.+......+.+.+.+++.++.++++++||
T Consensus       127 ~g~-i~~~~s~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  205 (226)
T 2hf9_A          127 VGN-LICPADFDLGTHKRIVVISTTEGDDTIEKHPGIMKTADLIVINKIDLADAVGADIKKMENDAKRINPDAEVVLLSL  205 (226)
T ss_dssp             CSC-SSGGGGCCCSCSEEEEEEEGGGCTTTTTTCHHHHTTCSEEEEECGGGHHHHTCCHHHHHHHHHHHCTTSEEEECCT
T ss_pred             CCC-ccCcchhhhccCcEEEEEecCcchhhHhhhhhHhhcCCEEEEeccccCchhHHHHHHHHHHHHHhCCCCeEEEEEe
Confidence            993 22232232 2466788899766554444444456779999999999975421246667777777778889999999


Q ss_pred             cCCCCHHHHHHHHHHHHHHh
Q 029893          161 KHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       161 ~~g~gi~~l~~~i~~~~~~~  180 (186)
                      ++|.|++++++++.+.+..+
T Consensus       206 ~~g~gv~~l~~~l~~~~~~~  225 (226)
T 2hf9_A          206 KTMEGFDKVLEFIEKSVKEV  225 (226)
T ss_dssp             TTCTTHHHHHHHHHHHHHHC
T ss_pred             cCCCCHHHHHHHHHHHHHhh
Confidence            99999999999999887654

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.72  E-value=1.6e-17  Score=138.96  Aligned_cols=170  Identities=17%  Similarity=0.144  Sum_probs=92.1

Q ss_pred             HHHHHHHhc-CCcEEEEEcccC-Cch------hHHHHHhcCCCCcCceEeccCCC-cccCCcccccccCcchhHhhhhhc
Q 029893            2 LALCKFLRD-KYSLAAVTNDIF-TKE------DGEFLMRNGALPEERIRAVETGG-CPHAAIREDISINLGPLEELSNLF   72 (186)
Q Consensus         2 ~~~~~~l~~-~~~vaVi~nd~g-~~i------D~~~i~~~~~~~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l~~l~~~~   72 (186)
                      ++++..+.. +.+++|+.+|++ ...      |..+|...+..+...+...+++| ||..+     ....+++..+ ...
T Consensus        92 n~L~~~~~~~~~~v~V~~~dp~~~~~~g~~l~d~~rm~~~~~~~~~~v~~~~~~~~lgg~t-----r~~~~~~~~~-~~~  165 (349)
T 2www_A           92 EYFGKMLTERGHKLSVLAVDPSSCTSGGSLLGDKTRMTELSRDMNAYIRPSPTRGTLGGVT-----RTTNEAILLC-EGA  165 (349)
T ss_dssp             HHHHHHHHHTTCCEEEEECCC----------------CCSTTCTTEEEECC---------C-----TTHHHHHHHH-HHT
T ss_pred             HHHHHHhhhcCCeEEEEeecCCCCCcCcchhchHHHHHHhcCCCCEEEEecCCccccccch-----HHHHHHHHhh-ccC
Confidence            445555554 389999999999 454      44445444332222455566777 66432     2222344322 357


Q ss_pred             CCcEEEEecCCCeeEEeeeeecCceEEEEEeCCCCCCCccCCCCCCCceeEEEEecCCCCCcccccH----HHHHHHHHh
Q 029893           73 KADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADL----AVMERDALR  148 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~~~~~~ad~~v~VvDa~~~~~~~~~~~~~~~~adiivlNK~Dl~~~~~~~~----~~~~~~l~~  148 (186)
                      ++|++|+||+|+.-........+|++++|+|++.++.........++.++++|+||+|+.+.  ...    ..+...++.
T Consensus       166 ~~~~iliDT~Gi~~~~~~l~~~~d~vl~V~d~~~~~~~~~i~~~il~~~~ivVlNK~Dl~~~--~~~~~~~~~l~~~l~~  243 (349)
T 2www_A          166 GYDIILIETVGVGQSEFAVADMVDMFVLLLPPAGGDELQGIKRGIIEMADLVAVTKSDGDLI--VPARRIQAEYVSALKL  243 (349)
T ss_dssp             TCSEEEEECCCC--CHHHHHTTCSEEEEEECCC------------CCSCSEEEECCCSGGGH--HHHHHHHHHHHHHHTT
T ss_pred             CCCEEEEECCCcchhhhhHHhhCCEEEEEEcCCcchhHHHhHHHHHhcCCEEEEeeecCCCc--hhHHHHHHHHHHHHHh
Confidence            89999999999421110112357999999999876543211113356789999999999754  222    223333333


Q ss_pred             hCC-----CCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          149 MRD-----GGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       149 ~~p-----~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      .+|     ..+++++||++|+|+++|+++|.++++.
T Consensus       244 ~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~~~  279 (349)
T 2www_A          244 LRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQDL  279 (349)
T ss_dssp             CC-----CCCEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             cCccccCCCceEEEEecCCCCCHHHHHHHHHHHHHH
Confidence            333     4689999999999999999999987764

>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=99.58  E-value=1.9e-16  Score=130.73  Aligned_cols=138  Identities=20%  Similarity=0.309  Sum_probs=96.1

Q ss_pred             cCCcEEEEEcccC-CchhHHHHHhcCCCCcCceEeccCCC-cccCCcccccccCcchhHhhh---hhc--CCcEEEEecC
Q 029893           10 DKYSLAAVTNDIF-TKEDGEFLMRNGALPEERIRAVETGG-CPHAAIREDISINLGPLEELS---NLF--KADLLLCESG   82 (186)
Q Consensus        10 ~~~~vaVi~nd~g-~~iD~~~i~~~~~~~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l~~l~---~~~--~~D~iiIEts   82 (186)
                      .++|+|||+||+| +++|+..+...+    +.+++|+||| ||+.  |+|+.   .++..+.   +..  .+|++++|++
T Consensus        29 ~~~~~aVi~~d~G~i~idg~~l~~~~----~~~~el~~gCicc~~--~~~~~---~~l~~l~~~~q~~~~~~~~~v~E~~   99 (318)
T 1nij_A           29 HGYKIAVIENEFGEVSVDDQLIGDRA----TQIKTLTNGCICCSR--SNELE---DALLDLLDNLDKGNIQFDRLVIECT   99 (318)
T ss_dssp             CCCCEEEECSSCCSCCEEEEEECTTS----CEEEEETTSCEEECT--TSCHH---HHHHHHHHHHHHTSCCCSEEEEEEE
T ss_pred             CCCcEEEEEecCcccCccHHHHhCCC----CCEEEECCCceEEcc--cHHHH---HHHHHHHhHHhcCCCCCCEEEEeCC
Confidence            4589999999999 899988776432    3789999999 9985  65554   4555552   333  3599999999


Q ss_pred             CCeeEEe----e--eee-----cCceEEEEEeCCCCCCCccC---CCCCCCceeEEEEecCCCCCcccccHHHHHHHHHh
Q 029893           83 GDNLAAN----F--SRE-----LADYIIYIIDVSGGDKIPRK---GGPGITQADLLVINKTDLASAIGADLAVMERDALR  148 (186)
Q Consensus        83 G~~l~~~----~--~~~-----~ad~~v~VvDa~~~~~~~~~---~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~  148 (186)
                      |+..-.+    +  ...     ..+-++.++|+.+.......   ...|...|+++++||.|+.++  .  +.+.+.+++
T Consensus       100 ~l~~p~~~~~~~~~~~~~~~~~~l~~~l~~vd~~~~~~~~~~ls~g~~Q~~~ad~ill~k~dl~de--~--~~l~~~l~~  175 (318)
T 1nij_A          100 GMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVGYADRILLTKTDVAGE--A--EKLHERLAR  175 (318)
T ss_dssp             TTCCHHHHHHHHHHSHHHHHHEEEEEEEEEEETTTHHHHHHHCHHHHHHHHTCSEEEEECTTTCSC--T--HHHHHHHHH
T ss_pred             CCCCHHHHHHHHhcCccccCeEEECCEEEEEEHHHHHHHHhhchHHHHHHHhCCEEEEECcccCCH--H--HHHHHHHHH
Confidence            9421011    1  010     12456889998765332211   123466799999999999966  3  677788888


Q ss_pred             hCCCCCEEEEec
Q 029893          149 MRDGGPFIFAQV  160 (186)
Q Consensus       149 ~~p~a~i~~~Sa  160 (186)
                      ++|.+.++.+|.
T Consensus       176 l~~~~~ii~~sh  187 (318)
T 1nij_A          176 INARAPVYTVTH  187 (318)
T ss_dssp             HCSSSCEEECCS
T ss_pred             hCCCCeEEEecc
Confidence            899999998774

>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=99.49  E-value=1.9e-14  Score=119.81  Aligned_cols=173  Identities=19%  Similarity=0.186  Sum_probs=91.0

Q ss_pred             HHHHHHhc-CCcEEEEEcccC-CchhHHHHHhcCCCCcCceEeccCCC-cccCCcccccccCc-chhHhh--hhhcCCcE
Q 029893            3 ALCKFLRD-KYSLAAVTNDIF-TKEDGEFLMRNGALPEERIRAVETGG-CPHAAIREDISINL-GPLEEL--SNLFKADL   76 (186)
Q Consensus         3 ~~~~~l~~-~~~vaVi~nd~g-~~iD~~~i~~~~~~~~~~~~~l~~Gc-cc~l~~r~d~~~~~-~~l~~l--~~~~~~D~   76 (186)
                      .++..+.. +.+++++.+|++ +..++.++.....  .+......+|+ ||..+ +..+.... +.+..+  ....++++
T Consensus        75 ~l~~~~~~~~~~v~v~~~d~~~~~~~~~il~d~~~--~~~~~~~~~~~i~~~~~-~~~l~g~~~~~~~~~~~~~~~~~~i  151 (341)
T 2p67_A           75 AFGMLLIREGLKVAVIAVDPSSPVTGGSILGDKTR--MNDLARAEAAFIRPVPS-SGHLGGASQRARELMLLCEAAGYDV  151 (341)
T ss_dssp             HHHHHHHHTTCCEEEEEECCC-----------------CTTTTCTTEEEEEECC------CHHHHHHHHHHHHHHTTCSE
T ss_pred             HHHHHHHhcCCeEEEEeecCCcCCCCcceecccch--HHhhccCCCceeecCcc-ccccchhHHHHHHHHHHhhccCCCE
Confidence            34444443 589999999999 5656555432110  01112224566 55421 11011111 112222  12468999


Q ss_pred             EEEecCCCeeEEeeeeecCceEEEEEeCCCCCCCccCCCCCCCceeEEEEecCCCCCcccccHHH----HHHHHHhhCC-
Q 029893           77 LLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAV----MERDALRMRD-  151 (186)
Q Consensus        77 iiIEtsG~~l~~~~~~~~ad~~v~VvDa~~~~~~~~~~~~~~~~adiivlNK~Dl~~~~~~~~~~----~~~~l~~~~p-  151 (186)
                      +||||+|+.-........+|.+++|+|+..++........+...+.++|+||+|+.+.  .....    +.+.++..++ 
T Consensus       152 ~liDTpG~~~~~~~~~~~aD~vl~Vvd~~~~~~~~~l~~~~~~~p~ivv~NK~Dl~~~--~~~~~~~~~l~~~l~~~~~~  229 (341)
T 2p67_A          152 VIVETVGVGQSETEVARMVDCFISLQIAGGGDDLQGIKKGLMEVADLIVINKDDGDNH--TNVAIARHMYESALHILRRK  229 (341)
T ss_dssp             EEEEEECCTTHHHHHHTTCSEEEEEECC------CCCCHHHHHHCSEEEECCCCTTCH--HHHHHHHHHHHHHHHHSCCS
T ss_pred             EEEeCCCccchHHHHHHhCCEEEEEEeCCccHHHHHHHHhhhcccCEEEEECCCCCCh--HHHHHHHHHHHHHHHhcccc
Confidence            9999999421001112457999999999876542111111234589999999999865  23332    2222323332 


Q ss_pred             ----CCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          152 ----GGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       152 ----~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                          ..+++++||++|.|++++++++.+..+.+
T Consensus       230 ~~~~~~~vi~iSA~~g~gi~~L~~~l~~~~~~~  262 (341)
T 2p67_A          230 YDEWQPRVLTCSALEKRGIDEIWHAIIDFKTAL  262 (341)
T ss_dssp             BTTBCCEEEECBGGGTBSHHHHHHHHHHHHHHH
T ss_pred             ccCCCCcEEEeeCCCCCCHHHHHHHHHHHHHHH
Confidence                46899999999999999999999877643

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=99.41  E-value=3.4e-13  Score=112.17  Aligned_cols=173  Identities=16%  Similarity=0.168  Sum_probs=94.6

Q ss_pred             HHHHHhc-CCcEEEEEcccC-CchhHHHH---HhcCCCCcC-ceEeccCCCcccCCcccccccCcchhHhhhhhcCCcEE
Q 029893            4 LCKFLRD-KYSLAAVTNDIF-TKEDGEFL---MRNGALPEE-RIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLL   77 (186)
Q Consensus         4 ~~~~l~~-~~~vaVi~nd~g-~~iD~~~i---~~~~~~~~~-~~~~l~~Gccc~l~~r~d~~~~~~~l~~l~~~~~~D~i   77 (186)
                      ++..+.. +.+++|+.+|++ ...++.+.   .+.+.++.+ ....-....||++  ++......+++. +.+..++|++
T Consensus        75 l~g~~~~~~g~v~i~~~d~~~~~~~~~~~~~~~~i~~v~q~~~~~~~~~~~~~~l--~G~tr~~~e~~~-~~~~~~~~~i  151 (337)
T 2qm8_A           75 LGSLLTAAGHKVAVLAVDPSSTRTGGSILGDKTRMARLAIDRNAFIRPSPSSGTL--GGVAAKTRETML-LCEAAGFDVI  151 (337)
T ss_dssp             HHHHHHHTTCCEEEEEECGGGGSSCCCSSCCGGGSTTGGGCTTEEEECCCCCSSH--HHHHHHHHHHHH-HHHHTTCCEE
T ss_pred             HHHhhhhCCCEEEEEEEcCcccccccchHHHhhhheeeccCcccccccCcccccc--cchHHHHHHHHH-HHhcCCCCEE
Confidence            3344443 478999999987 33211100   111211111 1111112336765  222222223332 2345799999


Q ss_pred             EEecCCCeeEEeeeeecCceEEEEEeCCCCCCCccCCCCCCCceeEEEEecCCCCCcccccH----HHHHHHHHhhCC--
Q 029893           78 LCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADL----AVMERDALRMRD--  151 (186)
Q Consensus        78 iIEtsG~~l~~~~~~~~ad~~v~VvDa~~~~~~~~~~~~~~~~adiivlNK~Dl~~~~~~~~----~~~~~~l~~~~p--  151 (186)
                      ||||+|+.-........+|++++|+|+..++..........+.++++++||+|+.+.. ...    +++...+...+|  
T Consensus       152 liDT~Gi~~~~~~v~~~~d~vl~v~d~~~~~~~~~i~~~i~~~~~ivvlNK~Dl~~~~-~~s~~~~~~l~~a~~l~~~~~  230 (337)
T 2qm8_A          152 LVETVGVGQSETAVADLTDFFLVLMLPGAGDELQGIKKGIFELADMIAVNKADDGDGE-RRASAAASEYRAALHILTPPS  230 (337)
T ss_dssp             EEEECSSSSCHHHHHTTSSEEEEEECSCC------CCTTHHHHCSEEEEECCSTTCCH-HHHHHHHHHHHHHHTTBCCSB
T ss_pred             EEECCCCCcchhhHHhhCCEEEEEEcCCCcccHHHHHHHHhccccEEEEEchhccCch-hHHHHHHHHHHHHHHhccccc
Confidence            9999994321111123579999999987654321111122356899999999987531 111    222222222332  


Q ss_pred             ---CCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          152 ---GGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       152 ---~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                         ..+++++||++|.|+++|++.|.++++..
T Consensus       231 ~~~~~~vl~~Sal~g~gi~~L~~~I~~~~~~~  262 (337)
T 2qm8_A          231 ATWTPPVVTISGLHGKGLDSLWSRIEDHRSKL  262 (337)
T ss_dssp             TTBCCCEEEEBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             cCCCCCEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence               46899999999999999999999887643

>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=99.37  E-value=9.5e-14  Score=110.37  Aligned_cols=106  Identities=15%  Similarity=0.163  Sum_probs=70.0

Q ss_pred             CCcEEEEecCCCeeEEee---------eeecCceEEEEEeCCCCCCCccCC---------CCCCCceeEEEEecCCCCCc
Q 029893           73 KADLLLCESGGDNLAANF---------SRELADYIIYIIDVSGGDKIPRKG---------GPGITQADLLVINKTDLASA  134 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~~---------~~~~ad~~v~VvDa~~~~~~~~~~---------~~~~~~adiivlNK~Dl~~~  134 (186)
                      ++|++||||+|..-..+.         .+.. +++++++|+..........         ..+...+.++|+||+|+.+.
T Consensus       108 ~~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~~~~~p~~iv~NK~D~~~~  186 (262)
T 1yrb_A          108 ENDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSE  186 (262)
T ss_dssp             HCSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCCH
T ss_pred             cCCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhcccCCCeEEEEeccccccc
Confidence            589999999993100000         1223 7789999987643321110         11234688999999999865


Q ss_pred             ccccHHHHHH----------H------------------HHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          135 IGADLAVMER----------D------------------ALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       135 ~~~~~~~~~~----------~------------------l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                        .+.+.+.+          .                  +++.++..+++++||++|+|+++|++++.+.++...
T Consensus       187 --~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~~~~  259 (262)
T 1yrb_A          187 --EEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYCTCG  259 (262)
T ss_dssp             --HHHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             --ccHHHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHHHHHHHhcccc
Confidence              32222221          1                  234456678999999999999999999999887654

>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=99.11  E-value=5.7e-11  Score=97.43  Aligned_cols=106  Identities=20%  Similarity=0.251  Sum_probs=76.4

Q ss_pred             CCcEEEEecCCCeeEE-------------eeeeecCceEEEEEeCCCCCCCcc-----CCCCCCCceeEEEEecCCCC-C
Q 029893           73 KADLLLCESGGDNLAA-------------NFSRELADYIIYIIDVSGGDKIPR-----KGGPGITQADLLVINKTDLA-S  133 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~-------------~~~~~~ad~~v~VvDa~~~~~~~~-----~~~~~~~~adiivlNK~Dl~-~  133 (186)
                      +..++|++|+|..-..             ...+..+|++++|+|++++.....     ........+.++|+||+|+. +
T Consensus        58 ~~~i~lvDTPG~~~~~~~~~l~~~~~~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~~~~pvilV~NK~Dl~~~  137 (308)
T 3iev_A           58 EAQIIFLDTPGIYEPKKSDVLGHSMVEIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKPLNKPVIVVINKIDKIGP  137 (308)
T ss_dssp             TEEEEEEECCCCCCCCTTCHHHHHHHHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGGGCCCEEEEEECGGGSSS
T ss_pred             CCeEEEEECcCCCccccchhHHHHHHHHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHhcCCCEEEEEECccCCCC
Confidence            7889999999942100             011235799999999987643211     11122456899999999998 4


Q ss_pred             cccccHHHHHHHHHhhC-CCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          134 AIGADLAVMERDALRMR-DGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       134 ~~~~~~~~~~~~l~~~~-p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      .  .......+.+.+.. +..+++++||++|.|++++++++.+++++.
T Consensus       138 ~--~~~~~~~~~l~~~~~~~~~i~~vSA~~g~gv~~L~~~l~~~l~~~  183 (308)
T 3iev_A          138 A--KNVLPLIDEIHKKHPELTEIVPISALKGANLDELVKTILKYLPEG  183 (308)
T ss_dssp             G--GGGHHHHHHHHHHCTTCCCEEECBTTTTBSHHHHHHHHHHHSCBC
T ss_pred             H--HHHHHHHHHHHHhccCCCeEEEEeCCCCCCHHHHHHHHHHhCccC
Confidence            4  45555556666655 678999999999999999999999887653

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=98.98  E-value=3.5e-10  Score=87.23  Aligned_cols=108  Identities=10%  Similarity=0.000  Sum_probs=71.2

Q ss_pred             cCCcEEEEecCCCeeE-------E-------ee--eeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCC
Q 029893           72 FKADLLLCESGGDNLA-------A-------NF--SRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDL  131 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~-------~-------~~--~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl  131 (186)
                      .+..+.|++|+|..-.       .       .+  ....+|++++|+|+.++.....    ........+.++|+||+|+
T Consensus        77 ~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~l~~~~~p~i~v~nK~Dl  156 (223)
T 4dhe_A           77 AEPVAHLVDLPGYGYAEVPGAAKAHWEQLLSSYLQTRPQLCGMILMMDARRPLTELDRRMIEWFAPTGKPIHSLLTKCDK  156 (223)
T ss_dssp             TSCSEEEEECCCCCSSCCCSTHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHGGGCCCEEEEEECGGG
T ss_pred             CCCcEEEEcCCCCCcccCChhhHHHHHHHHHHHHhcCcCcCEEEEEEeCCCCCCHHHHHHHHHHHhcCCCEEEEEecccc
Confidence            4688999999994210       0       00  0112578999999987543211    1111244689999999999


Q ss_pred             CCcccccH----HHHHHHHHhh-----CCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          132 ASAIGADL----AVMERDALRM-----RDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       132 ~~~~~~~~----~~~~~~l~~~-----~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      .+.  .+.    +.+.+.+...     .+..+++++||++|.|+++++++|.+.++...
T Consensus       157 ~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~~~  213 (223)
T 4dhe_A          157 LTR--QESINALRATQKSLDAYRDAGYAGKLTVQLFSALKRTGLDDAHALIESWLRPAA  213 (223)
T ss_dssp             SCH--HHHHHHHHHHHHHHHHHHHHTCCSCEEEEEEBTTTTBSHHHHHHHHHHHHC---
T ss_pred             CCh--hhHHHHHHHHHHHHHhhhhcccCCCCeEEEeecCCCcCHHHHHHHHHHhcCccC
Confidence            876  333    3333444443     35679999999999999999999998876543

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=98.96  E-value=6.1e-10  Score=84.08  Aligned_cols=111  Identities=17%  Similarity=0.060  Sum_probs=74.3

Q ss_pred             hcCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc------CCCCC----------CCceeEEEEecCCC
Q 029893           71 LFKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR------KGGPG----------ITQADLLVINKTDL  131 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~------~~~~~----------~~~adiivlNK~Dl  131 (186)
                      ..+..+.|++|+|..--   ....+..+|.+++|+|+++......      .....          -..+.++|+||+|+
T Consensus        60 ~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl  139 (199)
T 4bas_A           60 KGRVAFTVFDMGGAKKFRGLWETYYDNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDA  139 (199)
T ss_dssp             ETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTS
T ss_pred             eCCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCC
Confidence            35678999999994110   0112345799999999988643110      00000          15688999999999


Q ss_pred             CCcccccHHHHHHHHHh----hCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhcc
Q 029893          132 ASAIGADLAVMERDALR----MRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTGK  183 (186)
Q Consensus       132 ~~~~~~~~~~~~~~l~~----~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~~  183 (186)
                      .+.  ...+++.+.+..    .....+++++||++|.|++++++++.+.+...+++
T Consensus       140 ~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~~~  193 (199)
T 4bas_A          140 AGA--KTAAELVEILDLTTLMGDHPFVIFASNGLKGTGVHEGFSWLQETASRQSGK  193 (199)
T ss_dssp             TTC--CCHHHHHHHHTHHHHHTTSCEEEEECBTTTTBTHHHHHHHHHHHHHHHC--
T ss_pred             CCC--CCHHHHHHHhcchhhccCCeeEEEEeeCCCccCHHHHHHHHHHHHHHHhcc
Confidence            876  444444444321    12356899999999999999999999888766543

>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=98.92  E-value=6e-09  Score=77.11  Aligned_cols=107  Identities=14%  Similarity=0.108  Sum_probs=67.9

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--C----------CCCCCCceeEEEEecCCCCCccc-
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--K----------GGPGITQADLLVINKTDLASAIG-  136 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~----------~~~~~~~adiivlNK~Dl~~~~~-  136 (186)
                      ...+.+++|+|..--   ....+..+|.+++|+|+++......  .          .......+.++|+||+|+.+... 
T Consensus        57 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~  136 (182)
T 1ky3_A           57 VATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKI  136 (182)
T ss_dssp             CEEEEEECCC----------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCC
T ss_pred             EEEEEEEECCCChHhhhhhHHHhhcCCEEEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCcccccccc
Confidence            567899999993110   1112345799999999987532110  0          01113457899999999965411 


Q ss_pred             ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          137 ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       137 ~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      ...+...+..+ ..+..+++++||++|.|++++++++.+.+...
T Consensus       137 v~~~~~~~~~~-~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  179 (182)
T 1ky3_A          137 VSEKSAQELAK-SLGDIPLFLTSAKNAINVDTAFEEIARSALQQ  179 (182)
T ss_dssp             SCHHHHHHHHH-HTTSCCEEEEBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHH-hcCCCeEEEEecCCCCCHHHHHHHHHHHHHHh
Confidence            12333333333 24567999999999999999999998877654

>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=98.91  E-value=4.8e-09  Score=76.73  Aligned_cols=107  Identities=14%  Similarity=0.132  Sum_probs=66.1

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ..+.+.+.+|+|..-   .....+..+|.+++|+|+++.....         ......-..+.++|+||+|+.++.....
T Consensus        47 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~  126 (166)
T 3q72_A           47 EEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSV  126 (166)
T ss_dssp             EEEEEEEEECC---------------CCEEEEEEETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCCSSCCSCH
T ss_pred             EEEEEEEEECCCCccchhhhhhhhhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccccccccCH
Confidence            456788999999321   0112234579999999998653211         0111122457899999999986532233


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      +......+..  ..+++++||++|.|++++++++.+.+...
T Consensus       127 ~~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  165 (166)
T 3q72_A          127 DEGRACAVVF--DCKFIETSAALHHNVQALFEGVVRQIRLR  165 (166)
T ss_dssp             HHHHHHHHHT--TCEEEECBGGGTBSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh--CCcEEEeccCCCCCHHHHHHHHHHHHHhc
Confidence            3333333333  36999999999999999999999887654

>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=98.90  E-value=3e-09  Score=78.39  Aligned_cols=108  Identities=13%  Similarity=0.109  Sum_probs=67.9

Q ss_pred             CCcEEEEecCCCeeEEe-----eeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCccccc
Q 029893           73 KADLLLCESGGDNLAAN-----FSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~-----~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      ...+.+++|+|..-...     ..+..+|.+++|+|+++.....         ......-..+.++|+||+|+.+.....
T Consensus        51 ~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~v~  130 (175)
T 2nzj_A           51 DTTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCREVS  130 (175)
T ss_dssp             EEEEEEECCC-------CHHHHHTTTSCSEEEEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTCCSC
T ss_pred             EEEEEEEecCCCCccchhhhHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhccccccC
Confidence            46788999999321001     1123479999999998743211         011111245789999999998652222


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      .++.....+..  ..+++++||++|.|++++++++.+.+...+.
T Consensus       131 ~~~~~~~~~~~--~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~  172 (175)
T 2nzj_A          131 VEEGRACAVVF--DCKFIETSATLQHNVAELFEGVVRQLRLRRR  172 (175)
T ss_dssp             HHHHHHHHHHH--TSEEEECBTTTTBSHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHc--CCeEEEEecCCCCCHHHHHHHHHHHHHHhhc
Confidence            33333333333  3589999999999999999999988876555

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=98.90  E-value=7.1e-09  Score=77.80  Aligned_cols=106  Identities=18%  Similarity=0.179  Sum_probs=71.9

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      +..+.+++|+|..- .  ....+..+|.+++|+|+++......         .....-..+.++|+||+|+.+.  ...+
T Consensus        65 ~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~  142 (189)
T 2x77_A           65 NISFEVWDLGGQTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDA--ASEA  142 (189)
T ss_dssp             TEEEEEEEECCSSSSCCCCSSSSTTCCEEEEEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTC--CCHH
T ss_pred             CEEEEEEECCCCHhHHHHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCC--CCHH
Confidence            67889999999321 0  1112345799999999987643210         1111134689999999999876  4444


Q ss_pred             HHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          141 VMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       141 ~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      ++.+.+...   ....+++++||++|.|++++++++.+.+++.
T Consensus       143 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  185 (189)
T 2x77_A          143 EIAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGMDWLVERLREQ  185 (189)
T ss_dssp             HHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHHhChhhccCCceEEEEccCCCccCHHHHHHHHHHHHHhc
Confidence            554443311   1234799999999999999999999887654

>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=98.90  E-value=5e-09  Score=78.61  Aligned_cols=107  Identities=12%  Similarity=0.136  Sum_probs=71.2

Q ss_pred             cCCcEEEEecCCCeeEEe---eeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAAN---FSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~---~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+..+.|++|+|..--..   ..+..+|.+++|+|+++......         .....-..+.++|+||+|+.+.  ...
T Consensus        58 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~  135 (187)
T 1zj6_A           58 NNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC--MTV  135 (187)
T ss_dssp             TTEEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC--CCH
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcCC--CCH
Confidence            357899999999311011   12345799999999988643211         1111134688999999999875  445


Q ss_pred             HHHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          140 AVMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       140 ~~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      +++.+.+...   ....+++++||++|.|++++++++.+..+..
T Consensus       136 ~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  179 (187)
T 1zj6_A          136 AEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRLKIR  179 (187)
T ss_dssp             HHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHHCC-
T ss_pred             HHHHHHhChhhhcCCCcEEEEccCCCCcCHHHHHHHHHHHHHHH
Confidence            5555554321   2245899999999999999999998876543

>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=98.89  E-value=9.3e-09  Score=76.45  Aligned_cols=105  Identities=14%  Similarity=0.205  Sum_probs=69.0

Q ss_pred             CCcEEEEecCCCeeEEe---eeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLAAN---FSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~---~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      +..+.+++|+|..--..   ..+..+|.+++|+|+++......         ........+.++|+||+|+.++  ...+
T Consensus        61 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~  138 (183)
T 1moz_A           61 NLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA--LSAS  138 (183)
T ss_dssp             TEEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTC--CCHH
T ss_pred             CEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCCC--CCHH
Confidence            57889999999311011   11234689999999987643210         1111235689999999999876  4445


Q ss_pred             HHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          141 VMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       141 ~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ++.+.+...   ....+++++||++|.|++++++++.+.++.
T Consensus       139 ~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  180 (183)
T 1moz_A          139 EVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKE  180 (183)
T ss_dssp             HHHHHTTTTTCCSSCEEEEEEBGGGTBTHHHHHHHHHHHHHH
T ss_pred             HHHHHhCcccccCCceEEEEccCCCCcCHHHHHHHHHHHHHh
Confidence            554444321   123479999999999999999999987754

>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=98.88  E-value=6e-09  Score=76.43  Aligned_cols=105  Identities=15%  Similarity=0.152  Sum_probs=71.1

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc------CCCC---CCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR------KGGP---GITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~------~~~~---~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      +..+.+++|+|..--   ....+..+|.+++|+|+++......      ....   ....+.++|+||+|+.+.  ....
T Consensus        50 ~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~  127 (171)
T 1upt_A           50 NLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQA--MTSS  127 (171)
T ss_dssp             TEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCHH
T ss_pred             CEEEEEEECCCChhhhHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCC--CCHH
Confidence            678899999993210   1112345799999999988643211      0101   134588999999999876  4445


Q ss_pred             HHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          141 VMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       141 ~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ++...+...   ....+++++||++|.|++++++++.+.++.
T Consensus       128 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  169 (171)
T 1upt_A          128 EMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKS  169 (171)
T ss_dssp             HHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             HHHHHhCchhccCCceEEEECcCCCCcCHHHHHHHHHHHHhh
Confidence            555444321   123489999999999999999999887753

>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=98.87  E-value=4.4e-09  Score=80.14  Aligned_cols=102  Identities=14%  Similarity=0.062  Sum_probs=68.3

Q ss_pred             CCcEEEEecCCCeeEEe---eeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLAAN---FSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~---~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      +..+.+++|+|......   ..+..+|.+++|+|+++......         ........+.++|+||+|+.+.  ...+
T Consensus        68 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~  145 (198)
T 1f6b_A           68 GMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEA--ISEE  145 (198)
T ss_dssp             TEEEEEEEECC----CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTC--CCHH
T ss_pred             CEEEEEEECCCcHhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCcccc--CCHH
Confidence            47889999999321111   12345799999999987643110         0111134578999999999864  4455


Q ss_pred             HHHHHHHhhC---------------CCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          141 VMERDALRMR---------------DGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       141 ~~~~~l~~~~---------------p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      ++.+.++...               ...+++++||++|+|++++++++.+.
T Consensus       146 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~  196 (198)
T 1f6b_A          146 RLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQY  196 (198)
T ss_dssp             HHHHHHTCTTTCCCSSCCCTTTCCSCCEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             HHHHHhCcccccccccccccccccCceEEEEEEECCCCCCHHHHHHHHHHh
Confidence            5555554321               34589999999999999999998753

>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=98.87  E-value=3.7e-09  Score=79.07  Aligned_cols=106  Identities=14%  Similarity=0.088  Sum_probs=72.0

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+..+.+++|+|..--   ....+..+|.+++|+|+++......         ........+.++|+||+|+.++  ...
T Consensus        60 ~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~  137 (186)
T 1ksh_A           60 RGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGA--LSC  137 (186)
T ss_dssp             TTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCH
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCC--CCH
Confidence            3678899999993100   1112345799999999987643211         1111134688999999999876  445


Q ss_pred             HHHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          140 AVMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       140 ~~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      +++.+.+...   ....+++++||++|.|++++++++.+.+++
T Consensus       138 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  180 (186)
T 1ksh_A          138 NAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISS  180 (186)
T ss_dssp             HHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             HHHHHHhChhhccCCceEEEEeeCCCCCCHHHHHHHHHHHHHh
Confidence            5554444311   234589999999999999999999887764

>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=98.86  E-value=2.9e-09  Score=80.16  Aligned_cols=107  Identities=15%  Similarity=0.123  Sum_probs=71.0

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc---------CCCCC--CCceeEEEEecCCCCCccccc
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR---------KGGPG--ITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~--~~~adiivlNK~Dl~~~~~~~  138 (186)
                      +..+.|++|+|..- .  ....+..+|.+++|+|+++......         .....  -..+.++|+||+|+.+.  ..
T Consensus        66 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~  143 (190)
T 2h57_A           66 SLSFTVFDMSGQGRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDA--VT  143 (190)
T ss_dssp             SCEEEEEEECCSTTTGGGGGGGGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTTC--CC
T ss_pred             CEEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcccC--CC
Confidence            57899999999310 0  1112345799999999987532110         11111  34688999999999876  45


Q ss_pred             HHHHHHHHH--hhC-CCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          139 LAVMERDAL--RMR-DGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       139 ~~~~~~~l~--~~~-p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      .+++.+.++  .+. ...+++++||++|.|++++++++.+.+...+
T Consensus       144 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~k  189 (190)
T 2h57_A          144 SVKVSQLLCLENIKDKPWHICASDAIKGEGLQEGVDWLQDQIQTVK  189 (190)
T ss_dssp             HHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHC----
T ss_pred             HHHHHHHhChhhccCCceEEEEccCCCCcCHHHHHHHHHHHHHHhc
Confidence            555555553  221 3468999999999999999999998876554

>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=98.85  E-value=2.5e-09  Score=91.96  Aligned_cols=110  Identities=15%  Similarity=0.195  Sum_probs=77.1

Q ss_pred             CCcEEEEecCCCe----e---EE------e-eeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCc
Q 029893           73 KADLLLCESGGDN----L---AA------N-FSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        73 ~~D~iiIEtsG~~----l---~~------~-~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~  134 (186)
                      +..+.|++|+|+.    .   ..      + ..++.+|++++|+|++++......    +......+.++|+||||+.+.
T Consensus       242 ~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~llviD~~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~  321 (456)
T 4dcu_A          242 QQEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAVVLDGEEGIIEQDKRIAGYAHEAGKAVVIVVNKWDAVDK  321 (456)
T ss_dssp             TEEEEETTGGGTTTBTTBCCCCSHHHHHHHHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHHTTCEEEEEEECGGGSCC
T ss_pred             CceEEEEECCCCCcCcccchHHHHHHHHHHHHHHhhCCEEEEEEeCCCCcCHHHHHHHHHHHHcCCCEEEEEEChhcCCC
Confidence            4578899999941    0   00      1 122457999999999886432211    111235689999999999875


Q ss_pred             ccccHHHHHHHHHhhC---CCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          135 IGADLAVMERDALRMR---DGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       135 ~~~~~~~~~~~l~~~~---p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      .....+++.+.+++..   ++++++++||++|.|++++++++.+.++.++.
T Consensus       322 ~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~i~~~~~~~~~  372 (456)
T 4dcu_A          322 DESTMKEFEENIRDHFQFLDYAPILFMSALTKKRIHTLMPAIIKASENHSL  372 (456)
T ss_dssp             CSSHHHHHHHHHHHHCGGGTTSCEEECCTTTCTTGGGHHHHHHHHHHHHTC
T ss_pred             chHHHHHHHHHHHHhcccCCCCCEEEEcCCCCcCHHHHHHHHHHHHHHhcc
Confidence            3234456666666553   46899999999999999999999998877654

>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=98.84  E-value=3.8e-09  Score=78.68  Aligned_cols=106  Identities=15%  Similarity=0.125  Sum_probs=62.3

Q ss_pred             CCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc--CCC------CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR--KGG------PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~--~~~------~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ...+.|++|+|..--.   ...+..+|.+++|+|+++......  .+.      ..-..+.++|+||+|+.++.....+.
T Consensus        56 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~  135 (183)
T 2fu5_C           56 RIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKER  135 (183)
T ss_dssp             EEEEEEEEC---------CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHH
T ss_pred             EEEEEEEcCCCChhhhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCCccCcCCHHH
Confidence            4678899999931101   112345799999999987532110  010      01245789999999998642223344


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      ..+..+..+  .+++++||++|.|++++++++.+.+...
T Consensus       136 ~~~~~~~~~--~~~~~~Sa~~~~~i~~l~~~l~~~i~~~  172 (183)
T 2fu5_C          136 GEKLALDYG--IKFMETSAKANINVENAFFTLARDIKAK  172 (183)
T ss_dssp             HHHHHHHHT--CEEEECCC---CCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcC--CeEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            444444443  5899999999999999999998766543

>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=98.84  E-value=8e-09  Score=76.51  Aligned_cols=107  Identities=21%  Similarity=0.177  Sum_probs=69.5

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc--CCC------CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR--KGG------PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~--~~~------~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+.|++|+|..- .  ....+..+|.+++|+|+++......  .+.      .....+.++|+||+|+.++.....+.
T Consensus        59 ~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~  138 (180)
T 2g6b_A           59 KVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKRED  138 (180)
T ss_dssp             EEEEEEEECCCC--------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHH
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCcccccCHHH
Confidence            46788999999321 0  1112345799999999987532110  000      01345889999999998653223344


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      ..+..+..  ..+++++||++|.|++++++++.+.+...+
T Consensus       139 ~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  176 (180)
T 2g6b_A          139 GEKLAKEY--GLPFMETSAKTGLNVDLAFTAIAKELKRRS  176 (180)
T ss_dssp             HHHHHHHH--TCCEEECCTTTCTTHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHc--CCeEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            44444444  358999999999999999999998876543

>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=98.83  E-value=2.5e-09  Score=80.98  Aligned_cols=101  Identities=14%  Similarity=0.077  Sum_probs=68.5

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      +..+.+++|+|....   .+..+..+|.+++|+|+++......         .....-..+.++|+||+|+.+.  ...+
T Consensus        66 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~  143 (190)
T 1m2o_B           66 NIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNA--VSEA  143 (190)
T ss_dssp             TEEEEEEECCCSGGGTTSGGGGCTTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTC--CCHH
T ss_pred             CEEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcCC--CCHH
Confidence            478899999994210   1112345799999999988643110         1111134578999999999875  4455


Q ss_pred             HHHHHHHhh----------CCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          141 VMERDALRM----------RDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       141 ~~~~~l~~~----------~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      ++.+.++..          ....+++++||++|.|++++++++.+
T Consensus       144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~  188 (190)
T 1m2o_B          144 ELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQ  188 (190)
T ss_dssp             HHHHHTTCSSCCC---CCSSCCEEEEECBTTTTBSHHHHHHHHHT
T ss_pred             HHHHHhCCccccccccccccceEEEEEeECCcCCCHHHHHHHHHh
Confidence            555544432          13458999999999999999999865

>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=98.82  E-value=6.7e-10  Score=90.87  Aligned_cols=104  Identities=12%  Similarity=0.051  Sum_probs=71.3

Q ss_pred             hcCCcEEEEecCCCeeE-----------EeeeeecCceEEEEEeCCCCCCCccCC----CCCC--CceeEEEEecCCCCC
Q 029893           71 LFKADLLLCESGGDNLA-----------ANFSRELADYIIYIIDVSGGDKIPRKG----GPGI--TQADLLVINKTDLAS  133 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l~-----------~~~~~~~ad~~v~VvDa~~~~~~~~~~----~~~~--~~adiivlNK~Dl~~  133 (186)
                      ..+..++|++|+|..-.           ....+..+|.+++|+|++++......+    ....  ..+.++|+||+|+.+
T Consensus        52 ~~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l~~ad~il~VvD~~~~~~~~~~~i~~~l~~~~~~~p~ilV~NK~Dl~~  131 (301)
T 1wf3_A           52 EGRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLDAAK  131 (301)
T ss_dssp             ETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGTTTSCEEEEEECGGGCS
T ss_pred             eCCcEEEEecCccccchhhHHHHHHHHHHHHHHhcCCEEEEEEECCCCCChHHHHHHHHHHhhcCCCCEEEEEECcccCC
Confidence            34678999999994210           001234689999999998764321111    1112  468999999999987


Q ss_pred             cccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          134 AIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       134 ~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .  .. . +.+.++++.+..+++++||++|.|++++++++.+.++
T Consensus       132 ~--~~-~-~~~~~~~~~~~~~~~~iSA~~g~gv~~l~~~l~~~l~  172 (301)
T 1wf3_A          132 Y--PE-E-AMKAYHELLPEAEPRMLSALDERQVAELKADLLALMP  172 (301)
T ss_dssp             S--HH-H-HHHHHHHTSTTSEEEECCTTCHHHHHHHHHHHHTTCC
T ss_pred             c--hH-H-HHHHHHHhcCcCcEEEEeCCCCCCHHHHHHHHHHhcc
Confidence            5  33 0 2333444456678999999999999999999987654

>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=98.82  E-value=7.9e-09  Score=75.40  Aligned_cols=105  Identities=13%  Similarity=0.131  Sum_probs=69.2

Q ss_pred             cCCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+..+.|++|+|..--.   ...+..+|.+++|+|+++......         .....-..+.++|+||+|+.++  ...
T Consensus        42 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~  119 (164)
T 1r8s_A           42 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA--MNA  119 (164)
T ss_dssp             SSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCH
T ss_pred             CCEEEEEEEcCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCC--CCH
Confidence            46789999999931100   112345799999999987643210         0011124588999999999876  444


Q ss_pred             HHHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          140 AVMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       140 ~~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      +++...+...   ....+++++||++|.|++++++++.+.+.
T Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  161 (164)
T 1r8s_A          120 AEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLR  161 (164)
T ss_dssp             HHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHHHHC-
T ss_pred             HHHHHHhCcccccCccEEEEEcccCCCcCHHHHHHHHHHHHh
Confidence            4444443221   12347999999999999999999987664

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=98.82  E-value=4.6e-09  Score=77.69  Aligned_cols=107  Identities=14%  Similarity=0.197  Sum_probs=69.8

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccccHHHHHHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGADLAVMERD  145 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~  145 (186)
                      +..+.+++|+|..- .  ....+..+|.+++|+|++++.....    ........+.++|+||+|+.+.   ..+++...
T Consensus        54 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~l~~~~~~~~p~ilv~nK~Dl~~~---~~~~~~~~  130 (178)
T 2lkc_A           54 DKKITFLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQTVEAINHAKAANVPIIVAINKMDKPEA---NPDRVMQE  130 (178)
T ss_dssp             TEEEEESCCCSSSSSSCSCCSSCCCCCEEEEEEETTCCCCHHHHHHHHHHGGGSCCEEEEEETTTSSCS---CHHHHHHH
T ss_pred             CceEEEEECCCCHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHhCCCCEEEEEECccCCcC---CHHHHHHH
Confidence            45678999999310 0  1112345799999999877532110    0111234578999999999864   22333334


Q ss_pred             HHhhC-------CCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          146 ALRMR-------DGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       146 l~~~~-------p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      ++...       ...+++++||++|.|++++++++.+.....+-
T Consensus       131 ~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~~~  174 (178)
T 2lkc_A          131 LMEYNLVPEEWGGDTIFCKLSAKTKEGLDHLLEMILLVSEMEEL  174 (178)
T ss_dssp             HTTTTCCBTTTTSSEEEEECCSSSSHHHHHHHHHHHHHHHHTTT
T ss_pred             HHhcCcChhHcCCcccEEEEecCCCCCHHHHHHHHHHhhhhhcc
Confidence            43322       12489999999999999999999988776654

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=98.81  E-value=3.5e-09  Score=78.33  Aligned_cols=108  Identities=19%  Similarity=0.123  Sum_probs=71.7

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--CCCC-----CCCceeEEEEecCCCCCcccccHHHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--KGGP-----GITQADLLVINKTDLASAIGADLAVM  142 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~~~~-----~~~~adiivlNK~Dl~~~~~~~~~~~  142 (186)
                      ...+.|++|+|..-.   ....+..+|.+++|+|+++......  .+..     .-..+.++|+||+|+.+.........
T Consensus        57 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~  136 (181)
T 3tw8_B           57 KVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCDDVCRILVGNKNDDPERKVVETEDA  136 (181)
T ss_dssp             EEEEEEEEETTGGGCSSCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHCTTSEEEEEEECTTCGGGCCSCHHHH
T ss_pred             EEEEEEEcCCCchhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECCCCchhcccCHHHH
Confidence            367899999993110   1112345799999999987532110  0100     01357899999999986532233444


Q ss_pred             HHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          143 ERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       143 ~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      ....+..  ..+++++||++|.|++++++++.+.+...+.
T Consensus       137 ~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~  174 (181)
T 3tw8_B          137 YKFAGQM--GIQLFETSAKENVNVEEMFNCITELVLRAKK  174 (181)
T ss_dssp             HHHHHHH--TCCEEECBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHc--CCeEEEEECCCCCCHHHHHHHHHHHHHHHhh
Confidence            4444444  3599999999999999999999988776654

>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=98.81  E-value=1.2e-08  Score=76.57  Aligned_cols=108  Identities=17%  Similarity=0.161  Sum_probs=70.5

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc--c-------CCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP--R-------KGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~--~-------~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      .+++.|++|+|..- .  ....+..+|.+++|+|+.......  .       .+...-..+.++|+||+|+.+.. ...+
T Consensus        68 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~~-~~~~  146 (190)
T 3con_A           68 TCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPTRT-VDTK  146 (190)
T ss_dssp             EEEEEEEECCC-----------CTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSCCC-SCHH
T ss_pred             EEEEEEEECCChHHHHHHHHHhhCcCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCccc-CCHH
Confidence            56799999999321 0  112234579999999998753211  0       01111245789999999998631 2334


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhcc
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTGK  183 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~~  183 (186)
                      ...+..+..+  .+++++||++|.|++++++++.+.+...+.+
T Consensus       147 ~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~~  187 (190)
T 3con_A          147 QAHELAKSYG--IPFIETSAKTRQGVEDAFYTLVREIRQYRMK  187 (190)
T ss_dssp             HHHHHHHHHT--CCEEECCTTTCTTHHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHcC--CeEEEEeCCCCCCHHHHHHHHHHHHHHHHHh
Confidence            4444444443  5899999999999999999999988776653

>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=98.81  E-value=1.1e-08  Score=88.69  Aligned_cols=102  Identities=23%  Similarity=0.209  Sum_probs=66.2

Q ss_pred             cCCcEEEEecCCCee----EE-------eeeeecCceEEEEEeCCCCCCCc-----cCCCC-CCCceeEEEEecCCCCCc
Q 029893           72 FKADLLLCESGGDNL----AA-------NFSRELADYIIYIIDVSGGDKIP-----RKGGP-GITQADLLVINKTDLASA  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l----~~-------~~~~~~ad~~v~VvDa~~~~~~~-----~~~~~-~~~~adiivlNK~Dl~~~  134 (186)
                      .+..+.|++|+|..-    ..       ...+..+|++++|+|++++....     ..+.. .-..+.++|+||+|+.+.
T Consensus       279 ~g~~l~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l~~~piIvV~NK~Dl~~~  358 (476)
T 3gee_A          279 DKTMFRLTDTAGLREAGEEIEHEGIRRSRMKMAEADLILYLLDLGTERLDDELTEIRELKAAHPAAKFLTVANKLDRAAN  358 (476)
T ss_dssp             TTEEEEEEC--------------------CCCSSCSEEEEEEETTTCSSGGGHHHHHHHHHHCTTSEEEEEEECTTSCTT
T ss_pred             CCeEEEEEECCCCCcchhHHHHHHHHHHHhhcccCCEEEEEEECCCCcchhhhHHHHHHHHhcCCCCEEEEEECcCCCCc
Confidence            467899999999421    00       11234579999999999875431     00100 014689999999999876


Q ss_pred             ccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          135 IGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       135 ~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                        .....  +.+.+. +..+++++||++|.|++++++++.+.++
T Consensus       359 --~~~~~--~~l~~~-~~~~~i~vSAktg~GI~eL~~~i~~~~~  397 (476)
T 3gee_A          359 --ADALI--RAIADG-TGTEVIGISALNGDGIDTLKQHMGDLVK  397 (476)
T ss_dssp             --THHHH--HHHHHH-HTSCEEECBTTTTBSHHHHHHHHTHHHH
T ss_pred             --cchhH--HHHHhc-CCCceEEEEECCCCCHHHHHHHHHHHHh
Confidence              33321  233332 1268999999999999999999999887

>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=98.81  E-value=4.2e-09  Score=77.24  Aligned_cols=106  Identities=17%  Similarity=0.195  Sum_probs=69.6

Q ss_pred             cCCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc--cCCCC------CCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP--RKGGP------GITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~~~------~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ..+.+.|++|+|..- .  ....+..+|.+++|+|+++.....  ..+..      .-..+.++|+||+|+.++.....+
T Consensus        53 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~  132 (170)
T 1z08_A           53 KRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQ  132 (170)
T ss_dssp             CEEEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHH
T ss_pred             EEEEEEEEECCCcHhhhhhHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccccCHH
Confidence            346788999999321 0  112234579999999998753211  01100      023477999999999864223344


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      +..+..+..  ..+++++||++|.|++++++++.+.+.+
T Consensus       133 ~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  169 (170)
T 1z08_A          133 EAESYAESV--GAKHYHTSAKQNKGIEELFLDLCKRMIE  169 (170)
T ss_dssp             HHHHHHHHT--TCEEEEEBTTTTBSHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHc--CCeEEEecCCCCCCHHHHHHHHHHHHhh
Confidence            455444443  3689999999999999999999887653

>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=98.81  E-value=3.5e-09  Score=79.42  Aligned_cols=108  Identities=19%  Similarity=0.160  Sum_probs=72.8

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCC------C--ccCC-----CCCCCceeEEEEecCCCCCcc
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDK------I--PRKG-----GPGITQADLLVINKTDLASAI  135 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~------~--~~~~-----~~~~~~adiivlNK~Dl~~~~  135 (186)
                      ....+.|++|+|..--   .+..+..+|.+++|+|++++..      .  ...+     ...-..+.++|+||+|+.+. 
T Consensus        72 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~piilv~NK~Dl~~~-  150 (198)
T 3t1o_A           72 FKTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLDDVPIVIQVNKRDLPDA-  150 (198)
T ss_dssp             CEEEEEEEECCSCCSCSHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTCCTTSSCEEEEEECTTSTTC-
T ss_pred             CceEEEEEeCCChHHHHHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhccccCCCCEEEEEEchhcccc-
Confidence            3567899999993110   1112345799999999984311      0  0001     11134588999999999876 


Q ss_pred             cccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          136 GADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       136 ~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                       ...++..+.++.. ...+++++||++|.|++++++++.+.+.....
T Consensus       151 -~~~~~~~~~~~~~-~~~~~~~~Sa~~~~gv~~l~~~l~~~i~~~~~  195 (198)
T 3t1o_A          151 -LPVEMVRAVVDPE-GKFPVLEAVATEGKGVFETLKEVSRLVLARVA  195 (198)
T ss_dssp             -CCHHHHHHHHCTT-CCSCEEECBGGGTBTHHHHHHHHHHHHHHHHC
T ss_pred             -cCHHHHHHHHHhc-CCceEEEEecCCCcCHHHHHHHHHHHHHHHhh
Confidence             5556666555543 22399999999999999999999887765443

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=98.80  E-value=2.9e-09  Score=79.79  Aligned_cols=105  Identities=11%  Similarity=0.090  Sum_probs=69.5

Q ss_pred             CCcEEEEecCCCeeE-------Eee------eee---cCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCC
Q 029893           73 KADLLLCESGGDNLA-------ANF------SRE---LADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLA  132 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~-------~~~------~~~---~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~  132 (186)
                      +..+.+++|+|....       ..+      .+.   .+|++++|+|++.......    .+......+.++|+||+|+.
T Consensus        67 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~  146 (195)
T 3pqc_A           67 NSKYYFVDLPGYGYAKVSKKERMLWKRLVEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKSLNIPFTIVLTKMDKV  146 (195)
T ss_dssp             TTTEEEEECCCBSSSCCCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHTTCCEEEEEECGGGS
T ss_pred             CCcEEEEECCCCccccCChhhHHHHHHHHHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHHcCCCEEEEEEChhcC
Confidence            457889999993210       000      111   2388999999877543211    11122356899999999998


Q ss_pred             CcccccHHHHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          133 SAIGADLAVMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       133 ~~~~~~~~~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ++  .+.....+.+++.   ....+++++||++|.|++++++++.+.+++
T Consensus       147 ~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l~~  194 (195)
T 3pqc_A          147 KM--SERAKKLEEHRKVFSKYGEYTIIPTSSVTGEGISELLDLISTLLKE  194 (195)
T ss_dssp             CG--GGHHHHHHHHHHHHHSSCCSCEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             Ch--HHHHHHHHHHHHHHhhcCCCceEEEecCCCCCHHHHHHHHHHHhhc
Confidence            76  4444444444332   234699999999999999999999987653

>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=98.80  E-value=9.3e-09  Score=75.37  Aligned_cols=106  Identities=16%  Similarity=0.144  Sum_probs=69.2

Q ss_pred             cCCcEEEEecCCCeeEE----eeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCccccc
Q 029893           72 FKADLLLCESGGDNLAA----NFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~----~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      ..+.+.+++|+|..-..    ...+..+|.+++|+|+++......         .....-..+.++|+||+|+.+.....
T Consensus        49 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~  128 (169)
T 3q85_A           49 EEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVS  128 (169)
T ss_dssp             EEEEEEEECCCCC--------CHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGGCCSC
T ss_pred             eEEEEEEEECCCccccchhhhhhhhccCCEEEEEEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhcccCC
Confidence            35678899999942111    111234799999999987432110         01111245889999999998543233


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      .+...+..+..  ..+++++||++|.|++++++++.+.+..
T Consensus       129 ~~~~~~~~~~~--~~~~~~~Sa~~~~~v~~l~~~l~~~i~~  167 (169)
T 3q85_A          129 LEEGRHLAGTL--SCKHIETSAALHHNTRELFEGAVRQIRL  167 (169)
T ss_dssp             HHHHHHHHHHT--TCEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHc--CCcEEEecCccCCCHHHHHHHHHHHHHh
Confidence            34444444444  3599999999999999999999887654

>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=98.79  E-value=1.2e-08  Score=77.50  Aligned_cols=105  Identities=13%  Similarity=0.120  Sum_probs=68.8

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc--cCC-------C---CCCCceeEEEEecCCCCCcccc
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP--RKG-------G---PGITQADLLVINKTDLASAIGA  137 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~-------~---~~~~~adiivlNK~Dl~~~~~~  137 (186)
                      .+.+.|++|+|... .  ....+..+|.+++|+|+++.....  ..+       .   .....+.++|+||+|+.+.. .
T Consensus        56 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-~  134 (207)
T 1vg8_A           56 LVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQ-V  134 (207)
T ss_dssp             EEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCC-S
T ss_pred             EEEEEEEeCCCcHHHHHhHHHHHhCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCcccc-c
Confidence            46789999999311 0  111234579999999998753211  000       0   01245789999999998531 2


Q ss_pred             cHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          138 DLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       138 ~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ..+......+ .....+++++||++|.|++++++++.+.+..
T Consensus       135 ~~~~~~~~~~-~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  175 (207)
T 1vg8_A          135 ATKRAQAWCY-SKNNIPYFETSAKEAINVEQAFQTIARNALK  175 (207)
T ss_dssp             CHHHHHHHHH-HTTSCCEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHH-hcCCceEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            3334433333 2346799999999999999999999876654

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=98.79  E-value=5e-09  Score=78.76  Aligned_cols=107  Identities=21%  Similarity=0.183  Sum_probs=70.5

Q ss_pred             CCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc--CCC------CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR--KGG------PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~--~~~------~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+.|++|+|..--.   ...+..+|.+++|+|+++......  .+.      ..-..+.++|+||+|+.+......+.
T Consensus        64 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~  143 (196)
T 3tkl_A           64 TIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTT  143 (196)
T ss_dssp             EEEEEEEEECCSGGGCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHH
T ss_pred             EEEEEEEECCCcHhhhhhHHHHHhhCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccCHHH
Confidence            4678999999931100   112345799999999987532110  010      01145789999999998763223333


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      .....+..  ..+++++||++|.|++++++++.+.+....
T Consensus       144 ~~~~~~~~--~~~~~~~Sa~~g~gv~~l~~~l~~~i~~~~  181 (196)
T 3tkl_A          144 AKEFADSL--GIPFLETSAKNATNVEQSFMTMAAEIKKRM  181 (196)
T ss_dssp             HHHHHHHT--TCCEEEECTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHc--CCcEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            44333443  369999999999999999999988776543

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=98.79  E-value=4.9e-09  Score=79.74  Aligned_cols=109  Identities=15%  Similarity=0.103  Sum_probs=69.8

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ..+.+.|++|+|..--   ....+..+|.+++|+|+++.....         ......-..+.++|+||+|+.++.....
T Consensus        70 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~  149 (201)
T 3oes_A           70 DEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQA  149 (201)
T ss_dssp             -CEEEEEEEECCCCTTCCCCGGGTTTCCEEEEEEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGGCCSCH
T ss_pred             EEEEEEEEECCCccchHHHHHHHHhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCccccccCH
Confidence            4677899999993110   111234579999999998643211         0111122457899999999986532233


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      .......+..  ..+++++||++|.|++++++++.+.+...+.
T Consensus       150 ~~~~~~~~~~--~~~~~~~Sa~~~~~v~~l~~~l~~~i~~~~~  190 (201)
T 3oes_A          150 VEGKKLAESW--GATFMESSARENQLTQGIFTKVIQEIARVEN  190 (201)
T ss_dssp             HHHHHHHHHH--TCEEEECCTTCHHHHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHh--CCeEEEEeCCCCCCHHHHHHHHHHHHHhhhh
Confidence            3444444444  3599999999999999999999887765443

>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=98.79  E-value=5.8e-09  Score=75.94  Aligned_cols=104  Identities=12%  Similarity=0.135  Sum_probs=69.1

Q ss_pred             CCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      .+.+.|++|+|..--.   ...+..+|.+++|+|+++......         .....-..+.++|+||+|+.++.....+
T Consensus        51 ~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~  130 (168)
T 1u8z_A           51 EVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVE  130 (168)
T ss_dssp             EEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHH
T ss_pred             EEEEEEEECCCcchhHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccccccCccCHH
Confidence            5688999999921000   011235799999999987432110         0111124578999999999765323344


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      +.....+..+  .+++++||++|.|++++++++.+.+.
T Consensus       131 ~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~l~~~i~  166 (168)
T 1u8z_A          131 EAKNRADQWN--VNYVETSAKTRANVDKVFFDLMREIR  166 (168)
T ss_dssp             HHHHHHHHHT--CEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcC--CeEEEeCCCCCCCHHHHHHHHHHHHH
Confidence            5555555543  58999999999999999999987664

>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=98.78  E-value=5e-09  Score=81.49  Aligned_cols=108  Identities=14%  Similarity=0.116  Sum_probs=67.9

Q ss_pred             CCcEEEEecCCCee----EEe---e-----eeecCceEEEEEeCCCCCCCcc----CC----CCC-CCceeEEEEecCCC
Q 029893           73 KADLLLCESGGDNL----AAN---F-----SRELADYIIYIIDVSGGDKIPR----KG----GPG-ITQADLLVINKTDL  131 (186)
Q Consensus        73 ~~D~iiIEtsG~~l----~~~---~-----~~~~ad~~v~VvDa~~~~~~~~----~~----~~~-~~~adiivlNK~Dl  131 (186)
                      +..+.|++|+|..-    ...   +     ....+|.+++|+|+++......    .+    ... -..+.++|+||+|+
T Consensus        75 ~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~~~~piilv~nK~Dl  154 (228)
T 2qu8_A           75 LNKYQIIDTPGLLDRAFENRNTIEMTTITALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSVFSNKSIVIGFNKIDK  154 (228)
T ss_dssp             TEEEEEEECTTTTTSCGGGCCHHHHHHHHHHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC-CCCEEEEEECGGG
T ss_pred             CCeEEEEECCCCcCcccchhhhHHHHHHHHhhccccEEEEEEecccccCcchHHHHHHHHHHHHhhcCCcEEEEEeCccc
Confidence            56789999999410    000   0     1234689999999987643220    01    111 14688999999999


Q ss_pred             CCcccccH---HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          132 ASAIGADL---AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       132 ~~~~~~~~---~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      .+......   +......+..++..+++++||++|.|++++++++.+.+...
T Consensus       155 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~  206 (228)
T 2qu8_A          155 CNMDSLSIDNKLLIKQILDNVKNPIKFSSFSTLTGVGVEQAKITACELLKND  206 (228)
T ss_dssp             CC--CCCHHHHHHHHHHHHHCCSCEEEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             CCchhhHHHHHHHHHHHHHhcCCCceEEEEecccCCCHHHHHHHHHHHHHHH
Confidence            86521111   12222233333346899999999999999999998876544

>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=98.78  E-value=8.6e-09  Score=77.25  Aligned_cols=105  Identities=20%  Similarity=0.151  Sum_probs=68.6

Q ss_pred             CCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc------CCCC---CCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR------KGGP---GITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~------~~~~---~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      +..+.+++|+|..--.   ...+..+|.+++|+|+++......      ....   .-..+.++|+||+|+.+.  ...+
T Consensus        59 ~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~  136 (181)
T 1fzq_A           59 GFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTA--APAS  136 (181)
T ss_dssp             TEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTC--CCHH
T ss_pred             CEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccC--CCHH
Confidence            5778899999931100   112346899999999987543110      0111   134578999999999876  3444


Q ss_pred             HHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          141 VMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       141 ~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ++.+.+...   ....+++++||++|.|++++++++.+.+..
T Consensus       137 ~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  178 (181)
T 1fzq_A          137 EIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNVNA  178 (181)
T ss_dssp             HHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHTC--
T ss_pred             HHHHHhCchhccCCceEEEEccCCCCCCHHHHHHHHHHHHHh
Confidence            444443211   123579999999999999999999876653

>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=98.78  E-value=4.1e-09  Score=79.33  Aligned_cols=106  Identities=16%  Similarity=0.060  Sum_probs=69.6

Q ss_pred             cCCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc------CCCC---CCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR------KGGP---GITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~------~~~~---~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+..+.|++|+|..- .  ....+..+|.+++|+|+++......      ....   ....+.++|+||+|+.+.  ...
T Consensus        65 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~  142 (188)
T 1zd9_A           65 GNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGA--LDE  142 (188)
T ss_dssp             TTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTC--CCH
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHHccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccC--CCH
Confidence            467889999999310 0  0112245799999999987543210      0111   134578999999999876  344


Q ss_pred             HHHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          140 AVMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       140 ~~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      +++.+.+...   ....+++++||++|.|++++++++.+.+..
T Consensus       143 ~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~  185 (188)
T 1zd9_A          143 KELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHSKS  185 (188)
T ss_dssp             HHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHTCC-
T ss_pred             HHHHHHhChhhhccCCeeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            4444443321   134579999999999999999999876543

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=98.77  E-value=1.3e-08  Score=84.05  Aligned_cols=106  Identities=13%  Similarity=0.123  Sum_probs=69.7

Q ss_pred             cCCcEEEEecCCCeeEEe---eeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAAN---FSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~---~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+..+.|++|+|-.--..   ..+..+|.+++|+|+++......         .....-..+.++|+||+|+.+.  ...
T Consensus       207 ~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~vilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~--~~~  284 (329)
T 3o47_A          207 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA--MNA  284 (329)
T ss_dssp             TTEEEEEEECC-----CCSHHHHHTTEEEEEEEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCH
T ss_pred             CcEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCcc--cCH
Confidence            467889999999210001   11235799999999987543211         0011124578999999999876  455


Q ss_pred             HHHHHHHHhhC---CCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          140 AVMERDALRMR---DGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       140 ~~~~~~l~~~~---p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      +++...+....   ...+++++||++|.|+++++++|.+.+..
T Consensus       285 ~~i~~~~~~~~~~~~~~~~~~vSAk~g~gi~el~~~l~~~l~~  327 (329)
T 3o47_A          285 AEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRN  327 (329)
T ss_dssp             HHHHHHHTCTTCCSSCEEEEECBTTTTBTHHHHHHHHHHHHTC
T ss_pred             HHHHHHhchhhhhcCCCEEEEEECCCCcCHHHHHHHHHHHHHh
Confidence            55555543321   34579999999999999999999887653

>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=98.77  E-value=1.1e-08  Score=77.53  Aligned_cols=105  Identities=12%  Similarity=0.140  Sum_probs=70.6

Q ss_pred             CCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      .+.+.|++|+|..--.   ...+..+|.+++|+|+++.....         ..+......+.++|+||+|+.++.....+
T Consensus        61 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~  140 (206)
T 2bov_A           61 EVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVE  140 (206)
T ss_dssp             EEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGCCSCHH
T ss_pred             EEEEEEEcCCChhhhHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCccccccccHH
Confidence            4678999999931100   11123579999999998753211         01112224578999999999865323345


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      +..+..+..+  .+++++||++|.|++++++++.+.+..
T Consensus       141 ~~~~~~~~~~--~~~~~~Sa~~g~gi~~l~~~l~~~i~~  177 (206)
T 2bov_A          141 EAKNRAEQWN--VNYVETSAKTRANVDKVFFDLMREIRA  177 (206)
T ss_dssp             HHHHHHHHHT--CEEEEECTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC--CeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            5555555543  589999999999999999999876644

>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=98.76  E-value=5.7e-09  Score=77.55  Aligned_cols=107  Identities=12%  Similarity=0.137  Sum_probs=71.8

Q ss_pred             CCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      .+.+.|++|+|..--.   ...+..+|.+++|+|+++.....         ..+......+.++|+||+|+.++.....+
T Consensus        65 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~  144 (187)
T 2a9k_A           65 EVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVE  144 (187)
T ss_dssp             EEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGGCCSCHH
T ss_pred             EEEEEEEECCCCcccHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHH
Confidence            4678999999931100   11123579999999998743211         01111124578999999999765323345


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      +..+..+..+  .+++++||++|.|++++++++.+.+...+
T Consensus       145 ~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  183 (187)
T 2a9k_A          145 EAKNRAEQWN--VNYVETSAKTRANVDKVFFDLMREIRARK  183 (187)
T ss_dssp             HHHHHHHHTT--CEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcC--CeEEEeCCCCCCCHHHHHHHHHHHHHHhh
Confidence            5555555443  58999999999999999999998776544

>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=98.76  E-value=1.4e-08  Score=77.29  Aligned_cols=106  Identities=20%  Similarity=0.138  Sum_probs=70.1

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc--CCC------CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR--KGG------PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~--~~~------~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+.|++|+|..-   .....+..+|.+++|+|+++......  .+.      ..-..+.++|+||+|+.+......+.
T Consensus        56 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~  135 (206)
T 2bcg_Y           56 TVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDV  135 (206)
T ss_dssp             EEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHH
T ss_pred             EEEEEEEeCCChHHHHHHHHHhccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHH
Confidence            56899999999310   01122345799999999987532110  000      01235789999999998752223344


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      .....+..  ..+++++||++|.|++++++++.+.+...
T Consensus       136 ~~~~~~~~--~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~  172 (206)
T 2bcg_Y          136 AKEFADAN--KMPFLETSALDSTNVEDAFLTMARQIKES  172 (206)
T ss_dssp             HHHHHHHT--TCCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHc--CCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            44444433  36899999999999999999998877644

>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=98.76  E-value=5.8e-09  Score=77.54  Aligned_cols=108  Identities=16%  Similarity=0.080  Sum_probs=70.0

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      .+.+.|++|+|..--   ....+..+|.+++|+|+++......         ........+.++|+||+|+.++.....+
T Consensus        53 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~  132 (181)
T 3t5g_A           53 EYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYE  132 (181)
T ss_dssp             EEEEEEEECCCCCTTCCCCGGGTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTTCCSCHH
T ss_pred             EEEEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcceecHH
Confidence            467789999993210   1112235799999999987432110         1111224578999999999765323344


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      ......+..  ..+++++||++|.|++++++++.+.+...++
T Consensus       133 ~~~~~~~~~--~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~~  172 (181)
T 3t5g_A          133 EGKALAESW--NAAFLESSAKENQTAVDVFRRIILEAEKMDG  172 (181)
T ss_dssp             HHHHHHHHT--TCEEEECCTTSHHHHHHHHHHHHHHHHTC--
T ss_pred             HHHHHHHHh--CCcEEEEecCCCCCHHHHHHHHHHHHHHhcC
Confidence            444444444  4689999999999999999999987765443

>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=98.75  E-value=1.6e-08  Score=76.62  Aligned_cols=104  Identities=11%  Similarity=0.120  Sum_probs=67.6

Q ss_pred             cCCcEEEEecCCCeeEEe---eeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAAN---FSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~---~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+..+.|++|+|..--..   ..+..+|.+++|+|+++......         .....-..+.++|+||+|+.+.  ...
T Consensus        71 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~--~~~  148 (192)
T 2b6h_A           71 KNICFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNA--MPV  148 (192)
T ss_dssp             TTEEEEEEECC-----CTTHHHHHHTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCH
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCC--CCH
Confidence            467899999999311011   12345799999999987643211         0011124688999999999876  444


Q ss_pred             HHHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          140 AVMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       140 ~~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      +++.+.+...   ....+++++||++|.|++++++++.+.+
T Consensus       149 ~~i~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i  189 (192)
T 2b6h_A          149 SELTDKLGLQHLRSRTWYVQATCATQGTGLYDGLDWLSHEL  189 (192)
T ss_dssp             HHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHHHHT
T ss_pred             HHHHHHhCcccccCCceEEEECcCCCcCCHHHHHHHHHHHH
Confidence            5554443321   1234799999999999999999998754

>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=98.75  E-value=2.4e-08  Score=74.79  Aligned_cols=107  Identities=21%  Similarity=0.121  Sum_probs=71.0

Q ss_pred             cCCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ..+.+.|++|+|..- .  ....+..+|.+++|+|+++.....         ..+...-..+.++|+||+|+.+.. ...
T Consensus        62 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~~-~~~  140 (195)
T 1x3s_A           62 NKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENRE-VDR  140 (195)
T ss_dssp             EEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSCC-SCH
T ss_pred             eEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCcccc-cCH
Confidence            357889999999311 0  011234579999999998753211         111111245789999999996531 233


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      +...+..+..  ..+++++||++|.|++++++++.+.+....
T Consensus       141 ~~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  180 (195)
T 1x3s_A          141 NEGLKFARKH--SMLFIEASAKTCDGVQCAFEELVEKIIQTP  180 (195)
T ss_dssp             HHHHHHHHHT--TCEEEECCTTTCTTHHHHHHHHHHHHHTSG
T ss_pred             HHHHHHHHHc--CCEEEEecCCCCCCHHHHHHHHHHHHHhhh
Confidence            4444444443  368999999999999999999998876543

>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=98.75  E-value=1.5e-08  Score=75.65  Aligned_cols=106  Identities=13%  Similarity=0.104  Sum_probs=70.1

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--C-------CCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--K-------GGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~-------~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ...+.|++|+|..--   ....+..+|.+++|+|+++......  .       +......+.++|+||+|+.++.....+
T Consensus        69 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~  148 (195)
T 3bc1_A           69 RIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKEE  148 (195)
T ss_dssp             EEEEEEEEECCSGGGHHHHHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGCCSCHH
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHH
Confidence            468899999993110   0112345799999999987532211  0       111134578999999999764222334


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      ...+..+..+  .+++++||++|.|++++++++.+.+...
T Consensus       149 ~~~~~~~~~~--~~~~~~Sa~~~~~v~~l~~~l~~~~~~~  186 (195)
T 3bc1_A          149 EARELAEKYG--IPYFETSAANGTNISHAIEMLLDLIMKR  186 (195)
T ss_dssp             HHHHHHHHHT--CCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcC--CCEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            4444444443  5899999999999999999998766543

>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=98.75  E-value=1.9e-08  Score=74.87  Aligned_cols=104  Identities=16%  Similarity=0.138  Sum_probs=68.4

Q ss_pred             CCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      .+.+-|++|+|..--.   ...+..+|.+++|+|+++......         ........+.++|+||+|+.+......+
T Consensus        65 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~v~~~  144 (183)
T 3kkq_A           65 WAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRD  144 (183)
T ss_dssp             EEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHH
T ss_pred             EEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchhccCcCHH
Confidence            3456679999931100   111234799999999987532110         1111234578999999999864323344


Q ss_pred             HHHHHHHhhCCCCCEEEEecc-CCCCHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVK-HGLGVEEIVNHILQAWE  178 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~-~g~gi~~l~~~i~~~~~  178 (186)
                      ...+..+..+  .+++++||+ +|.|++++++++.+.+.
T Consensus       145 ~~~~~~~~~~--~~~~~~Sa~~~~~~v~~l~~~l~~~i~  181 (183)
T 3kkq_A          145 QGKEMATKYN--IPYIETSAKDPPLNVDKTFHDLVRVIR  181 (183)
T ss_dssp             HHHHHHHHHT--CCEEEEBCSSSCBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC--CeEEEeccCCCCCCHHHHHHHHHHHHh
Confidence            4555555553  789999999 99999999999988764

>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=98.75  E-value=2.5e-08  Score=76.42  Aligned_cols=105  Identities=18%  Similarity=0.160  Sum_probs=69.0

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc------cCCCC---CCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP------RKGGP---GITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~------~~~~~---~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ...+.|++|+|..- .  ....+..+|.+++|+|+++.....      .....   .-..+.++|+||+|+.++.....+
T Consensus        83 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~  162 (217)
T 2f7s_A           83 KVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNER  162 (217)
T ss_dssp             EEEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHH
T ss_pred             eEEEEEEECCCcHhHHhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccccccCHH
Confidence            56789999999210 0  011234579999999998753211      01111   134578999999999764222334


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ...+..+..  ..+++++||++|.|++++++++.+.+..
T Consensus       163 ~~~~~~~~~--~~~~~~~Sa~~g~gi~~l~~~l~~~i~~  199 (217)
T 2f7s_A          163 QARELADKY--GIPYFETSAATGQNVEKAVETLLDLIMK  199 (217)
T ss_dssp             HHHHHHHHT--TCCEEEEBTTTTBTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHC--CCcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            444444443  3689999999999999999999876543

>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=98.74  E-value=2e-08  Score=75.60  Aligned_cols=106  Identities=13%  Similarity=0.136  Sum_probs=69.9

Q ss_pred             CCcEEEEecCCCeeEEee-eeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCC--cccccHH
Q 029893           73 KADLLLCESGGDNLAANF-SRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLAS--AIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~~-~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~--~~~~~~~  140 (186)
                      .+.+.|++|+|.   ..+ .+..+|.+++|+|+++......         .+......+.++|+||+|+.+  ......+
T Consensus        66 ~~~l~i~Dt~G~---~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~  142 (184)
T 3ihw_A           66 SYLLLIRDEGGP---PELQFAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDS  142 (184)
T ss_dssp             EEEEEEEECSSS---CCHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCHH
T ss_pred             EEEEEEEECCCC---hhhheecCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCHH
Confidence            456778999992   111 2345899999999987532111         111112457899999999953  2112334


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      ...+..+.. ...+++++||++|.|++++++++.+.+...++
T Consensus       143 ~~~~~~~~~-~~~~~~e~Sa~~~~gv~~lf~~l~~~i~~~~~  183 (184)
T 3ihw_A          143 RARKLSTDL-KRCTYYETCATYGLNVERVFQDVAQKVVALRK  183 (184)
T ss_dssp             HHHHHHHHT-TTCEEEEEBTTTTBTHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHc-CCCeEEEecCCCCCCHHHHHHHHHHHHHHHhc
Confidence            444444443 34689999999999999999999988776554

>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=98.74  E-value=1.2e-08  Score=76.12  Aligned_cols=102  Identities=15%  Similarity=0.145  Sum_probs=67.8

Q ss_pred             cCCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc------CCCC---CCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR------KGGP---GITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~------~~~~---~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+..+.|++|+|..- .  ....+..+|.+++|+|+++......      ....   .-..+.++|+||+|+.+.  ...
T Consensus        63 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~  140 (181)
T 2h17_A           63 NNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC--MTV  140 (181)
T ss_dssp             TTEEEEEEEESSSGGGTCGGGGGGTTCCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCH
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCcccC--CCH
Confidence            357899999999311 0  0112345799999999988643211      0111   134578999999999875  344


Q ss_pred             HHHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          140 AVMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       140 ~~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      +++.+.+...   ....+++++||++|.|++++++++.+
T Consensus       141 ~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~  179 (181)
T 2h17_A          141 AEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMS  179 (181)
T ss_dssp             HHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHT
T ss_pred             HHHHHHhCcccccCCceEEEEccCCCCcCHHHHHHHHHh
Confidence            4554443211   12348999999999999999999865

>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=98.74  E-value=1.5e-08  Score=76.13  Aligned_cols=106  Identities=15%  Similarity=0.105  Sum_probs=70.1

Q ss_pred             cCCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc--CCCC------CCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR--KGGP------GITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~--~~~~------~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ....+.|++|+|..- .  ....+..+|.+++|+|+++......  .+..      .-..+.++|+||+|+.++.....+
T Consensus        69 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~  148 (189)
T 2gf9_A           69 KRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVPAE  148 (189)
T ss_dssp             EEEEEEEEECCSCCSSCCSGGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHH
T ss_pred             eEEEEEEEeCCCcHHHhhhHHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccCCCHH
Confidence            356889999999311 0  1112345799999999987532110  1100      124578999999999765222234


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ...+..+..+  .+++++||++|.|++++++++.+.+.+
T Consensus       149 ~~~~~~~~~~--~~~~~~Sa~~g~gi~~l~~~l~~~i~~  185 (189)
T 2gf9_A          149 DGRRLADDLG--FEFFEASAKENINVKQVFERLVDVICE  185 (189)
T ss_dssp             HHHHHHHHHT--CEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcC--CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4444444443  589999999999999999999987764

>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=98.73  E-value=7.8e-09  Score=79.61  Aligned_cols=109  Identities=14%  Similarity=0.112  Sum_probs=64.8

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc---CCCCC-----CCceeEEEEecCCCCCccc-----
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR---KGGPG-----ITQADLLVINKTDLASAIG-----  136 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~---~~~~~-----~~~adiivlNK~Dl~~~~~-----  136 (186)
                      .+.+.|++|+|..- .  .+..+..+|.+++|+|+++......   .+...     -..+.++|+||+|+.+...     
T Consensus        81 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~  160 (214)
T 2j1l_A           81 PVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCKKVPIIVVGCKTDLRKDKSLVNKL  160 (214)
T ss_dssp             EEEEEEEEC---------------CEEEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSCCEEEEEECGGGGSCHHHHHHH
T ss_pred             EEEEEEEECCCchhhhHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhhccchhhhhh
Confidence            45788999999311 0  1122345799999999987532110   11110     1357899999999986510     


Q ss_pred             -------ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          137 -------ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       137 -------~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                             ...++..+..+.. ...+++++||++|.|++++++++.+.+...+.
T Consensus       161 ~~~~~~~v~~~~~~~~~~~~-~~~~~~~~SA~~g~gi~el~~~l~~~~~~~~~  212 (214)
T 2j1l_A          161 RRNGLEPVTYHRGQEMARSV-GAVAYLECSARLHDNVHAVFQEAAEVALSSRG  212 (214)
T ss_dssp             HHTTCCCCCHHHHHHHHHHT-TCSEEEECBTTTTBSHHHHHHHHHHHHHHC--
T ss_pred             cccccCcccHHHHHHHHHhc-CCCEEEEecCCCCCCHHHHHHHHHHHHHHhhc
Confidence                   1112223333333 33489999999999999999999988876665

>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=98.73  E-value=1.2e-08  Score=75.32  Aligned_cols=104  Identities=17%  Similarity=0.111  Sum_probs=69.1

Q ss_pred             cCCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc--CC------CCCCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR--KG------GPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~--~~------~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ..+.+.|++|+|..- .  ....+..+|.+++|+|+++......  .+      ......+.++|+||+|+.++.....+
T Consensus        62 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~  141 (179)
T 1z0f_A           62 QKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYE  141 (179)
T ss_dssp             EEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHH
T ss_pred             eEEEEEEEECCCChHhhhhHHHHhccCCEEEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHH
Confidence            356789999999310 0  0112345799999999987532110  00      01124578999999999764223344


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      +..+..+..  ..+++++||++|.|++++++++.+.+
T Consensus       142 ~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~~i  176 (179)
T 1z0f_A          142 EAKQFAEEN--GLLFLEASAKTGENVEDAFLEAAKKI  176 (179)
T ss_dssp             HHHHHHHHT--TCEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            555555544  36899999999999999999988765

>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=98.73  E-value=9.5e-09  Score=74.95  Aligned_cols=105  Identities=13%  Similarity=0.097  Sum_probs=68.6

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ..+.+.|++|+|..--   ....+..+|.+++|+|+++......         .....-..+.++|+||+|+.++.....
T Consensus        49 ~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~  128 (167)
T 1c1y_A           49 QQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGK  128 (167)
T ss_dssp             CEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCH
T ss_pred             EEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECccccccccCCH
Confidence            3567889999993110   0112235799999999987432110         011112457899999999976522223


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      +......+. .+..+++++||++|.|++++++++.+.+
T Consensus       129 ~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~~~l~~~i  165 (167)
T 1c1y_A          129 EQGQNLARQ-WCNCAFLESSAKSKINVNEIFYDLVRQI  165 (167)
T ss_dssp             HHHHHHHHH-TTSCEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             HHHHHHHHH-ccCCcEEEecCCCCCCHHHHHHHHHHHH
Confidence            444444443 3467999999999999999999998765

>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=98.73  E-value=3.2e-08  Score=73.02  Aligned_cols=104  Identities=9%  Similarity=0.042  Sum_probs=69.0

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc--cC----------CCCCCCceeEEEEecCCCCCcccc
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP--RK----------GGPGITQADLLVINKTDLASAIGA  137 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~--~~----------~~~~~~~adiivlNK~Dl~~~~~~  137 (186)
                      .+.+.|++|+|..--   ....+..+|.+++|+|+++.....  ..          .......+.++|+||+|+.+.. .
T Consensus        55 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~-~  133 (177)
T 1wms_A           55 FVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISERQ-V  133 (177)
T ss_dssp             EEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSSCS-S
T ss_pred             EEEEEEEeCCCchhhhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCcccccc-c
Confidence            467899999993110   011234579999999998753211  00          0111345789999999997431 2


Q ss_pred             cHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          138 DLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       138 ~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ..+...+..+. ....+++++||++|.|++++++++.+.+.
T Consensus       134 ~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  173 (177)
T 1wms_A          134 STEEAQAWCRD-NGDYPYFETSAKDATNVAAAFEEAVRRVL  173 (177)
T ss_dssp             CHHHHHHHHHH-TTCCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHh-cCCceEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            34444444442 34579999999999999999999988764

>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=98.73  E-value=1.5e-08  Score=75.44  Aligned_cols=105  Identities=16%  Similarity=0.164  Sum_probs=68.1

Q ss_pred             CCcEEEEecCCCeeEEe---eeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLAAN---FSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~---~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      .+.+.|++|+|..--..   ..+..+|.+++|+|+++.....         ..+...-..+.++|+||+|+.+.. ...+
T Consensus        51 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~-~~~~  129 (189)
T 4dsu_A           51 TCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSRT-VDTK  129 (189)
T ss_dssp             EEEEEEEECCCC---CTTHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSSCS-SCHH
T ss_pred             EEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCcccc-cCHH
Confidence            45577899999311111   1123479999999998743211         011122345789999999998642 2333


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      ......+..+  .+++++||++|.|++++++++.+.+...
T Consensus       130 ~~~~~~~~~~--~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  167 (189)
T 4dsu_A          130 QAQDLARSYG--IPFIETSAKTRQGVDDAFYTLVREIRKH  167 (189)
T ss_dssp             HHHHHHHHHT--CCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcC--CeEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            4444444443  5899999999999999999998776544

>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=98.72  E-value=6.1e-09  Score=90.40  Aligned_cols=102  Identities=17%  Similarity=0.177  Sum_probs=68.2

Q ss_pred             cCCcEEEEecCCCe-eEE----e-------eeeecCceEEEEEeCCCCCCCcc-CCCCC-CCceeEEEEecCCCCCcccc
Q 029893           72 FKADLLLCESGGDN-LAA----N-------FSRELADYIIYIIDVSGGDKIPR-KGGPG-ITQADLLVINKTDLASAIGA  137 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~----~-------~~~~~ad~~v~VvDa~~~~~~~~-~~~~~-~~~adiivlNK~Dl~~~~~~  137 (186)
                      .+..+.|++|+|.. ...    .       ..+..+|++++|+|++++..... ..... -..+.++|+||+|+.++  .
T Consensus       289 ~g~~~~l~DTaG~~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~s~~~~~il~~l~~~piivV~NK~DL~~~--~  366 (482)
T 1xzp_A          289 RGILFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRKILERIKNKRYLVVINKVDVVEK--I  366 (482)
T ss_dssp             TTEEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEEEEEEETTSCCCHHHHHHHHHHTTSSEEEEEEECSSCCC--C
T ss_pred             CCeEEEEEECCCccccchhhHHHHHHHHHHHHhhcccEEEEEecCCCCCCHHHHHHHHHhcCCCEEEEEECcccccc--c
Confidence            46679999999943 110    0       11235799999999987643211 00000 14578999999999765  3


Q ss_pred             cHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          138 DLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       138 ~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ..+++.+..   ....+++++||++|+|++++++++.+.+.
T Consensus       367 ~~~~~~~~~---~~~~~~i~iSAktg~Gi~eL~~~l~~~~~  404 (482)
T 1xzp_A          367 NEEEIKNKL---GTDRHMVKISALKGEGLEKLEESIYRETQ  404 (482)
T ss_dssp             CHHHHHHHH---TCSTTEEEEEGGGTCCHHHHHHHHHHHTH
T ss_pred             CHHHHHHHh---cCCCcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            444443322   22368999999999999999999988644

>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=98.72  E-value=1.7e-08  Score=75.95  Aligned_cols=106  Identities=17%  Similarity=0.097  Sum_probs=69.5

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc--CCC------CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR--KGG------PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~--~~~------~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+.|++|+|..- .  ....+..+|.+++|+|+++......  .+.      ..-..+.++|+||+|+.+......+.
T Consensus        69 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~  148 (191)
T 2a5j_A           69 QIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREE  148 (191)
T ss_dssp             EEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHH
T ss_pred             EEEEEEEECCCchhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCCccccCHHH
Confidence            46789999999310 0  1112345799999999987532110  010      01245789999999997642223344


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      ..+..+..  ..+++++||++|.|++++++++.+.+...
T Consensus       149 ~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  185 (191)
T 2a5j_A          149 GEAFAREH--GLIFMETSAKTACNVEEAFINTAKEIYRK  185 (191)
T ss_dssp             HHHHHHHH--TCEEEEECTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            44444444  35899999999999999999998776544

>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=98.72  E-value=1.3e-08  Score=76.55  Aligned_cols=103  Identities=11%  Similarity=0.084  Sum_probs=69.2

Q ss_pred             CcEEEEecCCCeeE-------Eee------eeecC---ceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCC
Q 029893           74 ADLLLCESGGDNLA-------ANF------SRELA---DYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLAS  133 (186)
Q Consensus        74 ~D~iiIEtsG~~l~-------~~~------~~~~a---d~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~  133 (186)
                      ..+.|++|+|..-.       ..+      .+..+   |.+++|+|++++.....    .+......+.++|+||+|+.+
T Consensus        69 ~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~  148 (195)
T 1svi_A           69 DELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVIVIATKADKIP  148 (195)
T ss_dssp             TTEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHTTCCEEEEEECGGGSC
T ss_pred             CcEEEEECCCCCccccCHHHHHHHHHHHHHHHhhhhcCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECcccCC
Confidence            37999999993210       000      11123   88999999987643221    111123468999999999987


Q ss_pred             cccccHHHHHHHHHh-h--CCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          134 AIGADLAVMERDALR-M--RDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       134 ~~~~~~~~~~~~l~~-~--~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      +  .+.....+.+++ +  .+..+++++||++|.|++++++++.+.++
T Consensus       149 ~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l~  194 (195)
T 1svi_A          149 K--GKWDKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAIKKMIN  194 (195)
T ss_dssp             G--GGHHHHHHHHHHHHTCCTTSEEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             h--HHHHHHHHHHHHHHcccCCCceEEEEccCCCCHHHHHHHHHHHhc
Confidence            6  445444444433 2  34579999999999999999999987654

>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=98.72  E-value=5.1e-09  Score=90.86  Aligned_cols=106  Identities=20%  Similarity=0.249  Sum_probs=71.0

Q ss_pred             cCCcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccccHHHHHH
Q 029893           72 FKADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGADLAVMER  144 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~  144 (186)
                      .+..+.|++|+|.. ....  .....+|.+++|+|+.++...+.    ........+.++++||+|+.++  ...+...+
T Consensus        71 ~~~~i~iiDtPGh~~~~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~~~ip~IvviNK~Dl~~~--~~~~~~~~  148 (482)
T 1wb1_A           71 ENYRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGPKTQTGEHMLILDHFNIPIIVVITKSDNAGT--EEIKRTEM  148 (482)
T ss_dssp             TTEEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTCSCHHHHHHHHHHHHTTCCBCEEEECTTSSCH--HHHHHHHH
T ss_pred             CCEEEEEEECCChHHHHHHHHHHHhhCCEEEEEEecCCCccHHHHHHHHHHHHcCCCEEEEEECCCcccc--hhHHHHHH
Confidence            35679999999921 0000  11235799999999988643211    0112244567999999999875  34443333


Q ss_pred             H----HHhh--CCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          145 D----ALRM--RDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       145 ~----l~~~--~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      .    ++..  .+..+++++||++|.|+++|+++|.+..+.
T Consensus       149 ~l~~~l~~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~i~~  189 (482)
T 1wb1_A          149 IMKSILQSTHNLKNSSIIPISAKTGFGVDELKNLIITTLNN  189 (482)
T ss_dssp             HHHHHHHHSSSGGGCCEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhcccccceEEEEECcCCCCHHHHHHHHHHhhcC
Confidence            3    3332  235799999999999999999999998763

>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=98.71  E-value=7.2e-09  Score=75.38  Aligned_cols=105  Identities=18%  Similarity=0.139  Sum_probs=68.8

Q ss_pred             CCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ...+.|++|+|..--.   ...+..+|.+++|+|+++.....         ......-..+.++|+||+|+.++.....+
T Consensus        50 ~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~  129 (167)
T 1kao_A           50 PSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSS  129 (167)
T ss_dssp             EEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHH
T ss_pred             EEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcccccccCCHH
Confidence            4568899999931100   11123579999999998743210         01111234678999999999764222233


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ...+..+..  ..+++++||++|.|++++++++.+.+..
T Consensus       130 ~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  166 (167)
T 1kao_A          130 EGRALAEEW--GCPFMETSAKSKTMVDELFAEIVRQMNY  166 (167)
T ss_dssp             HHHHHHHHH--TSCEEEECTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHh--CCCEEEecCCCCcCHHHHHHHHHHHHhh
Confidence            344444443  3589999999999999999999887754

>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=98.71  E-value=2.8e-09  Score=81.94  Aligned_cols=107  Identities=10%  Similarity=0.043  Sum_probs=68.3

Q ss_pred             CcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--CCCC------CCCceeEEEEecCCCCCcccccHHHH
Q 029893           74 ADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--KGGP------GITQADLLVINKTDLASAIGADLAVM  142 (186)
Q Consensus        74 ~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~~~~------~~~~adiivlNK~Dl~~~~~~~~~~~  142 (186)
                      ..+.|++|+|..--   ....+..+|.+++|+|+++......  .+..      .-..+.++|+||+|+.+......+..
T Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~  140 (218)
T 4djt_A           61 IKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKISKKLV  140 (218)
T ss_dssp             EEEEEEEECSGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC----CCHHHH
T ss_pred             EEEEEEecCCchhhchHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHH
Confidence            67899999993110   1112335799999999987532111  1100      11357899999999986521222333


Q ss_pred             HHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          143 ERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       143 ~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      ....+.  ...+++++||++|.|++++++++.+.+...+.
T Consensus       141 ~~~~~~--~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~~  178 (218)
T 4djt_A          141 MEVLKG--KNYEYFEISAKTAHNFGLPFLHLARIFTGRPD  178 (218)
T ss_dssp             HHHTTT--CCCEEEEEBTTTTBTTTHHHHHHHHHHHCCTT
T ss_pred             HHHHHH--cCCcEEEEecCCCCCHHHHHHHHHHHHhcccc
Confidence            222222  35689999999999999999999998876543

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=98.71  E-value=1.3e-08  Score=76.46  Aligned_cols=103  Identities=17%  Similarity=0.176  Sum_probs=68.8

Q ss_pred             CcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc--cCCC----CCCCceeEEEEecCCCCCcccccHHHHHH
Q 029893           74 ADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP--RKGG----PGITQADLLVINKTDLASAIGADLAVMER  144 (186)
Q Consensus        74 ~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~--~~~~----~~~~~adiivlNK~Dl~~~~~~~~~~~~~  144 (186)
                      ..+.|++|+|..--   ....+..+|.+++|+|++++....  ..+.    .....+.++|+||+| ........+++.+
T Consensus        93 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~piilv~NK~D-~~~~~~~~~~~~~  171 (208)
T 3clv_A           93 IKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISSNYIIILVANKID-KNKFQVDILEVQK  171 (208)
T ss_dssp             EEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCCEEEEEEECTT-CC-CCSCHHHHHH
T ss_pred             eEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCCCcEEEEEECCC-cccccCCHHHHHH
Confidence            78999999993110   011224579999999998763211  1110    111268899999999 4322234556666


Q ss_pred             HHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          145 DALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       145 ~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      .++..  ..+++++||++|.|++++++++.+.+..
T Consensus       172 ~~~~~--~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  204 (208)
T 3clv_A          172 YAQDN--NLLFIQTSAKTGTNIKNIFYMLAEEIYK  204 (208)
T ss_dssp             HHHHT--TCEEEEECTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHc--CCcEEEEecCCCCCHHHHHHHHHHHHHH
Confidence            66654  3599999999999999999999876653

>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=98.71  E-value=2e-08  Score=75.51  Aligned_cols=107  Identities=17%  Similarity=0.057  Sum_probs=70.0

Q ss_pred             cCCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCc--cCC------CCCCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIP--RKG------GPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~--~~~------~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ....+.|++|+|..--.   ...+..+|.+++|+|++......  ..+      ...-..+.++|+||+|+.+......+
T Consensus        72 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~  151 (193)
T 2oil_A           72 AAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVPTE  151 (193)
T ss_dssp             EEEEEEEEEESCCCTTCTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGGGGCCSCHH
T ss_pred             EEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcccccccCHH
Confidence            35678899999931100   11224579999999998753211  000      11124578999999999864222334


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      ......+..  ..+++++||++|.|++++++++.+.+...
T Consensus       152 ~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  189 (193)
T 2oil_A          152 EARMFAENN--GLLFLETSALDSTNVELAFETVLKEIFAK  189 (193)
T ss_dssp             HHHHHHHHT--TCEEEEECTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            444444433  46999999999999999999998876543

>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=98.70  E-value=7.4e-09  Score=87.71  Aligned_cols=104  Identities=16%  Similarity=0.208  Sum_probs=68.9

Q ss_pred             CcEEEEecCCCee-EEe--eeeecCceEEEEEeCCCCCCCcc--CC---CCCCC-ceeEEEEecCCCCCcccccHHHHHH
Q 029893           74 ADLLLCESGGDNL-AAN--FSRELADYIIYIIDVSGGDKIPR--KG---GPGIT-QADLLVINKTDLASAIGADLAVMER  144 (186)
Q Consensus        74 ~D~iiIEtsG~~l-~~~--~~~~~ad~~v~VvDa~~~~~~~~--~~---~~~~~-~adiivlNK~Dl~~~~~~~~~~~~~  144 (186)
                      ..+.|++|+|-.- ...  .....+|.+++|+|+.++.....  .+   ...+. .+.++|+||+|+.++  .+.....+
T Consensus        75 ~~~~iiDtPGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~--~~~~~~~~  152 (403)
T 3sjy_A           75 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDVVSK--EEALSQYR  152 (403)
T ss_dssp             EEEEEEECCCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGSCH--HHHHHHHH
T ss_pred             ceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcCCCCEEEEEECccccch--HHHHHHHH
Confidence            6789999999210 000  11235799999999998752211  11   11112 267899999999976  44433333


Q ss_pred             HHHhh----C-CCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          145 DALRM----R-DGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       145 ~l~~~----~-p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      .+++.    . ...+++++||++|.|+++|++++.+.++.
T Consensus       153 ~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~~~l~~~l~~  192 (403)
T 3sjy_A          153 QIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYIKT  192 (403)
T ss_dssp             HHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             HHHHHHHhhCCCCCEEEEEECCCCcChHHHHHHHHHhCCC
Confidence            33332    2 35799999999999999999999987654

>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=98.70  E-value=2.2e-09  Score=81.10  Aligned_cols=105  Identities=16%  Similarity=0.142  Sum_probs=69.9

Q ss_pred             cCCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc--cCCC------CCCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP--RKGG------PGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~~------~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ....+.|++|+|..- .  ....+..+|.+++|+|+++.....  ..+.      ..-..+.++|+||+|+.++.....+
T Consensus        70 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~v~~~  149 (192)
T 2fg5_A           70 ELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLK  149 (192)
T ss_dssp             SEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHH
T ss_pred             EEEEEEEEcCCCchhhHhhhHHhhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHH
Confidence            356789999999311 0  011234579999999998754211  0010      0124578999999999764223344


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      +..+..+..  ..+++++||++|.|++++++++.+.++
T Consensus       150 ~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~~i~  185 (192)
T 2fg5_A          150 DAKEYAESI--GAIVVETSAKNAINIEELFQGISRQIP  185 (192)
T ss_dssp             HHHHHHHTT--TCEEEECBTTTTBSHHHHHHHHHHTCC
T ss_pred             HHHHHHHHc--CCEEEEEeCCCCcCHHHHHHHHHHHHH
Confidence            555555544  368999999999999999999987654

>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=98.69  E-value=4.4e-09  Score=76.87  Aligned_cols=104  Identities=18%  Similarity=0.151  Sum_probs=68.8

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc--cCCCCC-----CCceeEEEEecCCCCCcccccHHHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP--RKGGPG-----ITQADLLVINKTDLASAIGADLAVM  142 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~~~~-----~~~adiivlNK~Dl~~~~~~~~~~~  142 (186)
                      .+.+.|++|+|..- .  ....+..+|.+++|+|+++.....  ..+...     -..+.++|+||+|+.++.....+..
T Consensus        53 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~  132 (168)
T 1z2a_A           53 DVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPTALVQNKIDLLDDSCIKNEEA  132 (168)
T ss_dssp             EEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCCEEEEEECGGGGGGCSSCHHHH
T ss_pred             EEEEEEEcCCCcHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccCcccccCHHHH
Confidence            56899999999310 0  111224579999999998753211  011111     2457899999999986421233444


Q ss_pred             HHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          143 ERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       143 ~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .+..+..+  .+++++||++|.|++++++++.+.+.
T Consensus       133 ~~~~~~~~--~~~~~~Sa~~~~~i~~l~~~l~~~~~  166 (168)
T 1z2a_A          133 EGLAKRLK--LRFYRTSVKEDLNVSEVFKYLAEKHL  166 (168)
T ss_dssp             HHHHHHHT--CEEEECBTTTTBSSHHHHHHHHHHHH
T ss_pred             HHHHHHcC--CeEEEEecCCCCCHHHHHHHHHHHHh
Confidence            44444443  58999999999999999999987653

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=98.69  E-value=1.6e-08  Score=86.47  Aligned_cols=109  Identities=15%  Similarity=0.226  Sum_probs=73.3

Q ss_pred             CCcEEEEecCCCee-------EEee-------eeecCceEEEEEeCCCCCCCccC-C---CCCCCceeEEEEecCCCCCc
Q 029893           73 KADLLLCESGGDNL-------AANF-------SRELADYIIYIIDVSGGDKIPRK-G---GPGITQADLLVINKTDLASA  134 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-------~~~~-------~~~~ad~~v~VvDa~~~~~~~~~-~---~~~~~~adiivlNK~Dl~~~  134 (186)
                      +..+.|++|+|..-       ...+       .++.+|++++|+|++++...+.. +   ......+.++|+||+|+.+.
T Consensus       222 ~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~llv~D~~~~~s~~~~~~~~~~~~~~~~iiiv~NK~Dl~~~  301 (436)
T 2hjg_A          222 QQEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAVVLDGEEGIIEQDKRIAGYAHEAGKAVVIVVNKWDAVDK  301 (436)
T ss_dssp             TEEEEETTHHHHTCBTTBCCCCSHHHHHHHHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHHTTCEEEEEEECGGGSCC
T ss_pred             CeEEEEEECCCcCcCccccchHHHHHHHHHHHHHHhCCEEEEEEcCCcCCcHHHHHHHHHHHHcCCcEEEEEECccCCCc
Confidence            44577888888310       0111       22347999999999987543211 1   11235689999999999875


Q ss_pred             ccccHHHHHHHHHhhC---CCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          135 IGADLAVMERDALRMR---DGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       135 ~~~~~~~~~~~l~~~~---p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      .....+++.+.+++..   .++|++++||++|.|++++++.+.+.+..+.
T Consensus       302 ~~~~~~~~~~~~~~~l~~~~~~~~~~~SA~tg~~v~~l~~~i~~~~~~~~  351 (436)
T 2hjg_A          302 DESTMKEFEENIRDHFQFLDYAPILFMSALTKKRIHTLMPAIIKASENHS  351 (436)
T ss_dssp             CTTHHHHHHHHHHHHCGGGTTSCEEECCTTTCTTGGGHHHHHHHHHHHHT
T ss_pred             chHHHHHHHHHHHHhcccCCCCCEEEEecccCCCHHHHHHHHHHHHHHhh
Confidence            2222344555554432   4689999999999999999999998887654

>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=98.69  E-value=3.1e-08  Score=73.38  Aligned_cols=107  Identities=14%  Similarity=0.091  Sum_probs=69.8

Q ss_pred             CCcEEEEecCCCeeEEeeeeecCceEEEEEeCCCCCCCc--cC-------CCC--CCCceeEEEEecCCCCC--cccccH
Q 029893           73 KADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIP--RK-------GGP--GITQADLLVINKTDLAS--AIGADL  139 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~~~~~~ad~~v~VvDa~~~~~~~--~~-------~~~--~~~~adiivlNK~Dl~~--~~~~~~  139 (186)
                      .+.+.|.+|+|.  ..+..+..+|.+++|+|+++.....  ..       ...  .-..+.++|+||+|+.+  ......
T Consensus        53 ~~~l~i~Dt~G~--~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~~v~~  130 (178)
T 2iwr_A           53 THLVLIREEAGA--PDAKFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGD  130 (178)
T ss_dssp             EEEEEEEECSSS--CCHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBCCCSCH
T ss_pred             EEEEEEEECCCC--chhHHHHhCCEEEEEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccccCcCCH
Confidence            466788999993  2222234589999999998753211  00       000  12458899999999942  211233


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      ++..+..+.. ...+++++||++|.|++++++++.+.+...+.
T Consensus       131 ~~~~~~~~~~-~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~~  172 (178)
T 2iwr_A          131 ARARALXADM-KRCSYYETXATYGLNVDRVFQEVAQKVVTLRK  172 (178)
T ss_dssp             HHHHHHHHHH-SSEEEEEEBTTTTBTHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhh-cCCeEEEEeccccCCHHHHHHHHHHHHHHHHh
Confidence            4444444443 24689999999999999999999887665443

>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=98.68  E-value=5.8e-09  Score=77.12  Aligned_cols=108  Identities=15%  Similarity=0.095  Sum_probs=70.0

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc--c-------CCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP--R-------KGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~--~-------~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      .+.+.|++|+|..- .  ....+..+|.+++|+|+++.....  .       .....-..+.++|+||+|+.+......+
T Consensus        56 ~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~  135 (181)
T 2fn4_A           56 PARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRS  135 (181)
T ss_dssp             EEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHH
T ss_pred             EEEEEEEECCCchhhHHHHHHHHhhCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHH
Confidence            46788999999310 0  011123479999999998753211  0       0011224578999999999865212223


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      ......+..  ..+++++||++|.|++++++++.+.+.....
T Consensus       136 ~~~~~~~~~--~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~~~  175 (181)
T 2fn4_A          136 EASAFGASH--HVAYFEASAKLRLNVDEAFEQLVRAVRKYQE  175 (181)
T ss_dssp             HHHHHHHHT--TCEEEECBTTTTBSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHc--CCeEEEecCCCCCCHHHHHHHHHHHHHHhhc
Confidence            333333332  4699999999999999999999988776544

>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=98.68  E-value=1.1e-08  Score=75.86  Aligned_cols=106  Identities=20%  Similarity=0.130  Sum_probs=69.0

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc--cCCC------CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP--RKGG------PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~~------~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ...+.|++|+|..- .  ....+..+|.+++|+|+++.....  ..+.      ..-..+.++|+||+|+.++.....++
T Consensus        60 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~  139 (181)
T 2efe_B           60 TVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAED  139 (181)
T ss_dssp             EEEEEEEECCCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHH
T ss_pred             EEEEEEEeCCCChhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccccCCHHH
Confidence            56789999999311 0  011234579999999998753211  0010      01245789999999997653223444


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      ..+..+..  ..+++++||++|.|++++++++.+.++..
T Consensus       140 ~~~~~~~~--~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  176 (181)
T 2efe_B          140 AQTYAQEN--GLFFMETSAKTATNVKEIFYEIARRLPRV  176 (181)
T ss_dssp             HHHHHHHT--TCEEEECCSSSCTTHHHHHHHHHHTCC--
T ss_pred             HHHHHHHc--CCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            44444443  36899999999999999999998866544

>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=98.68  E-value=2.3e-08  Score=74.47  Aligned_cols=106  Identities=15%  Similarity=0.055  Sum_probs=69.6

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--CC------CCCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--KG------GPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~~------~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+.|++|+|..--   ....+..+|.+++|+|+++......  .+      ...-..+.++|+||+|+.++......+
T Consensus        58 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~  137 (186)
T 2bme_A           58 YVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLE  137 (186)
T ss_dssp             EEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHH
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHH
Confidence            467899999993110   0112345799999999987532110  00      011245789999999997542223344


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      ..+..+..  ..+++++||++|.|++++++++.+.+...
T Consensus       138 ~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  174 (186)
T 2bme_A          138 ASRFAQEN--ELMFLETSALTGENVEEAFVQCARKILNK  174 (186)
T ss_dssp             HHHHHHHT--TCEEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHc--CCEEEEecCCCCCCHHHHHHHHHHHHHHH
Confidence            44444433  46899999999999999999998766543

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=98.68  E-value=4.5e-09  Score=80.42  Aligned_cols=109  Identities=17%  Similarity=0.118  Sum_probs=69.4

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc---CCCCC-----CCceeEEEEecCCCCCcccc----
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR---KGGPG-----ITQADLLVINKTDLASAIGA----  137 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~---~~~~~-----~~~adiivlNK~Dl~~~~~~----  137 (186)
                      .+.+.|++|+|..-   ..+..+..+|.+++|+|+++......   .+...     -..+.++|+||+|+.++...    
T Consensus        56 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~  135 (212)
T 2j0v_A           56 IVNLGLWDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAPNVPIVLVGTKLDLRDDKGYLADH  135 (212)
T ss_dssp             EEEEEEECCCCCCCCCC--CGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECHHHHTCHHHHHTC
T ss_pred             EEEEEEEECCCcHHHHHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeCHHhhhCccccccc
Confidence            46788999999311   01122345799999999987532110   11110     14578999999999765210    


Q ss_pred             ----cHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          138 ----DLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       138 ----~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                          ..++..+..+..+ ..+++++||++|.|++++++++.+.+...+.
T Consensus       136 ~~~v~~~~~~~~~~~~~-~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~  183 (212)
T 2j0v_A          136 TNVITSTQGEELRKQIG-AAAYIECSSKTQQNVKAVFDTAIKVVLQPPR  183 (212)
T ss_dssp             SSCCCHHHHHHHHHHHT-CSEEEECCTTTCTTHHHHHHHHHHHHHCC--
T ss_pred             cCCCCHHHHHHHHHHcC-CceEEEccCCCCCCHHHHHHHHHHHHhhhhh
Confidence                2333333334432 3489999999999999999999887765443

>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=98.68  E-value=2.4e-08  Score=72.97  Aligned_cols=104  Identities=21%  Similarity=0.177  Sum_probs=68.1

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc--CCC------CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR--KGG------PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~--~~~------~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+.|++|+|..- .  ....+..+|.+++|+|+++......  .+.      ..-..+.++|+||+|+.+.. ...+.
T Consensus        51 ~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~-~~~~~  129 (170)
T 1g16_A           51 KVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRV-VTADQ  129 (170)
T ss_dssp             EEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTCC-SCHHH
T ss_pred             EEEEEEEeCCCChhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCCcCc-cCHHH
Confidence            46788999999310 0  0111235789999999987532110  110      01245789999999995431 23334


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ..+..++.+  .+++++||++|.|++++++++.+.+.+
T Consensus       130 ~~~~~~~~~--~~~~~~Sa~~~~gv~~l~~~l~~~~~~  165 (170)
T 1g16_A          130 GEALAKELG--IPFIESSAKNDDNVNEIFFTLAKLIQE  165 (170)
T ss_dssp             HHHHHHHHT--CCEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcC--CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            444444443  589999999999999999999988765

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=98.67  E-value=1.3e-08  Score=76.89  Aligned_cols=105  Identities=22%  Similarity=0.159  Sum_probs=68.7

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--CC------CCCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--KG------GPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~~------~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+.|++|+|..--   ....+..+|.+++|+|+++......  .+      ...-..+.++|+||+|+.+......+.
T Consensus        74 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~~~~v~~~~  153 (192)
T 2il1_A           74 KIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQ  153 (192)
T ss_dssp             EEEEEEEEECCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHH
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHH
Confidence            467899999993110   0112245799999999987542211  01      011245789999999997652222333


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ..+..+. ....+++++||++|.|++++++++.+.+.
T Consensus       154 ~~~~~~~-~~~~~~~~~SA~~g~gi~~l~~~l~~~i~  189 (192)
T 2il1_A          154 GEKFAQQ-ITGMRFCEASAKDNFNVDEIFLKLVDDIL  189 (192)
T ss_dssp             HHHHHHT-STTCEEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHh-cCCCeEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            4433333 34579999999999999999999987664

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=98.67  E-value=9.7e-09  Score=75.90  Aligned_cols=106  Identities=17%  Similarity=0.037  Sum_probs=68.5

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--CCCCC--------CCce-eEEEEecCCCCCccccc
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--KGGPG--------ITQA-DLLVINKTDLASAIGAD  138 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~~~~~--------~~~a-diivlNK~Dl~~~~~~~  138 (186)
                      ...+.|++|+|...-   ....+..+|.+++|+|+++......  .+...        -..+ .++|+||+|+.+.....
T Consensus        55 ~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~~~  134 (178)
T 2hxs_A           55 NVTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIK  134 (178)
T ss_dssp             EEEEEEEECTTCCTTCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCSSC
T ss_pred             EEEEEEEECCCCccccchhhHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccccccC
Confidence            367899999993110   0112345799999999987543110  11000        1234 58899999997642122


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      .+...+..+..+  .+++++||++|.|++++++++.+.+...
T Consensus       135 ~~~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  174 (178)
T 2hxs_A          135 PEKHLRFCQENG--FSSHFVSAKTGDSVFLCFQKVAAEILGI  174 (178)
T ss_dssp             HHHHHHHHHHHT--CEEEEECTTTCTTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHcC--CcEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            334444444443  5899999999999999999999877544

>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=98.67  E-value=2.7e-08  Score=75.79  Aligned_cols=108  Identities=19%  Similarity=0.118  Sum_probs=70.8

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc--CCC------CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR--KGG------PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~--~~~------~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ...+.|++|+|..- .  ....+..+|.+++|+|+++......  .+.      ..-..+.++|+||+|+.+......++
T Consensus        77 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~  156 (201)
T 2hup_A           77 RVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVSLAE  156 (201)
T ss_dssp             EEEEEEECCTTCGGGHHHHHHHHTTCSEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHH
T ss_pred             EEEEEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCccccccccCHHH
Confidence            46889999999310 0  0112345799999999987432110  110      01235789999999998642223444


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      ..+..+.. ...+++++||++|.|++++++++.+.+....
T Consensus       157 ~~~~~~~~-~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~  195 (201)
T 2hup_A          157 AQSLAEHY-DILCAIETSAKDSSNVEEAFLRVATELIMRH  195 (201)
T ss_dssp             HHHHHHHT-TCSEEEECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHc-CCCEEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            54444443 2338999999999999999999998876543

>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=98.66  E-value=3.4e-09  Score=78.82  Aligned_cols=112  Identities=14%  Similarity=0.081  Sum_probs=69.8

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc---CCCCC-----CCceeEEEEecCCCCCccc----
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR---KGGPG-----ITQADLLVINKTDLASAIG----  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~---~~~~~-----~~~adiivlNK~Dl~~~~~----  136 (186)
                      ..+.+.|++|+|..--   ....+..+|.+++|+|+++......   .+...     -..+.++|+||+|+.+...    
T Consensus        51 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~  130 (186)
T 1mh1_A           51 KPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEK  130 (186)
T ss_dssp             EEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHTCHHHHHH
T ss_pred             EEEEEEEEECCCCHhHHHHHHHhccCCcEEEEEEECCChhhHHHHHHHHHHHHHHhCCCCCEEEEeEcccccccchhhhh
Confidence            3567779999993110   1112345799999999987532110   11100     1457899999999976410    


Q ss_pred             --------ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhccc
Q 029893          137 --------ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTGKK  184 (186)
Q Consensus       137 --------~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~~~  184 (186)
                              ...+......+.. ...+++++||++|.|++++++++.+.+...+.+|
T Consensus       131 ~~~~~~~~v~~~~~~~~~~~~-~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~~k  185 (186)
T 1mh1_A          131 LKEKKLTPITYPQGLAMAKEI-GAVKYLECSALTQRGLKTVFDEAIRAVLCPPPVK  185 (186)
T ss_dssp             HHHTTCCCCCHHHHHHHHHHT-TCSEEEECCTTTCTTHHHHHHHHHHHHSCCCC--
T ss_pred             hcccccccCCHHHHHHHHHhc-CCcEEEEecCCCccCHHHHHHHHHHHHhcccccC
Confidence                    1112222222332 3348999999999999999999998887655533

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=98.66  E-value=9.1e-09  Score=77.95  Aligned_cols=109  Identities=15%  Similarity=0.168  Sum_probs=70.2

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc---CCCCC-----CCceeEEEEecCCCCCcc------
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR---KGGPG-----ITQADLLVINKTDLASAI------  135 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~---~~~~~-----~~~adiivlNK~Dl~~~~------  135 (186)
                      .+.+.|++|+|..- .  ....+..+|.+++|+|+++......   .+...     -..+.++|+||+|+.+..      
T Consensus        67 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~  146 (201)
T 2q3h_A           67 PVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPKAPIILVGTQSDLREDVKVLIEL  146 (201)
T ss_dssp             EEEEEEEECCCSTTCSSSGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSSCEEEEEECGGGGGCHHHHHHH
T ss_pred             EEEEEEEECCCCHHHHHHhHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEECHhhhhchhhhhhh
Confidence            45677999999311 0  1112345799999999987532111   11100     145789999999997531      


Q ss_pred             ------cccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          136 ------GADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       136 ------~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                            ....+......+.. ...+++++||++|.|++++++++.+.+...+.
T Consensus       147 ~~~~~~~v~~~~~~~~~~~~-~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~  198 (201)
T 2q3h_A          147 DKCKEKPVPEEAAKLLAEEI-KAASYIECSALTQKNLKEVFDAAIVAGIQYSD  198 (201)
T ss_dssp             HTTTCCCCCHHHHHHHHHHH-TCSEEEECCTTTCTTHHHHHHHHHHHHHHHHC
T ss_pred             cccccccCCHHHHHHHHHhc-CCcEEEEEecCCCCCHHHHHHHHHHHHhcccc
Confidence                  01223333333333 33489999999999999999999988877665

>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=98.66  E-value=1e-08  Score=77.99  Aligned_cols=105  Identities=15%  Similarity=0.063  Sum_probs=69.0

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc--CCC------CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR--KGG------PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~--~~~------~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+.|++|+|..- .  ....+..+|.+++|+|+++......  .+.      ..-..+.++|+||+|+.++......+
T Consensus        73 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~  152 (200)
T 2o52_A           73 TVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPEREVTFLE  152 (200)
T ss_dssp             EEEEEEECCTTHHHHSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGGGGCCSCHHH
T ss_pred             eeEEEEEcCCCcHhHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcccccccCHHH
Confidence            46889999999310 0  1112345799999999987532110  110      11245789999999997642223344


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ..+..+..  ..+++++||++|.|++++++++.+.+..
T Consensus       153 ~~~~~~~~--~~~~~~~SA~~g~gi~~l~~~l~~~i~~  188 (200)
T 2o52_A          153 ASRFAQEN--ELMFLETSALTGENVEEAFLKCARTILN  188 (200)
T ss_dssp             HHHHHHHT--TCEEEEECTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            44444443  3689999999999999999999876654

>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=98.66  E-value=3.2e-08  Score=75.78  Aligned_cols=106  Identities=16%  Similarity=0.100  Sum_probs=68.9

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc--cCCC------CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP--RKGG------PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~~------~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+.|++|+|..- .  ....+..+|.+++|+|++......  ..+.      ..-..+.++|+||+|+.+......+.
T Consensus        74 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~  153 (201)
T 2ew1_A           74 KVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQR  153 (201)
T ss_dssp             EEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHH
T ss_pred             EEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHH
Confidence            46788999999311 0  111234579999999998753211  0010      01235789999999997542122333


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      .....+..  ..+++++||++|.|++++++++.+.+...
T Consensus       154 ~~~~~~~~--~~~~~~~Sa~~g~gv~~l~~~l~~~i~~~  190 (201)
T 2ew1_A          154 AEEFSEAQ--DMYYLETSAKESDNVEKLFLDLACRLISE  190 (201)
T ss_dssp             HHHHHHHH--TCCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            44333333  36899999999999999999998776543

>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=98.65  E-value=1.2e-08  Score=79.52  Aligned_cols=105  Identities=22%  Similarity=0.185  Sum_probs=70.3

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc--CCC------CCCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR--KGG------PGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~--~~~------~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ..+.+-|.+|+|-..   ..+..++.++.+++|+|.+.......  .+.      ..-..+.+||.||+|+.+...-..+
T Consensus        60 ~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~~~r~V~~~  139 (216)
T 4dkx_A           60 RTIRLQLWDTAGLERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIE  139 (216)
T ss_dssp             CEEEEEEECCSCTTTCGGGHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHH
T ss_pred             eEEEEEEEECCCchhhhhHHHHHhccccEEEEEeecchhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchHhcCcccHH
Confidence            356777899999310   01223456899999999987532110  010      0113478999999999875333445


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      +..+..++.+  ++++++||++|.|++++|+.|.+.++
T Consensus       140 e~~~~a~~~~--~~~~e~SAktg~nV~e~F~~i~~~i~  175 (216)
T 4dkx_A          140 EGERKAKELN--VMFIETSAKAGYNVKQLFRRVAAALP  175 (216)
T ss_dssp             HHHHHHHHHT--CEEEEEBTTTTBSHHHHHHHHHHHC-
T ss_pred             HHhhHHHHhC--CeeEEEeCCCCcCHHHHHHHHHHHHH
Confidence            5555556654  68999999999999999999987654

>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=98.65  E-value=2.6e-08  Score=72.17  Aligned_cols=104  Identities=15%  Similarity=0.142  Sum_probs=68.1

Q ss_pred             cCCcEEEEecCCCeeEEe---eeeecCceEEEEEeCCCCCCCc--c-------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAAN---FSRELADYIIYIIDVSGGDKIP--R-------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~---~~~~~ad~~v~VvDa~~~~~~~--~-------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ..+++.+++|+|..--..   ..+..+|.+++|+|+++.....  .       .+...-..+.++|+||+|+.+.. ...
T Consensus        49 ~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~~~-~~~  127 (166)
T 2ce2_X           49 ETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAART-VES  127 (166)
T ss_dssp             EEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSCCC-SCH
T ss_pred             EEEEEEEEECCCchhhhHHHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhhhcc-cCH
Confidence            356789999999311010   1123479999999987643211  0       01111245789999999998641 233


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      +...+..++.+  .+++++||++|.|++++++++.+.+.
T Consensus       128 ~~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~l~~~~~  164 (166)
T 2ce2_X          128 RQAQDLARSYG--IPYIETSAKTRQGVEDAFYTLVREIR  164 (166)
T ss_dssp             HHHHHHHHHHT--CCEEEECTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcC--CeEEEecCCCCCCHHHHHHHHHHHHH
Confidence            34444444443  58999999999999999999988764

>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=98.64  E-value=2.3e-08  Score=75.10  Aligned_cols=105  Identities=17%  Similarity=0.176  Sum_probs=65.3

Q ss_pred             CCcEEEEecCCCee-E---EeeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           73 KADLLLCESGGDNL-A---ANFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~---~~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ...+.|++|+|..- .   ....+..+|.+++|+|+++......         .+......+.++|+||+|+.+......
T Consensus        68 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~  147 (189)
T 1z06_A           68 RIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPT  147 (189)
T ss_dssp             EEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCH
T ss_pred             EEEEEEEECCCchhhhhhhhHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceeCH
Confidence            46789999999310 0   0111345799999999987432110         111123457899999999976521223


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCC---CCHHHHHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHG---LGVEEIVNHILQAWEA  179 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g---~gi~~l~~~i~~~~~~  179 (186)
                      +......+..  ..+++++||++|   .|++++++++.+.++.
T Consensus       148 ~~~~~~~~~~--~~~~~~~Sa~~~~~~~~i~~l~~~l~~~i~~  188 (189)
T 1z06_A          148 DLAQKFADTH--SMPLFETSAKNPNDNDHVEAIFMTLAHKLKS  188 (189)
T ss_dssp             HHHHHHHHHT--TCCEEECCSSSGGGGSCHHHHHHHHC-----
T ss_pred             HHHHHHHHHc--CCEEEEEeCCcCCcccCHHHHHHHHHHHHhh
Confidence            3333333333  358999999999   9999999999876643

>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=98.64  E-value=6.9e-09  Score=84.71  Aligned_cols=107  Identities=13%  Similarity=0.039  Sum_probs=71.1

Q ss_pred             hcCCcEEEEecCCCe-eE---------E--eeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCc
Q 029893           71 LFKADLLLCESGGDN-LA---------A--NFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~-l~---------~--~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~  134 (186)
                      ..+..+.|++|+|.. -.         .  ......+|++++|+|+++ ......    .......|.++++||+|+.+.
T Consensus        53 ~~~~~i~~iDTpG~~~~~~~~l~~~~~~~~~~~l~~~D~vl~Vvd~~~-~~~~~~~i~~~l~~~~~P~ilvlNK~D~~~~  131 (301)
T 1ega_A           53 EGAYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTR-WTPDDEMVLNKLREGKAPVILAVNKVDNVQE  131 (301)
T ss_dssp             ETTEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEEEEEEEETTC-CCHHHHHHHHHHHSSSSCEEEEEESTTTCCC
T ss_pred             ECCeeEEEEECcCCCccchhhHHHHHHHHHHHHHhcCCEEEEEEeCCC-CCHHHHHHHHHHHhcCCCEEEEEECcccCcc
Confidence            346689999999943 00         0  012234689999999976 321111    111235689999999999872


Q ss_pred             ccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          135 IGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       135 ~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      . ..+....+.+.+..+..+++++||++|.|++++++.+.+.+++
T Consensus       132 ~-~~~~~~l~~l~~~~~~~~~i~iSA~~g~~v~~l~~~i~~~l~~  175 (301)
T 1ega_A          132 K-ADLLPHLQFLASQMNFLDIVPISAETGLNVDTIAAIVRKHLPE  175 (301)
T ss_dssp             H-HHHHHHHHHHHTTSCCSEEEECCTTTTTTHHHHHHHHHTTCCB
T ss_pred             H-HHHHHHHHHHHHhcCcCceEEEECCCCCCHHHHHHHHHHhCCc
Confidence            1 3344444445554455689999999999999999999876553

>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=98.63  E-value=6e-09  Score=79.81  Aligned_cols=102  Identities=15%  Similarity=0.202  Sum_probs=64.1

Q ss_pred             CCcEEEEecCCCe-eEE---eeeeecCceEEEEEeCCCCCCCc---cC-C--------CCCCCceeEEEEecCCCCCccc
Q 029893           73 KADLLLCESGGDN-LAA---NFSRELADYIIYIIDVSGGDKIP---RK-G--------GPGITQADLLVINKTDLASAIG  136 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~---~~~~~~ad~~v~VvDa~~~~~~~---~~-~--------~~~~~~adiivlNK~Dl~~~~~  136 (186)
                      +..+.|++|+|.. ...   ...+..+|.+++|+|+++.....   .. +        ......+.++|+||+|+.+.  
T Consensus        53 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--  130 (214)
T 2fh5_B           53 GNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMA--  130 (214)
T ss_dssp             CCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTC--
T ss_pred             ccEEEEEECCCChhHHHHHHHHHHhhCCEEEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCc--
Confidence            5789999999931 000   11134579999999998732100   00 0        11224588999999999876  


Q ss_pred             ccHHHHHHHHHh------------------------hCC-------------CCCEEEEeccCC------CCHHHHHHHH
Q 029893          137 ADLAVMERDALR------------------------MRD-------------GGPFIFAQVKHG------LGVEEIVNHI  173 (186)
Q Consensus       137 ~~~~~~~~~l~~------------------------~~p-------------~a~i~~~Sa~~g------~gi~~l~~~i  173 (186)
                      ...+...+.+++                        ...             ..+++++||++|      .|++++++++
T Consensus       131 ~~~~~~~~~l~~~l~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~lf~~l  210 (214)
T 2fh5_B          131 KSAKLIQQQLEKELNTLRVTRSAAPSTLDSSSTAPAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWL  210 (214)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHCC------------CCCSSCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhccchhccccccCCccccccccCCCCCcccccCCCcEEEEEeeccCCCccccccChHHHHHHH
Confidence            334333333321                        111             457999999999      9999999999


Q ss_pred             HHH
Q 029893          174 LQA  176 (186)
Q Consensus       174 ~~~  176 (186)
                      .+.
T Consensus       211 ~~~  213 (214)
T 2fh5_B          211 AKI  213 (214)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            764

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=98.63  E-value=1.5e-08  Score=74.16  Aligned_cols=104  Identities=16%  Similarity=0.145  Sum_probs=66.4

Q ss_pred             CCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc--CC--------CCCCCceeEEEEecCCCCCcccccH
Q 029893           73 KADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR--KG--------GPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~--~~--------~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+.+.|++|+|..--.   ...+..+|.+++|+|+++......  .+        ...-..+.++|+||+|+.+......
T Consensus        50 ~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~v~~  129 (172)
T 2erx_A           50 ICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQS  129 (172)
T ss_dssp             EEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCH
T ss_pred             EEEEEEEECCCchhhHHHHHHhcccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccccccccCH
Confidence            4678999999931100   111235799999999986432110  00        0112357899999999976522222


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .......+..  ..+++++||++|.|++++++++.+..+
T Consensus       130 ~~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~~~~  166 (172)
T 2erx_A          130 SEAEALARTW--KCAFMETSAKLNHNVKELFQELLNLEK  166 (172)
T ss_dssp             HHHHHHHHHH--TCEEEECBTTTTBSHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHh--CCeEEEecCCCCcCHHHHHHHHHHHHh
Confidence            3333333333  358999999999999999999987654

>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=98.63  E-value=1.1e-08  Score=74.74  Aligned_cols=104  Identities=13%  Similarity=0.057  Sum_probs=66.9

Q ss_pred             cCCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc--CCC------CCCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR--KGG------PGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~--~~~------~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ....+.|++|+|..--.   ...+..+|.+++|+|+++......  .+.      ..-..+.++|+||+|+.++.....+
T Consensus        53 ~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~v~~~  132 (170)
T 1z0j_A           53 ELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMER  132 (170)
T ss_dssp             EEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHH
T ss_pred             eEEEEEEEcCCCchhhhcccHhhCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCccccccccCHH
Confidence            35678999999941100   111245799999999987532110  010      0123467889999999865212233


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ......+..  ..+++++||++|.|++++++++.+.+
T Consensus       133 ~~~~~~~~~--~~~~~~~Sa~~~~~i~~l~~~i~~~i  167 (170)
T 1z0j_A          133 DAKDYADSI--HAIFVETSAKNAININELFIEISRRI  167 (170)
T ss_dssp             HHHHHHHHT--TCEEEECBTTTTBSHHHHHHHHHHHC
T ss_pred             HHHHHHHHc--CCEEEEEeCCCCcCHHHHHHHHHHHH
Confidence            333333433  36899999999999999999998764

>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=98.62  E-value=9e-09  Score=75.92  Aligned_cols=104  Identities=21%  Similarity=0.204  Sum_probs=68.1

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc--cCCCC------CCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP--RKGGP------GITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~~~------~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+.|++|+|..- .  ....+..+|.+++|+|+++.....  ..+..      .-..+.++|+||+|+.++.....+.
T Consensus        62 ~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~  141 (179)
T 2y8e_A           62 TVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVSTEE  141 (179)
T ss_dssp             EEEEEEEEECCSGGGGGGSHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGGGGCCSCHHH
T ss_pred             EEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccCcCCHHH
Confidence            46789999999311 0  011234579999999998743211  01100      1235789999999998652223344


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .....+..+  .+++++||++|.|++++++++.+.++
T Consensus       142 ~~~~~~~~~--~~~~~~Sa~~~~~i~~l~~~l~~~~~  176 (179)
T 2y8e_A          142 GERKAKELN--VMFIETSAKAGYNVKQLFRRVAAALP  176 (179)
T ss_dssp             HHHHHHHHT--CEEEEEBTTTTBSHHHHHHHHHHTCC
T ss_pred             HHHHHHHcC--CeEEEEeCCCCCCHHHHHHHHHHHHh
Confidence            444444443  58999999999999999999987653

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=98.62  E-value=1.9e-08  Score=76.15  Aligned_cols=105  Identities=21%  Similarity=0.213  Sum_probs=60.8

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc--cCC-------CC--CCCceeEEEEecCCCCC-cccc
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP--RKG-------GP--GITQADLLVINKTDLAS-AIGA  137 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~--~~~-------~~--~~~~adiivlNK~Dl~~-~~~~  137 (186)
                      ...+.|++|+|..--   ....+..+|.+++|+|+++.....  ..+       ..  ....+.++|+||+|+.+ ....
T Consensus        72 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v  151 (208)
T 2yc2_C           72 SVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQV  151 (208)
T ss_dssp             EEEEEEEETTTTHHHHHHHSTTCCCCCEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC-------CC
T ss_pred             EEEEEEEECCCcHHHHHHHHHHHhhCcEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccchhhccC
Confidence            467899999994210   111234579999999998753211  011       11  13458899999999987 3222


Q ss_pred             cHHHHHHHHHhhCCCCCEEEEeccC-CCCHHHHHHHHHHHHHH
Q 029893          138 DLAVMERDALRMRDGGPFIFAQVKH-GLGVEEIVNHILQAWEA  179 (186)
Q Consensus       138 ~~~~~~~~l~~~~p~a~i~~~Sa~~-g~gi~~l~~~i~~~~~~  179 (186)
                      ..++..+..+..+  .+++++||++ |.|++++++++.+.+..
T Consensus       152 ~~~~~~~~~~~~~--~~~~~~Sa~~~~~gi~~l~~~i~~~~~~  192 (208)
T 2yc2_C          152 RLDMAQDWATTNT--LDFFDVSANPPGKDADAPFLSIATTFYR  192 (208)
T ss_dssp             CHHHHHHHHHHTT--CEEEECCC-------CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcC--CEEEEeccCCCCcCHHHHHHHHHHHHHH
Confidence            3445555555543  6999999999 99999999999876654

>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=98.62  E-value=1e-08  Score=74.92  Aligned_cols=104  Identities=17%  Similarity=0.131  Sum_probs=67.4

Q ss_pred             cCCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCc--cCCC------CCCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIP--RKGG------PGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~--~~~~------~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      .++.+.|++|+|..--.   ...+..+|.+++|+|+++.....  ..+.      ..-..+.++|+||+|+.++.....+
T Consensus        53 ~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~  132 (170)
T 1r2q_A           53 TTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQ  132 (170)
T ss_dssp             EEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHH
T ss_pred             EEEEEEEEeCCCcHHhhhhhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccccCHH
Confidence            35678999999931000   11224579999999998753211  0000      0123477888999999764222334


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      +..+..+..  ..+++++||++|.|++++++++.+.+
T Consensus       133 ~~~~~~~~~--~~~~~~~Sa~~g~gi~~l~~~i~~~~  167 (170)
T 1r2q_A          133 EAQSYADDN--SLLFMETSAKTSMNVNEIFMAIAKKL  167 (170)
T ss_dssp             HHHHHHHHT--TCEEEECCTTTCTTHHHHHHHHHHTS
T ss_pred             HHHHHHHHc--CCeEEEEeCCCCCCHHHHHHHHHHHH
Confidence            444444433  36899999999999999999998754

>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=98.61  E-value=1.5e-08  Score=87.45  Aligned_cols=105  Identities=14%  Similarity=0.147  Sum_probs=66.4

Q ss_pred             hcCCcEEEEecCCCee----EEe-------eeeecCceEEEEEeCCCCCCCcc-CCCCC-CCceeEEEEecCCCCCcccc
Q 029893           71 LFKADLLLCESGGDNL----AAN-------FSRELADYIIYIIDVSGGDKIPR-KGGPG-ITQADLLVINKTDLASAIGA  137 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l----~~~-------~~~~~ad~~v~VvDa~~~~~~~~-~~~~~-~~~adiivlNK~Dl~~~~~~  137 (186)
                      ..+..+.|++|+|..-    ...       ..+..+|++++|+|++++..... .+... -..+.++|+||+|+.+.  .
T Consensus       269 ~~g~~v~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~~~~~~~i~~~l~~~piivV~NK~Dl~~~--~  346 (462)
T 3geh_A          269 VGGIPVQVLDTAGIRETSDQVEKIGVERSRQAANTADLVLLTIDAATGWTTGDQEIYEQVKHRPLILVMNKIDLVEK--Q  346 (462)
T ss_dssp             ETTEEEEECC--------------------CCCCSCSEEEEEEETTTCSCHHHHHHHHHHTTSCEEEEEECTTSSCG--G
T ss_pred             ECCEEEEEEECCccccchhHHHHHHHHHHhhhhhcCCEEEEEeccCCCCCHHHHHHHHhccCCcEEEEEECCCCCcc--h
Confidence            3577899999999421    011       12345799999999988643211 00000 12488999999999876  2


Q ss_pred             cHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          138 DLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       138 ~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      ...    .++.+....+++++||++|.|++++++++.+.+....
T Consensus       347 ~~~----~~~~~~~~~~~i~iSAktg~Gi~eL~~~i~~~~~~~~  386 (462)
T 3geh_A          347 LIT----SLEYPENITQIVHTAAAQKQGIDSLETAILEIVQTGK  386 (462)
T ss_dssp             GST----TCCCCTTCCCEEEEBTTTTBSHHHHHHHHHHHHTTSS
T ss_pred             hhH----HHHHhccCCcEEEEECCCCCCHHHHHHHHHHHHhccC
Confidence            222    2222334568999999999999999999998876543

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=98.60  E-value=9.8e-09  Score=79.47  Aligned_cols=105  Identities=13%  Similarity=0.022  Sum_probs=66.4

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc--CCC------CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR--KGG------PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~--~~~------~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+.|++|+|..-   .....+..+|.+++|+|+++......  .+.      ..-..+.++|+||+|+.+......+.
T Consensus        61 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vilV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~  140 (223)
T 3cpj_B           61 RIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVPTEE  140 (223)
T ss_dssp             EEEEEEECCTTTTTTTCCCGGGTTTCCEEEEEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGGGGCCSCHHH
T ss_pred             EEEEEEEECCCccchhhhHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHH
Confidence            46789999999310   01112345799999999987532110  010      01245789999999997642223344


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      .....+..  ..+++++||++|.|++++++++.+.+..
T Consensus       141 ~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  176 (223)
T 3cpj_B          141 SKTFAQEN--QLLFTETSALNSENVDKAFEELINTIYQ  176 (223)
T ss_dssp             HHHHHHHT--TCEEEECCCC-CCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            44444443  3689999999999999999999877654

>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=98.60  E-value=5.2e-08  Score=73.81  Aligned_cols=105  Identities=15%  Similarity=0.079  Sum_probs=69.0

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc--cCCC------CCCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP--RKGG------PGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~--~~~~------~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ....+.|++|+|..--   ....+..+|.+++|+|+++.....  ..+.      ..-..+.++|+||+|+.+......+
T Consensus        55 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~  134 (203)
T 1zbd_A           55 KRIKLQIWDTAGLERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSE  134 (203)
T ss_dssp             EEEEEEEEEECCSGGGHHHHHTTGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCTTSCCSCHH
T ss_pred             eEEEEEEEECCCchhhcchHHHhhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCcccccCHH
Confidence            3568899999993100   011234579999999998753211  0010      0124578999999999875222334


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ...+..+..+  .+++++||++|.|++++++++.+.+.
T Consensus       135 ~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~l~~~i~  170 (203)
T 1zbd_A          135 RGRQLADHLG--FEFFEASAKDNINVKQTFERLVDVIC  170 (203)
T ss_dssp             HHHHHHHHHT--CEEEECBTTTTBSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHCC--CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4444444443  58999999999999999999887654

>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=98.60  E-value=5.2e-08  Score=74.18  Aligned_cols=105  Identities=23%  Similarity=0.188  Sum_probs=68.2

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc--cCCC------CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP--RKGG------PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~~------~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+.|++|+|..- .  ....+..+|.+++|+|+++.....  ..+.      ..-..+.++|+||+|+.+.. ...+.
T Consensus        68 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~-~~~~~  146 (213)
T 3cph_A           68 KVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRV-VTADQ  146 (213)
T ss_dssp             EEEEEEECCTTGGGGTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTCSSCC-SCHHH
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcccc-cCHHH
Confidence            46799999999310 0  111234579999999998753211  0110      01245789999999995431 22333


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      .....+..+  .+++++||++|.|++++++++.+.+...
T Consensus       147 ~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  183 (213)
T 3cph_A          147 GEALAKELG--IPFIESSAKNDDNVNEIFFTLAKLIQEK  183 (213)
T ss_dssp             HHHHHHHHT--CCEEECBTTTTBSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcC--CEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            443344432  5899999999999999999998877653

>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=98.58  E-value=2.5e-09  Score=85.42  Aligned_cols=100  Identities=20%  Similarity=0.212  Sum_probs=66.1

Q ss_pred             cCCcEEEEecCCCe-eEE-----e----e---ee--ecCceEEEEEeCCCCCCCc--cCCCCCCCceeEEEEecCCCCCc
Q 029893           72 FKADLLLCESGGDN-LAA-----N----F---SR--ELADYIIYIIDVSGGDKIP--RKGGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~-----~----~---~~--~~ad~~v~VvDa~~~~~~~--~~~~~~~~~adiivlNK~Dl~~~  134 (186)
                      .+..+.|++|+|.. ...     .    .   .+  ..+|++++|+|+++.....  ......+..+.++|+||+|+.+.
T Consensus        46 ~~~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~vi~VvDas~~~~~~~l~~~l~~~~~pvilv~NK~Dl~~~  125 (256)
T 3iby_A           46 GEHLIEITDLPGVYSLVANAEGISQDEQIAAQSVIDLEYDCIINVIDACHLERHLYLTSQLFELGKPVVVALNMMDIAEH  125 (256)
T ss_dssp             TTEEEEEEECCCCSSCC------CHHHHHHHHHHHHSCCSEEEEEEEGGGHHHHHHHHHHHTTSCSCEEEEEECHHHHHH
T ss_pred             CCeEEEEEeCCCcccccccccCCCHHHHHHHHHHhhCCCCEEEEEeeCCCchhHHHHHHHHHHcCCCEEEEEEChhcCCc
Confidence            35689999999942 111     0    0   11  3579999999998743211  11122346789999999998754


Q ss_pred             cc--ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          135 IG--ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       135 ~~--~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      ..  ...+.+.+.   +  ..|++++||++|.|++++++++.+.
T Consensus       126 ~~~~~~~~~l~~~---l--g~~vi~~SA~~g~gi~el~~~i~~~  164 (256)
T 3iby_A          126 RGISIDTEKLESL---L--GCSVIPIQAHKNIGIPALQQSLLHC  164 (256)
T ss_dssp             TTCEECHHHHHHH---H--CSCEEECBGGGTBSHHHHHHHHHTC
T ss_pred             CCcHHHHHHHHHH---c--CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            21  222333222   2  3699999999999999999999765

>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=98.58  E-value=8.6e-08  Score=82.01  Aligned_cols=110  Identities=18%  Similarity=0.260  Sum_probs=72.9

Q ss_pred             CCcEEEEecCCCe----eE----Eee-------eeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCC
Q 029893           73 KADLLLCESGGDN----LA----ANF-------SRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLAS  133 (186)
Q Consensus        73 ~~D~iiIEtsG~~----l~----~~~-------~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~  133 (186)
                      +.++.+++|.|..    ..    ..+       .+..+|.+++|+|++.+.....    .+......+.++|+||||+.+
T Consensus       227 g~~~~l~Dt~G~~~~~~~~~~~~e~~~~~~~~~~i~~ad~vllv~d~~~~~~~~~~~i~~~l~~~~~~~ilv~NK~Dl~~  306 (439)
T 1mky_A          227 GRKYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQRMAGLMERRGRASVVVFNKWDLVV  306 (439)
T ss_dssp             TEEEEESSCSCC-----------CCSCCHHHHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHHTTCEEEEEEECGGGST
T ss_pred             CEEEEEEECCCCccccccchhhHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECccCCC
Confidence            4467788999952    10    001       1124689999999987643221    111124568999999999987


Q ss_pred             cccccHHHHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          134 AIGADLAVMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       134 ~~~~~~~~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      ......+++.+.+++.   .++++++++||++|.|++++++.+.+.++.+..
T Consensus       307 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~i~~~~~~~~~  358 (439)
T 1mky_A          307 HREKRYDEFTKLFREKLYFIDYSPLIFTSADKGWNIDRMIDAMNLAYASYTT  358 (439)
T ss_dssp             TGGGCHHHHHHHHHHHCGGGTTSCEEECBTTTTBSHHHHHHHHHHHHHHHTC
T ss_pred             chhhHHHHHHHHHHHHhccCCCCcEEEEECCCCCCHHHHHHHHHHHHHhhcc
Confidence            5212244454444332   246899999999999999999999988877643

>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=98.57  E-value=2.5e-08  Score=75.15  Aligned_cols=109  Identities=17%  Similarity=0.121  Sum_probs=70.4

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc---CCCCC-----CCceeEEEEecCCCCCc--cccc
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR---KGGPG-----ITQADLLVINKTDLASA--IGAD  138 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~---~~~~~-----~~~adiivlNK~Dl~~~--~~~~  138 (186)
                      ..+.+.|++|+|..--   .+..+..+|.+++|+|+++......   .+...     -..+.++|+||+|+.++  ....
T Consensus        69 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~  148 (194)
T 3reg_A           69 EEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTVLVGLKVDLRKDGSDDVT  148 (194)
T ss_dssp             EEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTSEEEEEEECGGGCCTTTTCCC
T ss_pred             EEEEEEEEECCCcHHHHHHhHhhccCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccCCCCccc
Confidence            3566789999993100   1112345799999999987532111   11110     13578999999999753  1123


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      .+...+..+..+ ..+++++||++|.|++++++++.+.+...+
T Consensus       149 ~~~~~~~~~~~~-~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  190 (194)
T 3reg_A          149 KQEGDDLCQKLG-CVAYIEASSVAKIGLNEVFEKSVDCIFSNK  190 (194)
T ss_dssp             HHHHHHHHHHHT-CSCEEECBTTTTBSHHHHHHHHHHHHHCSC
T ss_pred             HHHHHHHHHhcC-CCEEEEeecCCCCCHHHHHHHHHHHHHhcC
Confidence            344444444443 234999999999999999999998776544

>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=98.57  E-value=1.2e-07  Score=73.48  Aligned_cols=107  Identities=15%  Similarity=0.157  Sum_probs=67.5

Q ss_pred             CCcEEEEecCCCee----EEeeeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccH
Q 029893           73 KADLLLCESGGDNL----AANFSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        73 ~~D~iiIEtsG~~l----~~~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+.+++++|.|..-    ..+..+..++..++|+|.+......         ......-..+.++|.||+||.+......
T Consensus        86 ~~~l~~~Dt~g~~~~~~~l~~~~~~~a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~r~v~~  165 (211)
T 2g3y_A           86 SATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSV  165 (211)
T ss_dssp             EEEEEEECCTTTTHHHHHHHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCH
T ss_pred             eeEEEEeecCCCcchhhhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcCceEeH
Confidence            45678889999311    0112334679999999987642210         0010112457899999999975421222


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      ++.....+..  ..+++++||++|.|++++++++.+.+...+
T Consensus       166 ~e~~~~a~~~--~~~~~e~SAk~g~~v~elf~~l~~~i~~~~  205 (211)
T 2g3y_A          166 SEGRACAVVF--DCKFIETSAAVQHNVKELFEGIVRQVRLRR  205 (211)
T ss_dssp             HHHHHHHHHH--TCEEEECBTTTTBSHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            3322222333  358999999999999999999988775443

>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=98.56  E-value=1.7e-07  Score=71.07  Aligned_cols=108  Identities=17%  Similarity=0.163  Sum_probs=70.5

Q ss_pred             CCcEEEEecCCCeeEE----eeeeecCceEEEEEeCCCCCCCc--cC-------CCCCCCceeEEEEecCCCCCcccccH
Q 029893           73 KADLLLCESGGDNLAA----NFSRELADYIIYIIDVSGGDKIP--RK-------GGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~----~~~~~~ad~~v~VvDa~~~~~~~--~~-------~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+.+.+.+|.|..-..    +..+..+|.+++|+|+++.....  ..       .......+.++|+||+|+.+......
T Consensus        71 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~  150 (195)
T 3cbq_A           71 EVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSL  150 (195)
T ss_dssp             EEEEEEECCCCCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTTTCCSCH
T ss_pred             EEEEEEEecCCCccchhhhHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhccccCCcCH
Confidence            5677888999931100    11133579999999998643211  00       11112457899999999986532234


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      ++..+..+..  ..+++++||++|.|++++++++.+.+...++
T Consensus       151 ~~~~~~a~~~--~~~~~e~Sa~~~~~v~~lf~~l~~~i~~~~~  191 (195)
T 3cbq_A          151 EEGRHLAGTL--SCKHIETSAALHHNTRELFEGAVRQIRLRRG  191 (195)
T ss_dssp             HHHHHHHHHT--TCEEEEEBTTTTBSHHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHh--CCEEEEEcCCCCCCHHHHHHHHHHHHHHhcC
Confidence            4444444443  3589999999999999999999988876554

>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=98.53  E-value=9e-09  Score=78.70  Aligned_cols=104  Identities=14%  Similarity=0.079  Sum_probs=65.5

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc---CCCCC-----CCceeEEEEecCCCCCccc----
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR---KGGPG-----ITQADLLVINKTDLASAIG----  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~---~~~~~-----~~~adiivlNK~Dl~~~~~----  136 (186)
                      ..+.+.|++|+|..--   ....+..+|.+++|+|+++......   .+...     -..+.++|+||+|+.+...    
T Consensus        76 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~  155 (204)
T 4gzl_A           76 KPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEK  155 (204)
T ss_dssp             CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSCCEEEEEECHHHHTCHHHHHH
T ss_pred             EEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEechhhccchhhhhh
Confidence            3556779999993100   1112345799999999987532211   11110     2457899999999986521    


Q ss_pred             --------ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          137 --------ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       137 --------~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                              ...++.....+. ....+++++||++|.|++++++++.+.
T Consensus       156 ~~~~~~~~v~~~~~~~~~~~-~~~~~~~~~SA~~g~gi~~l~~~l~~~  202 (204)
T 4gzl_A          156 LKEKKLTPITYPQGLAMAKE-IGAVKYLECSALTQRGLKTVFDEAIRA  202 (204)
T ss_dssp             HHHTTCCCCCHHHHHHHHHH-TTCSEEEECCTTTCTTHHHHHHHHHHT
T ss_pred             hhccccccccHHHHHHHHHh-cCCcEEEEeeCCCCCCHHHHHHHHHHH
Confidence                    011222222233 334579999999999999999998763

>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=98.51  E-value=5e-08  Score=73.93  Aligned_cols=104  Identities=22%  Similarity=0.188  Sum_probs=65.3

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc--CCC------CCCCceeEEEEecCCCCCc------c
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR--KGG------PGITQADLLVINKTDLASA------I  135 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~--~~~------~~~~~adiivlNK~Dl~~~------~  135 (186)
                      .+.+.|++|+|..- .  ....+..+|.+++|+|+++......  .+.      ..-..+.++|+||+|+.+.      .
T Consensus        76 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~~~~~~  155 (199)
T 2p5s_A           76 RTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQK  155 (199)
T ss_dssp             EEEEEEEECTTCTTCHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHC---CCEEEEEECGGGHHHHHHTTCC
T ss_pred             EEEEEEEECCCCcchhhhHHHHHhhCCEEEEEEECCChHHHHHHHHHHHHHHHhcCCCCCEEEEEECccccccccccccc
Confidence            46788999999310 0  0111235799999999987532111  110      1124578999999999631      1


Q ss_pred             cccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          136 GADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       136 ~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ....+......+..  ..+++++||++|.|++++++++.+.+.
T Consensus       156 ~v~~~~~~~~~~~~--~~~~~~~SA~~g~gv~el~~~l~~~i~  196 (199)
T 2p5s_A          156 CVPGHFGEKLAMTY--GALFCETSAKDGSNIVEAVLHLAREVK  196 (199)
T ss_dssp             CCCHHHHHHHHHHH--TCEEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             ccCHHHHHHHHHHc--CCeEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            11223333333443  358999999999999999999987664

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=98.51  E-value=9.1e-08  Score=78.03  Aligned_cols=81  Identities=22%  Similarity=0.220  Sum_probs=54.4

Q ss_pred             eecCceEEEEEeCCCCCCCc---cCCC---CCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCC
Q 029893           92 RELADYIIYIIDVSGGDKIP---RKGG---PGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLG  165 (186)
Q Consensus        92 ~~~ad~~v~VvDa~~~~~~~---~~~~---~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~g  165 (186)
                      +..+|.+++|+|+++.....   ..+.   .....+.++|+||+||.++  .+.++..+..+......+++++||++|.|
T Consensus        82 ~~~ad~vilV~D~~~~~~s~~~l~~~l~~~~~~~~piilv~NK~DL~~~--~~v~~~~~~~~~~~~~~~~~~~SAktg~g  159 (301)
T 1u0l_A           82 VANVDQVILVVTVKMPETSTYIIDKFLVLAEKNELETVMVINKMDLYDE--DDLRKVRELEEIYSGLYPIVKTSAKTGMG  159 (301)
T ss_dssp             EESCCEEEEEECSSTTCCCHHHHHHHHHHHHHTTCEEEEEECCGGGCCH--HHHHHHHHHHHHHTTTSCEEECCTTTCTT
T ss_pred             cccCCEEEEEEeCCCCCCCHHHHHHHHHHHHHCCCCEEEEEeHHHcCCc--hhHHHHHHHHHHHhhhCcEEEEECCCCcC
Confidence            45689999999998754211   1111   1124578999999999875  33333333333332116899999999999


Q ss_pred             HHHHHHHHH
Q 029893          166 VEEIVNHIL  174 (186)
Q Consensus       166 i~~l~~~i~  174 (186)
                      ++++++.+.
T Consensus       160 v~~lf~~l~  168 (301)
T 1u0l_A          160 IEELKEYLK  168 (301)
T ss_dssp             HHHHHHHHS
T ss_pred             HHHHHHHhc
Confidence            999998764

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=98.50  E-value=9.6e-08  Score=84.90  Aligned_cols=102  Identities=18%  Similarity=0.293  Sum_probs=70.6

Q ss_pred             CCcEEEEecCCCeeEEee------eeecCceEEEEEeCCCCCCCccC--C--CCCCCceeEEEEecCCCCCcccccHHHH
Q 029893           73 KADLLLCESGGDNLAANF------SRELADYIIYIIDVSGGDKIPRK--G--GPGITQADLLVINKTDLASAIGADLAVM  142 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~~------~~~~ad~~v~VvDa~~~~~~~~~--~--~~~~~~adiivlNK~Dl~~~~~~~~~~~  142 (186)
                      .+.+-|++|+|-   ..|      .+..+|.+++|+|++++...+..  +  ......+.++++||+|+.+.   ..++.
T Consensus        70 ~~~l~liDTPGh---~dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~~~ipiIvViNKiDl~~a---~~~~v  143 (599)
T 3cb4_D           70 TYQLNFIDTPGH---VDFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAMEMDLEVVPVLNKIDLPAA---DPERV  143 (599)
T ss_dssp             EEEEEEEECCCC---GGGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHHTTCEEEEEEECTTSTTC---CHHHH
T ss_pred             eEEEEEEECCCc---hHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCEEEeeeccCcccc---cHHHH
Confidence            366779999992   111      12347999999999987653211  0  11234588999999999875   23344


Q ss_pred             HHHHHhhC--CCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          143 ERDALRMR--DGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       143 ~~~l~~~~--p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      .+.+++..  +..+++++||++|.|++++++++.+.+|.-
T Consensus       144 ~~ei~~~lg~~~~~vi~vSAktg~GI~~Ll~~I~~~lp~p  183 (599)
T 3cb4_D          144 AEEIEDIVGIDATDAVRCSAKTGVGVQDVLERLVRDIPPP  183 (599)
T ss_dssp             HHHHHHHTCCCCTTCEEECTTTCTTHHHHHHHHHHHSCCC
T ss_pred             HHHHHHHhCCCcceEEEeecccCCCchhHHHHHhhcCCCc
Confidence            44454433  224699999999999999999999887653

>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=98.50  E-value=8.4e-09  Score=79.57  Aligned_cols=106  Identities=11%  Similarity=-0.040  Sum_probs=68.8

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--CCCCC-----CCceeEEEEecCCCCCcccccHHH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--KGGPG-----ITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~~~~~-----~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+..+.|++|+|..--   ....+..+|.+++|+|+++......  .+...     -..+.++|+||+|+.+..  ....
T Consensus        62 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~--~~~~  139 (221)
T 3gj0_A           62 GPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRK--VKAK  139 (221)
T ss_dssp             EEEEEEEEEECSGGGTSCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSTTCCEEEEEECTTSSSCS--SCGG
T ss_pred             EEEEEEEEeCCChHHHhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECCcccccc--ccHH
Confidence            4577899999993110   1112345799999999987532110  11000     145789999999998652  2222


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      .....+..  ..+++++||++|.|++++++++.+.+....
T Consensus       140 ~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~~l~~~~  177 (221)
T 3gj0_A          140 SIVFHRKK--NLQYYDISAKSNYNFEKPFLWLARKLIGDP  177 (221)
T ss_dssp             GCCHHHHH--TCEEEECBGGGTBTTTHHHHHHHHHHHTCT
T ss_pred             HHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHHHHHhCc
Confidence            22223333  358999999999999999999998876543

>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=98.50  E-value=2.7e-08  Score=84.37  Aligned_cols=104  Identities=15%  Similarity=0.174  Sum_probs=66.7

Q ss_pred             CcEEEEecCCCe-eEEee--eeecCceEEEEEeCCCCC-CCcc-CC---CCCCC-ceeEEEEecCCCCCcccccH----H
Q 029893           74 ADLLLCESGGDN-LAANF--SRELADYIIYIIDVSGGD-KIPR-KG---GPGIT-QADLLVINKTDLASAIGADL----A  140 (186)
Q Consensus        74 ~D~iiIEtsG~~-l~~~~--~~~~ad~~v~VvDa~~~~-~~~~-~~---~~~~~-~adiivlNK~Dl~~~~~~~~----~  140 (186)
                      ..+.|++|+|-. ....+  ....+|.+++|+|+.++. ..+. .+   ...+. .+.++++||+|+.+.  .+.    +
T Consensus        83 ~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~~~~~~iivviNK~Dl~~~--~~~~~~~~  160 (410)
T 1kk1_A           83 RRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIELVDK--EKALENYR  160 (410)
T ss_dssp             EEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGSCH--HHHHHHHH
T ss_pred             cEEEEEECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHHHHHHcCCCcEEEEEECccCCCH--HHHHHHHH
Confidence            568999999921 00011  122469999999999864 2111 00   11122 246788999999876  332    2


Q ss_pred             HHHHHHHhh-CCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          141 VMERDALRM-RDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       141 ~~~~~l~~~-~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ++.+.++.. ....+++++||++|.|+++|+++|.+.++.
T Consensus       161 ~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~~~~  200 (410)
T 1kk1_A          161 QIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFIPT  200 (410)
T ss_dssp             HHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             HHHHHHHhcCcCCCeEEEeeCCCCCCHHHHHHHHHHhCCC
Confidence            333333321 235799999999999999999999987653

>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=98.50  E-value=5.1e-08  Score=82.65  Aligned_cols=106  Identities=16%  Similarity=0.178  Sum_probs=62.4

Q ss_pred             CcEEEEecCCCe-eEEee--eeecCceEEEEEeCCCCC-CCcc-C---CCCCCCc-eeEEEEecCCCCCccc--ccHHHH
Q 029893           74 ADLLLCESGGDN-LAANF--SRELADYIIYIIDVSGGD-KIPR-K---GGPGITQ-ADLLVINKTDLASAIG--ADLAVM  142 (186)
Q Consensus        74 ~D~iiIEtsG~~-l~~~~--~~~~ad~~v~VvDa~~~~-~~~~-~---~~~~~~~-adiivlNK~Dl~~~~~--~~~~~~  142 (186)
                      ..+.|++|+|-. ....+  ....+|.+++|+|+.++. ..+. .   ....+.. +.++++||+|+.+...  ...+++
T Consensus        81 ~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~l~~~~iivv~NK~Dl~~~~~~~~~~~~i  160 (408)
T 1s0u_A           81 RRVSFVDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMALEILGIDKIIIVQNKIDLVDEKQAEENYEQI  160 (408)
T ss_dssp             EEEEEEECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCCCEEEEEECTTSSCTTTTTTHHHHH
T ss_pred             cEEEEEECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHHHHHcCCCeEEEEEEccCCCCHHHHHHHHHHH
Confidence            578999999921 00001  112469999999999864 2110 0   0111222 5789999999987521  123444


Q ss_pred             HHHHHhh-CCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          143 ERDALRM-RDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       143 ~~~l~~~-~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      .+.+++. ....+++++||++|.|+++|++++.+.++.
T Consensus       161 ~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~i~~  198 (408)
T 1s0u_A          161 KEFVKGTIAENAPIIPISAHHEANIDVLLKAIQDFIPT  198 (408)
T ss_dssp             HHHHTTSTTTTCCEEEC------CHHHHHHHHHHHSCC
T ss_pred             HHHHhhcCCCCCeEEEeeCCCCCCHHHHHHHHHHhCCC
Confidence            4444432 235799999999999999999999986653

>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=98.50  E-value=1.6e-08  Score=80.86  Aligned_cols=102  Identities=20%  Similarity=0.255  Sum_probs=67.5

Q ss_pred             cCCcEEEEecCCCe-eEE---------eee-eecCceEEEEEeCCCCCCCcc--CCCCCCCceeEEEEecCCCCCccc--
Q 029893           72 FKADLLLCESGGDN-LAA---------NFS-RELADYIIYIIDVSGGDKIPR--KGGPGITQADLLVINKTDLASAIG--  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~---------~~~-~~~ad~~v~VvDa~~~~~~~~--~~~~~~~~adiivlNK~Dl~~~~~--  136 (186)
                      .+..+.|++|+|.. ...         .+. ...+|++++|+|+++......  ........+.++|+||+|+.+...  
T Consensus        50 ~~~~~~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~ii~V~D~t~~~~~~~~~~~l~~~~~pvilv~NK~Dl~~~~~i~  129 (258)
T 3a1s_A           50 KGYTINLIDLPGTYSLGYSSIDEKIARDYLLKGDADLVILVADSVNPEQSLYLLLEILEMEKKVILAMTAIDEAKKTGMK  129 (258)
T ss_dssp             TTEEEEEEECCCCSSCCSSSHHHHHHHHHHHHSCCSEEEEEEETTSCHHHHHHHHHHHTTTCCEEEEEECHHHHHHTTCC
T ss_pred             CCeEEEEEECCCcCccCCCCHHHHHHHHHHhhcCCCEEEEEeCCCchhhHHHHHHHHHhcCCCEEEEEECcCCCCccchH
Confidence            36789999999942 110         111 125799999999988543211  001123568999999999865421  


Q ss_pred             ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          137 ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       137 ~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .+.+.+.   +..  ..|++++||++|.|++++++++.+..+
T Consensus       130 ~~~~~l~---~~l--g~~vi~~SA~~g~gi~el~~~i~~~~~  166 (258)
T 3a1s_A          130 IDRYELQ---KHL--GIPVVFTSSVTGEGLEELKEKIVEYAQ  166 (258)
T ss_dssp             BCHHHHH---HHH--CSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHH---HHc--CCCEEEEEeeCCcCHHHHHHHHHHHhh
Confidence            1223332   222  269999999999999999999988765

>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=98.49  E-value=6.1e-08  Score=74.00  Aligned_cols=106  Identities=23%  Similarity=0.210  Sum_probs=66.1

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc---cCCCCC-----CCceeEEEEecCCCCCccc-----
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP---RKGGPG-----ITQADLLVINKTDLASAIG-----  136 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~---~~~~~~-----~~~adiivlNK~Dl~~~~~-----  136 (186)
                      .+.+.|++|+|..--   ....+..+|.+++|+|++......   ..+...     -..+.++|+||+|+.+...     
T Consensus        72 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~  151 (207)
T 2fv8_A           72 QVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVPIILVANKKDLRSDEHVRTEL  151 (207)
T ss_dssp             EEEEEEEECTTCTTCTTTGGGGCTTCCEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGGGCHHHHHHH
T ss_pred             EEEEEEEECCCcHHHHHHHHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhhhccccchhhh
Confidence            567899999993100   112234579999999998743211   111110     1457899999999976510     


Q ss_pred             -------ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          137 -------ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       137 -------~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                             ...+......+.. ...+++++||++|.|++++++++.+....
T Consensus       152 ~~~~~~~v~~~~~~~~~~~~-~~~~~~~~SA~~g~gi~el~~~l~~~i~~  200 (207)
T 2fv8_A          152 ARMKQEPVRTDDGRAMAVRI-QAYDYLECSAKTKEGVREVFETATRAALQ  200 (207)
T ss_dssp             HHTTCCCCCHHHHHHHHHHT-TCSEEEECCTTTCTTHHHHHHHHHHHHHS
T ss_pred             hhcccCCCCHHHHHHHHHhc-CCCEEEEeeCCCCCCHHHHHHHHHHHHHH
Confidence                   0111122222222 22389999999999999999999887653

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=98.48  E-value=1e-08  Score=74.45  Aligned_cols=99  Identities=19%  Similarity=0.170  Sum_probs=64.3

Q ss_pred             CCcEEEEecCCCee----EE------eeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCccccc
Q 029893           73 KADLLLCESGGDNL----AA------NFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        73 ~~D~iiIEtsG~~l----~~------~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      +..+.|++|+|..-    ..      ...+..+|.+++|+|+++.......    +......+.++|+||+|+.+.. .+
T Consensus        48 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~-~~  126 (161)
T 2dyk_A           48 RGRFLLVDTGGLWSGDKWEKKIQEKVDRALEDAEVVLFAVDGRAELTQADYEVAEYLRRKGKPVILVATKVDDPKHE-LY  126 (161)
T ss_dssp             TEEEEEEECGGGCSSSSCCHHHHHHHHHHTTTCSEEEEEEESSSCCCHHHHHHHHHHHHHTCCEEEEEECCCSGGGG-GG
T ss_pred             CceEEEEECCCCCCccchHHHHHHHHHHHHHhCCEEEEEEECCCcccHhHHHHHHHHHhcCCCEEEEEECcccccch-Hh
Confidence            45788999999321    00      0012357999999999875332111    1111345789999999998651 11


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ..+    +.+. ...+++++||++|.|++++++++.+.+
T Consensus       127 ~~~----~~~~-~~~~~~~~Sa~~~~gv~~l~~~l~~~l  160 (161)
T 2dyk_A          127 LGP----LYGL-GFGDPIPTSSEHARGLEELLEAIWERL  160 (161)
T ss_dssp             CGG----GGGG-SSCSCEECBTTTTBSHHHHHHHHHHHC
T ss_pred             HHH----HHhC-CCCCeEEEecccCCChHHHHHHHHHhC
Confidence            111    1222 233899999999999999999998764

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=98.48  E-value=1.3e-07  Score=78.80  Aligned_cols=105  Identities=21%  Similarity=0.163  Sum_probs=70.3

Q ss_pred             cCCcEEEEecCCCeeEEe------------eeeecCceEEEEEeCCCCC--CCc--cCC----CCCC-CceeEEEEecCC
Q 029893           72 FKADLLLCESGGDNLAAN------------FSRELADYIIYIIDVSGGD--KIP--RKG----GPGI-TQADLLVINKTD  130 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~------------~~~~~ad~~v~VvDa~~~~--~~~--~~~----~~~~-~~adiivlNK~D  130 (186)
                      .+.++.+++|+|..-..+            .....+|.+++|+|++...  ...  ..+    .... ..+.++|+||+|
T Consensus       212 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~~~piilV~NK~D  291 (357)
T 2e87_A          212 GYFRYQIIDTPGLLDRPISERNEIEKQAILALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFKDLPFLVVINKID  291 (357)
T ss_dssp             TTEEEEEEECTTTSSSCSTTSCHHHHHHHHGGGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTTTSCEEEEECCTT
T ss_pred             cCceEEEEeCCCccccchhhhhHHHHHHHHHHHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcCCCCEEEEEECcc
Confidence            356799999999411000            0112478999999987754  111  000    0111 568899999999


Q ss_pred             CCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          131 LASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       131 l~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      +.+.  ...+...+.++..  ..+++++||++|+|++++++++.+.+...
T Consensus       292 l~~~--~~~~~~~~~~~~~--~~~~~~iSA~~g~gi~~l~~~i~~~l~~~  337 (357)
T 2e87_A          292 VADE--ENIKRLEKFVKEK--GLNPIKISALKGTGIDLVKEEIIKTLRPL  337 (357)
T ss_dssp             TCCH--HHHHHHHHHHHHT--TCCCEECBTTTTBTHHHHHHHHHHHHHHH
T ss_pred             cCCh--HHHHHHHHHHHhc--CCCeEEEeCCCCcCHHHHHHHHHHHHHHH
Confidence            9876  4444454444433  46899999999999999999998877654

>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=98.48  E-value=1.1e-07  Score=71.56  Aligned_cols=104  Identities=13%  Similarity=0.109  Sum_probs=66.8

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc--c-CCCCC-----CCceeEEEEecCCCCCcc------
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP--R-KGGPG-----ITQADLLVINKTDLASAI------  135 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~--~-~~~~~-----~~~adiivlNK~Dl~~~~------  135 (186)
                      .+.+.|++|+|..--   ....+..+|.+++|+|+++.....  . .+...     -..+.++|+||+|+.+..      
T Consensus        65 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~  144 (194)
T 2atx_A           65 QYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARL  144 (194)
T ss_dssp             EEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHHHHHHH
T ss_pred             EEEEEEEECCCCcchhHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhcccccchhhc
Confidence            467889999993110   111234579999999998753211  0 11110     145789999999998641      


Q ss_pred             ------cccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          136 ------GADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       136 ------~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                            ....++..+..+.. ...+++++||++|.|++++++++.+..
T Consensus       145 ~~~~~~~v~~~~~~~~~~~~-~~~~~~~~Sa~~g~gi~~l~~~l~~~i  191 (194)
T 2atx_A          145 NDMKEKPICVEQGQKLAKEI-GACCYVECSALTQKGLKTVFDEAIIAI  191 (194)
T ss_dssp             TTTTCCCCCHHHHHHHHHHH-TCSCEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             ccccCcccCHHHHHHHHHHc-CCcEEEEeeCCCCCCHHHHHHHHHHHH
Confidence                  01223333333433 234899999999999999999998764

>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=98.48  E-value=1.3e-07  Score=71.12  Aligned_cols=105  Identities=16%  Similarity=0.124  Sum_probs=67.9

Q ss_pred             cCCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCc--cCC-------CC-CCCceeEEEEecCCCCCccccc
Q 029893           72 FKADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIP--RKG-------GP-GITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~--~~~-------~~-~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      ....+.|++|+|..--.   ...+..+|.+++|+|+++.....  ..+       .. .-..+.++|+||+|+.+.. ..
T Consensus        54 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~~~-~~  132 (199)
T 2gf0_A           54 SVCTLQITDTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQRE-VD  132 (199)
T ss_dssp             EEEEEEEEECCGGGSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSSCS-SC
T ss_pred             EEEEEEEEeCCChHHhHHHHHHhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCccc-cC
Confidence            35678899999931100   11224579999999998643211  000       00 1234789999999998641 23


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      .+......+...  .+++++||++|.|++++++++.+.+..
T Consensus       133 ~~~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~l~~~~~~  171 (199)
T 2gf0_A          133 TREAQAVAQEWK--CAFMETSAKMNYNVKELFQELLTLETR  171 (199)
T ss_dssp             HHHHHHHHHHHT--CEEEECBTTTTBSHHHHHHHHHHHCSS
T ss_pred             HHHHHHHHHHhC--CeEEEEecCCCCCHHHHHHHHHHHHhh
Confidence            333444444443  589999999999999999999876543

>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=98.48  E-value=1.6e-07  Score=83.49  Aligned_cols=107  Identities=17%  Similarity=0.158  Sum_probs=67.7

Q ss_pred             CcEEEEecCCCe-eE--EeeeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccc---------
Q 029893           74 ADLLLCESGGDN-LA--ANFSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGA---------  137 (186)
Q Consensus        74 ~D~iiIEtsG~~-l~--~~~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~---------  137 (186)
                      +.+.|++|+|-. ..  .......+|.+++|+|++++...+.    .+......|.++++||+|+.+....         
T Consensus        70 ~~i~liDTPGhe~F~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~~l~~~~vPiIVViNKiDl~~~~~~~~~~~~~e~  149 (594)
T 1g7s_A           70 PGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYRTPFVVAANKIDRIHGWRVHEGRPFMET  149 (594)
T ss_dssp             CEEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHHHHHTTCCEEEEEECGGGSTTCCCCTTCCHHHH
T ss_pred             CCEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHhHHHHHHHHHHcCCeEEEEecccccccccccccCCchHHH
Confidence            468999999931 00  0112235799999999998754221    1111234588999999999753100         


Q ss_pred             ------c----H----HHHHHHHHhh-------------CCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          138 ------D----L----AVMERDALRM-------------RDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       138 ------~----~----~~~~~~l~~~-------------~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                            .    +    .++...+.+.             ....|++++||++|.|+++|++++..+.+..
T Consensus       150 sa~~~~~v~~~~~e~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~~~  219 (594)
T 1g7s_A          150 FSKQDIQVQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQY  219 (594)
T ss_dssp             HTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhcccc
Confidence                  0    0    1122222221             1234899999999999999999999887743

>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=98.48  E-value=2.7e-08  Score=73.75  Aligned_cols=105  Identities=17%  Similarity=0.084  Sum_probs=63.8

Q ss_pred             cCCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc---CCCCC-----CCceeEEEEecCCCCCcccc---
Q 029893           72 FKADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR---KGGPG-----ITQADLLVINKTDLASAIGA---  137 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~---~~~~~-----~~~adiivlNK~Dl~~~~~~---  137 (186)
                      ..+.+.|++|+|..- .  ....+..+|.+++|+|+++......   .+...     -..+.++|+||+|+.+....   
T Consensus        54 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~  133 (182)
T 3bwd_D           54 ATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVPIVLVGTKLDLRDDKQFFID  133 (182)
T ss_dssp             ----CEEECCCC-CTTTTTGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECHHHHTCHHHHHH
T ss_pred             EEEEEEEEECCCChhhhhhHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEechhhhcCcccccc
Confidence            356677999999210 0  1112345799999999987532110   11100     14578999999999765211   


Q ss_pred             -------cHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          138 -------DLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       138 -------~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                             ..++..+..+.. ...+++++||++|.|++++++++.+..
T Consensus       134 ~~~~~~v~~~~~~~~~~~~-~~~~~~~~Sa~~~~gi~~l~~~l~~~i  179 (182)
T 3bwd_D          134 HPGAVPITTVQGEELKKLI-GAPAYIECSSKSQENVKGVFDAAIRVV  179 (182)
T ss_dssp             C--CCCCCHHHHHHHHHHH-TCSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             cccCCCCCHHHHHHHHHHc-CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence                   123333333333 234899999999999999999998754

>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=98.48  E-value=8.1e-08  Score=72.97  Aligned_cols=104  Identities=21%  Similarity=0.193  Sum_probs=65.5

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc---cCCCCC-----CCceeEEEEecCCCCCccc-----
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP---RKGGPG-----ITQADLLVINKTDLASAIG-----  136 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~---~~~~~~-----~~~adiivlNK~Dl~~~~~-----  136 (186)
                      .+.+.|++|+|..- .  ....+..+|.+++|+|++......   ..+...     -..+.++|+||+|+.+...     
T Consensus        72 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~  151 (201)
T 2gco_A           72 QVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRQDEHTRREL  151 (201)
T ss_dssp             EEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGTTCHHHHHHH
T ss_pred             EEEEEEEECCCchhHHHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEecHHhhcCccchhhh
Confidence            56788999999310 0  112234579999999998743211   111100     1457899999999986510     


Q ss_pred             -------ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          137 -------ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       137 -------~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                             ...++..+..+.. ...+++++||++|.|++++++++.+..
T Consensus       152 ~~~~~~~v~~~~~~~~~~~~-~~~~~~~~SA~~g~gi~~l~~~i~~~~  198 (201)
T 2gco_A          152 AKMKQEPVRSEEGRDMANRI-SAFGYLECSAKTKEGVREVFEMATRAG  198 (201)
T ss_dssp             HTTTCCCCCHHHHHHHHHHT-TCSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             cccccCcCCHHHHHHHHHhC-CCcEEEEeeCCCCCCHHHHHHHHHHHH
Confidence                   0112222222332 234899999999999999999998754

>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=98.47  E-value=8.5e-08  Score=85.24  Aligned_cols=105  Identities=24%  Similarity=0.279  Sum_probs=71.3

Q ss_pred             CCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCcccccHHHHHHH
Q 029893           73 KADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASAIGADLAVMERD  145 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~  145 (186)
                      .+.+-|++|+|-. ...  ......+|.+++|+|++++...+..    .......+.++++||+|+.+.   ..++..+.
T Consensus        72 ~~~inliDTPGh~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~~~ipiIvviNKiDl~~a---~~~~v~~e  148 (600)
T 2ywe_A           72 TYKLHLIDTPGHVDFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAVEQDLVIIPVINKIDLPSA---DVDRVKKQ  148 (600)
T ss_dssp             EEEEEEECCCCSGGGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHHTTCEEEEEEECTTSTTC---CHHHHHHH
T ss_pred             eEEEEEEECCCcHhHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHHCCCCEEEEEeccCcccc---CHHHHHHH
Confidence            3567799999921 000  0112357999999999987543211    111234578999999999865   24444555


Q ss_pred             HHhhCCC--CCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          146 ALRMRDG--GPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       146 l~~~~p~--a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      +++....  .+++++||++|.|++++++++.+.+|.-
T Consensus       149 l~~~lg~~~~~vi~vSAktg~GI~~Lle~I~~~lp~p  185 (600)
T 2ywe_A          149 IEEVLGLDPEEAILASAKEGIGIEEILEAIVNRIPPP  185 (600)
T ss_dssp             HHHTSCCCGGGCEECBTTTTBSHHHHHHHHHHHSCCC
T ss_pred             HHHhhCCCcccEEEEEeecCCCchHHHHHHHHhcccc
Confidence            6554322  3699999999999999999999887653

>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=98.47  E-value=8.7e-08  Score=69.85  Aligned_cols=104  Identities=17%  Similarity=0.074  Sum_probs=65.9

Q ss_pred             cCCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc--CCC------CCCCceeEEEEecCCCCCc---ccc
Q 029893           72 FKADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR--KGG------PGITQADLLVINKTDLASA---IGA  137 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~--~~~------~~~~~adiivlNK~Dl~~~---~~~  137 (186)
                      ..+.+.|++|+|..--.   ...+..+|.+++|+|+++......  .+.      ..-..+.++|+||+|+.++   ...
T Consensus        50 ~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~v  129 (170)
T 1ek0_A           50 HTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKV  129 (170)
T ss_dssp             EEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCS
T ss_pred             EEEEEEEEECCCChhhhhhhhhhhccCcEEEEEEecCChHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCccccccccCC
Confidence            35678999999931100   112245799999999987532110  000      0124578999999999754   111


Q ss_pred             cHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          138 DLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       138 ~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ..+...+..+..  ..+++++||++|.|++++++++.+.+
T Consensus       130 ~~~~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~~i  167 (170)
T 1ek0_A          130 AREEGEKLAEEK--GLLFFETSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             CHHHHHHHHHHH--TCEEEECCTTTCTTHHHHHHHHHTTS
T ss_pred             CHHHHHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            222333333333  35899999999999999999987654

>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=98.47  E-value=2.5e-07  Score=69.51  Aligned_cols=108  Identities=16%  Similarity=0.114  Sum_probs=70.6

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc--cCCC------CCCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP--RKGG------PGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~--~~~~------~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ..+.+.|++|+|..--   ....+..+|.+++|+|+++.....  ..+.      ..-..+.++|+||+|+.+......+
T Consensus        70 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~  149 (191)
T 3dz8_A           70 KRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEERVVPTE  149 (191)
T ss_dssp             TTEEEEEECHHHHHHCHHHHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHH
T ss_pred             EEEEEEEEeCCChHHHHHHHHHHHccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHH
Confidence            4677899999992100   011234579999999998743211  0110      0124578999999999765322334


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      ......+..  ..+++++||++|.|++++++++.+.+....
T Consensus       150 ~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  188 (191)
T 3dz8_A          150 KGQLLAEQL--GFDFFEASAKENISVRQAFERLVDAICDKM  188 (191)
T ss_dssp             HHHHHHHHH--TCEEEECBTTTTBSHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHc--CCeEEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence            444444444  358999999999999999999988776543

>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=98.46  E-value=4.1e-08  Score=75.65  Aligned_cols=109  Identities=14%  Similarity=0.095  Sum_probs=69.5

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc---CCCCC-----CCceeEEEEecCCCCCc------
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR---KGGPG-----ITQADLLVINKTDLASA------  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~---~~~~~-----~~~adiivlNK~Dl~~~------  134 (186)
                      ..+.+.|++|+|..-   ..+..+..+|.+++|+|+++......   .+...     -..+.++|+||+|+.++      
T Consensus        73 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~  152 (214)
T 3q3j_B           73 QRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRVLLIGCKTDLRTDLSTLME  152 (214)
T ss_dssp             CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCTHHHHHHHTHHHHHHHHHCTTSEEEEEEECGGGGGCHHHHHH
T ss_pred             EEEEEEEEECCCCHhHHHHHHHHcCCCeEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccchhhhhh
Confidence            356788999999310   01122345799999999987543211   11111     14588999999999752      


Q ss_pred             ------ccccHHHHHHHHHhhCCCCCEEEEeccCCCC-HHHHHHHHHHHHHHhh
Q 029893          135 ------IGADLAVMERDALRMRDGGPFIFAQVKHGLG-VEEIVNHILQAWEAST  181 (186)
Q Consensus       135 ------~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~g-i~~l~~~i~~~~~~~~  181 (186)
                            .....+...+..+..+ ..+++++||++|.| ++++++++.+.+....
T Consensus       153 ~~~~~~~~v~~~~~~~~~~~~~-~~~~~e~SA~~g~g~v~~lf~~l~~~~~~~~  205 (214)
T 3q3j_B          153 LSHQKQAPISYEQGCAIAKQLG-AEIYLEGSAFTSEKSIHSIFRTASMLCLNKP  205 (214)
T ss_dssp             HHHTTCCCCCHHHHHHHHHHHT-CSEEEECCTTTCHHHHHHHHHHHHHHHHC--
T ss_pred             hcccccCccCHHHHHHHHHHcC-CCEEEEeccCCCcccHHHHHHHHHHHHhccC
Confidence                  1122334444444442 33899999999998 9999999988765443

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=98.46  E-value=6.8e-09  Score=78.82  Aligned_cols=104  Identities=21%  Similarity=0.203  Sum_probs=58.9

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc--CC------CCCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR--KG------GPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~--~~------~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+.|++|+|..- .  ....+..+|.+++|+|+++......  .+      ...-..+.++|+||+|+.+......+.
T Consensus        81 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~  160 (199)
T 3l0i_B           81 TIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTT  160 (199)
T ss_dssp             EEEEEEECCTTCTTCCCCSCC--CCCSEEEECC-CCCSHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC--CCCCSCC
T ss_pred             EEEEEEEECCCcHhHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccCCCCEEEEEECccCCccccCCHHH
Confidence            35788999999311 0  1122345799999999987543110  00      011245789999999997652111112


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .....+..  ..+++++||++|.|++++++++.+.+.
T Consensus       161 ~~~~~~~~--~~~~~~vSA~~g~gv~~l~~~l~~~l~  195 (199)
T 3l0i_B          161 AKEFADSL--GIPFLETSAKNATNVEQSFMTMAAEIK  195 (199)
T ss_dssp             -CHHHHTT--TCCBCCCCC---HHHHHHHHHHTTTTT
T ss_pred             HHHHHHHc--CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            22223333  368999999999999999999876543

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=98.46  E-value=1.1e-07  Score=83.29  Aligned_cols=63  Identities=16%  Similarity=0.069  Sum_probs=41.6

Q ss_pred             cCCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCc
Q 029893           72 FKADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~  134 (186)
                      .+..+.|++|+|.. ...  ...+..+|.+|+|+|++.+......    .......+.++|+||+|+.+.
T Consensus        80 ~~~~i~liDTPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~~~~~~~iPiivviNK~Dl~~~  149 (528)
T 3tr5_A           80 KDYLINLLDTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLMEVCRLRHTPIMTFINKMDRDTR  149 (528)
T ss_dssp             TTEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHHHHTTTCCEEEEEECTTSCCS
T ss_pred             CCEEEEEEECCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEeCCCCccc
Confidence            46788999999931 000  1123457999999999987543211    112235688999999999754

>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=98.45  E-value=5.4e-09  Score=83.80  Aligned_cols=104  Identities=30%  Similarity=0.318  Sum_probs=67.2

Q ss_pred             cCCcEEEEecCCCe-eEE---------eee-eecCceEEEEEeCCCCCCCccCC--CCCCC-ceeEEEEecCCCCCccc-
Q 029893           72 FKADLLLCESGGDN-LAA---------NFS-RELADYIIYIIDVSGGDKIPRKG--GPGIT-QADLLVINKTDLASAIG-  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~---------~~~-~~~ad~~v~VvDa~~~~~~~~~~--~~~~~-~adiivlNK~Dl~~~~~-  136 (186)
                      .+..+.|++|+|.. ...         .+. ...+|++++|+|++++......+  ..... .+.++|+||+|+.+... 
T Consensus        48 ~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~  127 (271)
T 3k53_A           48 REKEFLVVDLPGIYSLTAHSIDELIARNFILDGNADVIVDIVDSTCLMRNLFLTLELFEMEVKNIILVLNKFDLLKKKGA  127 (271)
T ss_dssp             TTEEEEEEECCCCSCCCSSCHHHHHHHHHHHTTCCSEEEEEEEGGGHHHHHHHHHHHHHTTCCSEEEEEECHHHHHHHTC
T ss_pred             CCceEEEEeCCCccccccCCHHHHHHHHhhhccCCcEEEEEecCCcchhhHHHHHHHHhcCCCCEEEEEEChhcCccccc
Confidence            45679999999942 110         000 02479999999998753211100  01123 68899999999865321 


Q ss_pred             -ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          137 -ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       137 -~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                       ...+.+.+   .+  ..|++++||++|.|++++++++.+..+..
T Consensus       128 ~~~~~~l~~---~l--g~~~~~~Sa~~g~gi~~l~~~i~~~~~~~  167 (271)
T 3k53_A          128 KIDIKKMRK---EL--GVPVIPTNAKKGEGVEELKRMIALMAEGK  167 (271)
T ss_dssp             CCCHHHHHH---HH--SSCEEECBGGGTBTHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHH---Hc--CCcEEEEEeCCCCCHHHHHHHHHHHHhcc
Confidence             22233322   22  36899999999999999999999887643

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=98.45  E-value=1.5e-07  Score=78.98  Aligned_cols=104  Identities=9%  Similarity=0.059  Sum_probs=68.1

Q ss_pred             cCCcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCCCcc-C---CCCCCCcee-EEEEe-cCCCCCcccccHHHH
Q 029893           72 FKADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDKIPR-K---GGPGITQAD-LLVIN-KTDLASAIGADLAVM  142 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~~~~-~---~~~~~~~ad-iivlN-K~Dl~~~~~~~~~~~  142 (186)
                      .+..+.|++|+|-. ....  .....+|.+++|+| ..+...+. .   .......+. ++++| |+|+ ++  ...+..
T Consensus        58 ~~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd-~~g~~~qt~e~~~~~~~~~i~~~ivvvNNK~Dl-~~--~~~~~~  133 (370)
T 2elf_A           58 EGRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP-PQGLDAHTGECIIALDLLGFKHGIIALTRSDST-HM--HAIDEL  133 (370)
T ss_dssp             SSSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC-TTCCCHHHHHHHHHHHHTTCCEEEEEECCGGGS-CH--HHHHHH
T ss_pred             CCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc-CCCCcHHHHHHHHHHHHcCCCeEEEEEEeccCC-CH--HHHHHH
Confidence            35679999999931 0000  11245799999999 66543211 1   111234566 99999 9999 65  333433


Q ss_pred             HHHHHhhC-----CCCCEEE--EeccC---CCCHHHHHHHHHHHHHH
Q 029893          143 ERDALRMR-----DGGPFIF--AQVKH---GLGVEEIVNHILQAWEA  179 (186)
Q Consensus       143 ~~~l~~~~-----p~a~i~~--~Sa~~---g~gi~~l~~~i~~~~~~  179 (186)
                      .+.+++..     ...|+++  +||++   |+|+++|++++.+.++.
T Consensus       134 ~~~i~~~l~~~~~~~~~ii~~~~SA~~~~~g~gi~~L~~~l~~~~~~  180 (370)
T 2elf_A          134 KAKLKVITSGTVLQDWECISLNTNKSAKNPFEGVDELKARINEVAEK  180 (370)
T ss_dssp             HHHHHHHTTTSTTTTCEEEECCCCTTSSSTTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCceEEEecccccccCcCCCCHHHHHHHHHhhccc
Confidence            34444322     3469999  99999   99999999999988764

>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=97.82  E-value=2.3e-08  Score=76.03  Aligned_cols=104  Identities=14%  Similarity=0.135  Sum_probs=63.2

Q ss_pred             cCCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc---CCCCCC-----CceeEEEEecCCCCCccc----
Q 029893           72 FKADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR---KGGPGI-----TQADLLVINKTDLASAIG----  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~---~~~~~~-----~~adiivlNK~Dl~~~~~----  136 (186)
                      ..+.+.|++|+|..- .  ....+..+|.+++|+|+++......   .+...+     ..+.++|+||+|+.+...    
T Consensus        76 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~~l~~~~~~~piilv~NK~Dl~~~~~~~~~  155 (204)
T 3th5_A           76 KPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEK  155 (204)
Confidence            355666899999321 0  1122345799999999877543211   121111     457899999999986410    


Q ss_pred             --------ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          137 --------ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       137 --------~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                              ...+...+..+.. ...+++++||++|.|++++++++.+.
T Consensus       156 ~~~~~~~~v~~~~~~~~~~~~-~~~~~~~vSA~~g~gi~~l~~~l~~~  202 (204)
T 3th5_A          156 LKEKKLTPITYPQGLAMAKEI-GAVKYLECSALTQRGLKTVFDEAIRA  202 (204)
Confidence                    0001111111111 22388999999999999999988754

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=98.43  E-value=1.4e-07  Score=80.92  Aligned_cols=100  Identities=13%  Similarity=0.115  Sum_probs=60.4

Q ss_pred             cCCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCC-------cc-C---CCCCCCce-eEEEEecCCCCCcc-
Q 029893           72 FKADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKI-------PR-K---GGPGITQA-DLLVINKTDLASAI-  135 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~-------~~-~---~~~~~~~a-diivlNK~Dl~~~~-  135 (186)
                      .+..+.|++|+|-. ...  ......+|++++|+|+.++...       +. .   ....+..+ .++++||+|+.+.. 
T Consensus        93 ~~~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~~~v~~iIvviNK~Dl~~~~~  172 (439)
T 3j2k_7           93 EKKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDPTVNW  172 (439)
T ss_pred             CCeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHHcCCCeEEEEeecCCCcccch
Confidence            35679999999921 000  0122357999999999987421       10 1   11123445 68999999996421 


Q ss_pred             -cccHHHHHHH----HHhhC----CCCCEEEEeccCCCCHHHHHH
Q 029893          136 -GADLAVMERD----ALRMR----DGGPFIFAQVKHGLGVEEIVN  171 (186)
Q Consensus       136 -~~~~~~~~~~----l~~~~----p~a~i~~~Sa~~g~gi~~l~~  171 (186)
                       ....+...+.    +++..    ...+++++||++|.|++++.+
T Consensus       173 ~~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          173 SNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             HHHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence             0122233333    32222    146899999999999998544

>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=98.42  E-value=1.1e-07  Score=70.91  Aligned_cols=86  Identities=19%  Similarity=0.235  Sum_probs=54.5

Q ss_pred             CceEEEEEeCCCCCCCcc---------------CCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhC-CC----CC
Q 029893           95 ADYIIYIIDVSGGDKIPR---------------KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR-DG----GP  154 (186)
Q Consensus        95 ad~~v~VvDa~~~~~~~~---------------~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~-p~----a~  154 (186)
                      +++++.|+|+........               ........+.++|+||+|+.+.  . .+...+..++.+ +.    .+
T Consensus        83 ~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~-~~~~~~~~~~~~~~~~~~~~~  159 (190)
T 2cxx_A           83 IDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKN--V-QEVINFLAEKFEVPLSEIDKV  159 (190)
T ss_dssp             CCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSC--H-HHHHHHHHHHHTCCGGGHHHH
T ss_pred             CCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCc--H-HHHHHHHHHHhhhhhhccCCc
Confidence            467888888765321100               0001134678999999999876  2 222222223332 21    36


Q ss_pred             EEEEeccCCCCHHHHHHHHHHHHHHhhcc
Q 029893          155 FIFAQVKHGLGVEEIVNHILQAWEASTGK  183 (186)
Q Consensus       155 i~~~Sa~~g~gi~~l~~~i~~~~~~~~~~  183 (186)
                      ++++||++|.|++++++++.+.+...+++
T Consensus       160 ~~~~Sa~~~~~v~~l~~~l~~~~~~~~~~  188 (190)
T 2cxx_A          160 FIPISAKFGDNIERLKNRIFEVIRERQGR  188 (190)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHHHC---
T ss_pred             EEEEecCCCCCHHHHHHHHHHhcchhhcc
Confidence            89999999999999999999988877663

>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=98.41  E-value=3.4e-07  Score=69.06  Aligned_cols=106  Identities=13%  Similarity=0.097  Sum_probs=70.1

Q ss_pred             cCCcEEEEecCCCeeEEe---eeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAAN---FSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~---~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ..+.+.|++|+|..- ..   ..+..+|.+++|+|+++......         .+...-..+.++|+||+|+.+......
T Consensus        74 ~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~v~~  152 (196)
T 2atv_A           74 EVVSMEILDTAGQED-TIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVST  152 (196)
T ss_dssp             EEEEEEEEECCCCCC-CHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCH
T ss_pred             EEEEEEEEECCCCCc-ccchhhhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccccccccCH
Confidence            356788999999321 11   11235799999999987432110         011112457899999999976422233


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCC-CHHHHHHHHHHHHHHh
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGL-GVEEIVNHILQAWEAS  180 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~-gi~~l~~~i~~~~~~~  180 (186)
                      +...+..+..  ..+++++||++|. |++++++++.+.+...
T Consensus       153 ~~~~~~~~~~--~~~~~~~Sa~~g~~gi~~l~~~l~~~i~~~  192 (196)
T 2atv_A          153 EEGEKLATEL--ACAFYECSACTGEGNITEIFYELCREVRRR  192 (196)
T ss_dssp             HHHHHHHHHH--TSEEEECCTTTCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh--CCeEEEECCCcCCcCHHHHHHHHHHHHHhh
Confidence            4444444444  3689999999999 9999999998877543

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=98.40  E-value=1.8e-07  Score=76.37  Aligned_cols=79  Identities=18%  Similarity=0.139  Sum_probs=54.6

Q ss_pred             eecCceEEEEEeCCCCC-CCc--cCCC---CCCCceeEEEEecCCCCCccccc---HHHHHHHHHhhCCCCCEEEEeccC
Q 029893           92 RELADYIIYIIDVSGGD-KIP--RKGG---PGITQADLLVINKTDLASAIGAD---LAVMERDALRMRDGGPFIFAQVKH  162 (186)
Q Consensus        92 ~~~ad~~v~VvDa~~~~-~~~--~~~~---~~~~~adiivlNK~Dl~~~~~~~---~~~~~~~l~~~~p~a~i~~~Sa~~  162 (186)
                      +..+|.+++|+|+++++ ...  ..+.   .....+.++|+||+||.++  .+   .++..+..++.  ..+++++||++
T Consensus        77 ~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~~~~~~ilV~NK~DL~~~--~~v~~~~~~~~~~~~~--g~~~~~~SA~~  152 (302)
T 2yv5_A           77 VANVDRVIIVETLKMPEFNNYLLDNMLVVYEYFKVEPVIVFNKIDLLNE--EEKKELERWISIYRDA--GYDVLKVSAKT  152 (302)
T ss_dssp             EESCCEEEEEECSTTTTCCHHHHHHHHHHHHHTTCEEEEEECCGGGCCH--HHHHHHHHHHHHHHHT--TCEEEECCTTT
T ss_pred             HHhcCEEEEEEECCCCCCCHHHHHHHHHHHHhCCCCEEEEEEcccCCCc--cccHHHHHHHHHHHHC--CCeEEEEECCC
Confidence            34679999999998764 211  1111   1134578999999999876  32   33344444443  35899999999


Q ss_pred             CCCHHHHHHHHH
Q 029893          163 GLGVEEIVNHIL  174 (186)
Q Consensus       163 g~gi~~l~~~i~  174 (186)
                      |.|+++|++.+.
T Consensus       153 g~gi~~L~~~l~  164 (302)
T 2yv5_A          153 GEGIDELVDYLE  164 (302)
T ss_dssp             CTTHHHHHHHTT
T ss_pred             CCCHHHHHhhcc
Confidence            999999998764

>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=98.40  E-value=5e-09  Score=84.38  Aligned_cols=102  Identities=20%  Similarity=0.219  Sum_probs=66.2

Q ss_pred             cCCcEEEEecCCCe-eE---Eeee-----------eecCceEEEEEeCCCCCCCcc--CCCCCCCceeEEEEecCCCCCc
Q 029893           72 FKADLLLCESGGDN-LA---ANFS-----------RELADYIIYIIDVSGGDKIPR--KGGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~---~~~~-----------~~~ad~~v~VvDa~~~~~~~~--~~~~~~~~adiivlNK~Dl~~~  134 (186)
                      .+..+.|++|+|.. ..   ....           ...+|++++|+|+++.+....  ........+.++|+||+|+.+.
T Consensus        48 ~~~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~ii~VvD~~~~~~~~~~~~~l~~~~~p~ivv~NK~Dl~~~  127 (274)
T 3i8s_A           48 TDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASNLERNLYLTLQLLELGIPCIVALNMLDIAEK  127 (274)
T ss_dssp             SSCEEEEEECCCCSCSCC----CCHHHHHHHHHHHHTCCSEEEEEEEGGGHHHHHHHHHHHHHHTCCEEEEEECHHHHHH
T ss_pred             CCCceEEEECcCCCccccccccCCHHHHHHHHHHhhcCCCEEEEEecCCChHHHHHHHHHHHhcCCCEEEEEECccchhh
Confidence            45689999999941 11   0010           135799999999987432110  0111235689999999998754


Q ss_pred             cc--ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          135 IG--ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       135 ~~--~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ..  ...+.+.+   ..  ..|++++||++|.|++++++++.+.++
T Consensus       128 ~~~~~~~~~l~~---~l--g~~~i~~SA~~g~gi~el~~~i~~~~~  168 (274)
T 3i8s_A          128 QNIRIEIDALSA---RL--GCPVIPLVSTRGRGIEALKLAIDRYKA  168 (274)
T ss_dssp             TTEEECHHHHHH---HH--TSCEEECCCGGGHHHHHHHHHHHTCCC
T ss_pred             hhHHHHHHHHHH---hc--CCCEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            21  12333322   22  268999999999999999999987654

>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=98.37  E-value=2.8e-07  Score=79.80  Aligned_cols=97  Identities=15%  Similarity=0.178  Sum_probs=58.1

Q ss_pred             cCCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCcc--------C---CCCCCC-ceeEEEEecCCCCCccc
Q 029893           72 FKADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPR--------K---GGPGIT-QADLLVINKTDLASAIG  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~--------~---~~~~~~-~adiivlNK~Dl~~~~~  136 (186)
                      .+..+.|++|+|.. ...  ...+..+|++++|+|++++.....        .   ....+. .+.++|+||+|+.+...
T Consensus       109 ~~~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~~~~~iIvviNK~Dl~~~~~  188 (483)
T 3p26_A          109 HRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVDWSQ  188 (483)
T ss_dssp             SSCEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHTTCCCEEEEEECGGGGTTCH
T ss_pred             CCceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHcCCCcEEEEEECcCcccchH
Confidence            46789999999931 000  012345899999999988632100        0   011123 24788999999987321


Q ss_pred             ccHHHHHHHHHh----hC---CCCCEEEEeccCCCCHHH
Q 029893          137 ADLAVMERDALR----MR---DGGPFIFAQVKHGLGVEE  168 (186)
Q Consensus       137 ~~~~~~~~~l~~----~~---p~a~i~~~Sa~~g~gi~~  168 (186)
                      ...+++.+.++.    ..   +..+++++||++|.|+++
T Consensus       189 ~~~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~e  227 (483)
T 3p26_A          189 QRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYK  227 (483)
T ss_dssp             HHHHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSS
T ss_pred             HHHHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCccc
Confidence            333333433332    22   146899999999999974

>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=98.37  E-value=1.4e-07  Score=70.90  Aligned_cols=105  Identities=13%  Similarity=-0.000  Sum_probs=67.7

Q ss_pred             cCCcEEEEecCCCeeEE--eeeeecCceEEEEEeCCCCCCCc--cCCCC---------CCCceeEEEEecCCCCCccccc
Q 029893           72 FKADLLLCESGGDNLAA--NFSRELADYIIYIIDVSGGDKIP--RKGGP---------GITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~--~~~~~~ad~~v~VvDa~~~~~~~--~~~~~---------~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      ..+.+.|++|+|...-.  ...+..+|.+++|+|+++.....  ..+..         .-..+.++|+||+|+.+.....
T Consensus        67 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~  146 (187)
T 3c5c_A           67 QPVHLRVMDTADLDTPRNCERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVT  146 (187)
T ss_dssp             EEEEEEEEECCC---CCCTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGGCSSC
T ss_pred             EEEEEEEEECCCCCcchhHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhcCccC
Confidence            35678899999931100  11123579999999998643211  01100         0245789999999997542223


Q ss_pred             HHHHHHHHHhhCCCCCEEEEec-cCCCCHHHHHHHHHHHHH
Q 029893          139 LAVMERDALRMRDGGPFIFAQV-KHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa-~~g~gi~~l~~~i~~~~~  178 (186)
                      .++..+..++.+  .+++++|| ++|.|++++++++.+.+.
T Consensus       147 ~~~~~~~~~~~~--~~~~e~Sa~~~g~gv~~lf~~l~~~i~  185 (187)
T 3c5c_A          147 KAEGVALAGRFG--CLFFEVSACLDFEHVQHVFHEAVREAR  185 (187)
T ss_dssp             HHHHHHHHHHHT--CEEEECCSSSCSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcC--CcEEEEeecCccccHHHHHHHHHHHHh
Confidence            344455555543  58999999 899999999999987653

>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=98.36  E-value=4.1e-07  Score=73.65  Aligned_cols=82  Identities=17%  Similarity=0.135  Sum_probs=59.8

Q ss_pred             ecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHH
Q 029893           93 ELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEE  168 (186)
Q Consensus        93 ~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~  168 (186)
                      ..+|+++.|+|+..+.....    .+.  -..+.++|+||+||++.  ...+...+..++.  ..+++++||++|.|+++
T Consensus        22 ~~aDvVl~VvDAr~p~~~~~~~l~~~l--~~kp~ilVlNK~DL~~~--~~~~~~~~~~~~~--g~~~i~iSA~~~~gi~~   95 (282)
T 1puj_A           22 KLIDIVYELVDARIPMSSRNPMIEDIL--KNKPRIMLLNKADKADA--AVTQQWKEHFENQ--GIRSLSINSVNGQGLNQ   95 (282)
T ss_dssp             GGCSEEEEEEETTSTTTTSCHHHHHHC--SSSCEEEEEECGGGSCH--HHHHHHHHHHHTT--TCCEEECCTTTCTTGGG
T ss_pred             hhCCEEEEEEeCCCCCccCCHHHHHHH--CCCCEEEEEECcccCCH--HHHHHHHHHHHhc--CCcEEEEECCCcccHHH
Confidence            35799999999987654321    121  24688999999999976  4444444445432  34899999999999999


Q ss_pred             HHHHHHHHHHHh
Q 029893          169 IVNHILQAWEAS  180 (186)
Q Consensus       169 l~~~i~~~~~~~  180 (186)
                      +++.+.+.++..
T Consensus        96 L~~~i~~~l~~~  107 (282)
T 1puj_A           96 IVPASKEILQEK  107 (282)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999988877643

>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=98.34  E-value=9.3e-08  Score=80.94  Aligned_cols=106  Identities=14%  Similarity=0.088  Sum_probs=67.8

Q ss_pred             cCCcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCCCccC----CCCCCCce-eEEEEecCCCCCcccccHH---
Q 029893           72 FKADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDKIPRK----GGPGITQA-DLLVINKTDLASAIGADLA---  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~a-diivlNK~Dl~~~~~~~~~---  140 (186)
                      .+..+.|++|+|.. ....  .....+|.+++|+|++++...+..    .......+ -++++||+|+.+.. ...+   
T Consensus        73 ~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~~~l~~~~~~~ip~iivviNK~Dl~~~~-~~~~~~~  151 (405)
T 2c78_A           73 AKRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNKVDMVDDP-ELLDLVE  151 (405)
T ss_dssp             SSCEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHHTTCCCEEEEEECGGGCCCH-HHHHHHH
T ss_pred             CCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEECccccCcH-HHHHHHH
Confidence            46789999999931 0000  112357999999999887532211    11123456 57899999998531 2222   


Q ss_pred             -HHHHHHHhhCC---CCCEEEEeccCCCC------------------HHHHHHHHHHHHH
Q 029893          141 -VMERDALRMRD---GGPFIFAQVKHGLG------------------VEEIVNHILQAWE  178 (186)
Q Consensus       141 -~~~~~l~~~~p---~a~i~~~Sa~~g~g------------------i~~l~~~i~~~~~  178 (186)
                       ++.+.++....   ..+++++||++|.|                  +++|++.+.+++|
T Consensus       152 ~~~~~~l~~~~~~~~~~~~i~~SA~~g~~v~~~~~~~~~~~~~~~~~i~~Ll~~l~~~lp  211 (405)
T 2c78_A          152 MEVRDLLNQYEFPGDEVPVIRGSALLALEQMHRNPKTRRGENEWVDKIWELLDAIDEYIP  211 (405)
T ss_dssp             HHHHHHHHHTTSCTTTSCEEECCHHHHHHHHHHCTTCCTTSCHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHhcccccCCCEEEccHHHhhhhhccccccccCCCcccccHHHHHHHHHhhcC
Confidence             23334444331   47999999999987                  7888888887665

>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=98.33  E-value=3e-07  Score=73.03  Aligned_cols=82  Identities=18%  Similarity=0.172  Sum_probs=55.5

Q ss_pred             cCceEEEEEeCCCC--CCCcc--CCC-------CCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccC
Q 029893           94 LADYIIYIIDVSGG--DKIPR--KGG-------PGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKH  162 (186)
Q Consensus        94 ~ad~~v~VvDa~~~--~~~~~--~~~-------~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~  162 (186)
                      .+|.+++|+|+++.  .....  .+.       ..-..+.++|+||+|+.+.  ...+...+..+. ....+++++||++
T Consensus       162 ~ad~vilV~D~t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~--~~v~~~~~~~~~-~~~~~~~e~SAk~  238 (255)
T 3c5h_A          162 LVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVE--RYIRDAHTFALS-KKNLQVVETSARS  238 (255)
T ss_dssp             ECCEEEEEEECBC----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCH--HHHHHHHHHHHT-SSSCCEEECBTTT
T ss_pred             cCCEEEEEEECCCCchhhHHHHHHHHHHHHHHhccCCCCEEEEEEccccccc--HHHHHHHHHHHh-cCCCeEEEEECCC
Confidence            47999999999875  32110  110       0123578999999999765  334444333333 2356999999999


Q ss_pred             CCCHHHHHHHHHHHHH
Q 029893          163 GLGVEEIVNHILQAWE  178 (186)
Q Consensus       163 g~gi~~l~~~i~~~~~  178 (186)
                      |.|++++++++.+.+.
T Consensus       239 g~gv~elf~~l~~~l~  254 (255)
T 3c5h_A          239 NVNVDLAFSTLVQLID  254 (255)
T ss_dssp             TBSHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHhc
Confidence            9999999999987653

>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=98.31  E-value=1.8e-07  Score=79.01  Aligned_cols=107  Identities=11%  Similarity=0.111  Sum_probs=68.6

Q ss_pred             cCCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCccC----CCCCCCcee-EEEEecCCCCCcccccHH---
Q 029893           72 FKADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPRK----GGPGITQAD-LLVINKTDLASAIGADLA---  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~ad-iivlNK~Dl~~~~~~~~~---  140 (186)
                      .+..+.|++|+|.. ...  ...+..+|.+++|+|++++...+..    .......+. ++++||+|+.++. ...+   
T Consensus        64 ~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~~~-~~~~~~~  142 (397)
T 1d2e_A           64 AARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQIGVEHVVVYVNKADAVQDS-EMVELVE  142 (397)
T ss_dssp             SSCEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCCEEEEEECGGGCSCH-HHHHHHH
T ss_pred             CCeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCeEEEEEECcccCCCH-HHHHHHH
Confidence            46789999999921 000  0122357999999999987543211    111234564 7899999998531 2222   


Q ss_pred             -HHHHHHHhhC---CCCCEEEEeccCCCC----------HHHHHHHHHHHHHH
Q 029893          141 -VMERDALRMR---DGGPFIFAQVKHGLG----------VEEIVNHILQAWEA  179 (186)
Q Consensus       141 -~~~~~l~~~~---p~a~i~~~Sa~~g~g----------i~~l~~~i~~~~~~  179 (186)
                       ++.+.+++..   ...+++++||++|.|          +++|++.+.+++|.
T Consensus       143 ~~~~~~l~~~~~~~~~~~~i~~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~~p~  195 (397)
T 1d2e_A          143 LEIRELLTEFGYKGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYIPV  195 (397)
T ss_dssp             HHHHHHHHHTTSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHcCCCcccCcEEEeehhhcccccCCCccCCcHHHHHHHHHHhCCC
Confidence             3334444433   146999999999774          89999999887763

>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=98.30  E-value=1.2e-06  Score=66.14  Aligned_cols=105  Identities=14%  Similarity=0.163  Sum_probs=64.5

Q ss_pred             CCcEEEEecCCCeeEE----eeeeecCceEEEEEeCCCCCCCc--c-------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           73 KADLLLCESGGDNLAA----NFSRELADYIIYIIDVSGGDKIP--R-------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~----~~~~~~ad~~v~VvDa~~~~~~~--~-------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+.+++++|.|..-..    +..+..+|..++|+|.++.....  .       .....-..+.++|.||+|+.+......
T Consensus        55 ~~~l~~~Dt~~~~~~~~~~~~~~~~~~~~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~r~v~~  134 (192)
T 2cjw_A           55 SATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVSV  134 (192)
T ss_dssp             EEEEEEECCCCC----CTTGGGHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGGGCCSCH
T ss_pred             EEEEEEEEeccCcchhhhHHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhccccccH
Confidence            4556788999831101    11223478999999997643211  0       011112357899999999975421222


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      +.........  ..+++++||++|.|++++++++.+.+..
T Consensus       135 ~~~~~~a~~~--~~~~~e~SA~~g~~v~~lf~~l~~~~~~  172 (192)
T 2cjw_A          135 SEGRAXAVVF--DXKFIETSAAVQHNVKELFEGIVRQVRL  172 (192)
T ss_dssp             HHHHHHHHHT--TCEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh--CCceEEeccccCCCHHHHHHHHHHHHHh
Confidence            3322222222  3589999999999999999999887643

>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=98.27  E-value=1.7e-07  Score=69.97  Aligned_cols=105  Identities=18%  Similarity=0.172  Sum_probs=66.6

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc---cCCCCC-----CCceeEEEEecCCCCCcc-----
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP---RKGGPG-----ITQADLLVINKTDLASAI-----  135 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~---~~~~~~-----~~~adiivlNK~Dl~~~~-----  135 (186)
                      ..+.+.|++|+|...   ..+..+..+|.+++|+|+++.....   ..+...     -..+.++|+||+|+.++.     
T Consensus        53 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~  132 (184)
T 1m7b_A           53 QRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVE  132 (184)
T ss_dssp             CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHH
T ss_pred             EEEEEEEEECCCChhhhhhHHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEcchhhcchhhHhh
Confidence            356788999999310   0112234579999999998743211   111110     135789999999997531     


Q ss_pred             -------cccHHHHHHHHHhhCCCCCEEEEecc-CCCCHHHHHHHHHHHH
Q 029893          136 -------GADLAVMERDALRMRDGGPFIFAQVK-HGLGVEEIVNHILQAW  177 (186)
Q Consensus       136 -------~~~~~~~~~~l~~~~p~a~i~~~Sa~-~g~gi~~l~~~i~~~~  177 (186)
                             ....++..+..+..+ ..+++++||+ +|.|++++++++.+..
T Consensus       133 ~~~~~~~~v~~~~~~~~~~~~~-~~~~~e~Sa~~~~~gi~~l~~~i~~~~  181 (184)
T 1m7b_A          133 LSNHRQTPVSYDQGANMAKQIG-AATYIECSALQSENSVRDIFHVATLAC  181 (184)
T ss_dssp             HHTTTCCCCCHHHHHHHHHHHT-CSEEEECBTTTBHHHHHHHHHHHHHHH
T ss_pred             hhhcccCCCCHHHHHHHHHHcC-CcEEEEeeecCCCcCHHHHHHHHHHHH
Confidence                   012233343444432 4589999999 6999999999988764

>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=98.27  E-value=2.2e-07  Score=79.36  Aligned_cols=96  Identities=17%  Similarity=0.158  Sum_probs=59.2

Q ss_pred             CCcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCCCccC----CCCCCCc-eeEEEEecCCCCCcccccHHH---
Q 029893           73 KADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDKIPRK----GGPGITQ-ADLLVINKTDLASAIGADLAV---  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~-adiivlNK~Dl~~~~~~~~~~---  141 (186)
                      +..+.|++|+|.. ....  ..+..+|.+++|+|+.++...+..    ....+.. +.++|+||+|+.+......+.   
T Consensus       103 ~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~~qt~~~l~~~~~~~~~~iIvviNK~Dl~~~~~~~~~~i~~  182 (434)
T 1zun_B          103 KRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHSYIASLLGIKHIVVAINKMDLNGFDERVFESIKA  182 (434)
T ss_dssp             SEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEEEEEEECTTTTTSCHHHHHHHHH
T ss_pred             CceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEEcCcCCcccHHHHHHHHH
Confidence            4578999999931 0000  112457999999999987532211    1112333 468899999998631122222   


Q ss_pred             -HHHHHHhhC---CCCCEEEEeccCCCCHHH
Q 029893          142 -MERDALRMR---DGGPFIFAQVKHGLGVEE  168 (186)
Q Consensus       142 -~~~~l~~~~---p~a~i~~~Sa~~g~gi~~  168 (186)
                       +.+.++...   +..+++++||++|.|+++
T Consensus       183 ~~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~  213 (434)
T 1zun_B          183 DYLKFAEGIAFKPTTMAFVPMSALKGDNVVN  213 (434)
T ss_dssp             HHHHHHHTTTCCCSEEEEEECCTTTCTTTSS
T ss_pred             HHHHHHHHhCCCccCceEEEEeccCCCCccc
Confidence             333334443   236899999999999987

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=98.27  E-value=4.3e-08  Score=86.07  Aligned_cols=107  Identities=12%  Similarity=0.114  Sum_probs=67.4

Q ss_pred             CCcEEEEecCCCe-eE--EeeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCcccccH-HHHHH
Q 029893           73 KADLLLCESGGDN-LA--ANFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASAIGADL-AVMER  144 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~--~~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~~~~~~-~~~~~  144 (186)
                      +..+.|++|+|-. ..  ....+..+|++++|+|+.++...+..    +......+.++++||+|+.+...... ..+..
T Consensus        51 g~~i~~iDTPGhe~f~~~~~~~~~~aD~vILVVDa~dg~~~qt~e~l~~~~~~~vPiIVViNKiDl~~~~~~~v~~~l~~  130 (537)
T 3izy_P           51 GEKITFLDTPGHAAFSAMRARGTQVTDIVILVVAADDGVMKQTVESIQHAKDAHVPIVLAINKCDKAEADPEKVKKELLA  130 (537)
T ss_dssp             SSCCBCEECSSSCCTTTSBBSSSBSBSSCEEECBSSSCCCHHHHHHHHHHHTTTCCEEECCBSGGGTTTSCCSSSSHHHH
T ss_pred             CCEEEEEECCChHHHHHHHHHHHccCCEEEEEEECCCCccHHHHHHHHHHHHcCCcEEEEEecccccccchHHHHHHHHh
Confidence            4568899999921 00  01122457999999999987543211    11123457899999999975421111 11111


Q ss_pred             H---HHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          145 D---ALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       145 ~---l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      .   ...+....+++++||++|.|+++|++++....+.
T Consensus       131 ~~~~~e~~~~~~~iv~vSAktG~GI~eLle~I~~l~~~  168 (537)
T 3izy_P          131 YDVVCEDYGGDVQAVHVSALTGENMMALAEATIALAEM  168 (537)
T ss_dssp             TTSCCCCSSSSEEECCCCSSSSCSSHHHHHHHHHHHTT
T ss_pred             hhhhHHhcCCCceEEEEECCCCCCchhHHHHHHHhhhc
Confidence            1   1111234589999999999999999999887653

>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=98.27  E-value=2.2e-07  Score=79.41  Aligned_cols=105  Identities=15%  Similarity=0.161  Sum_probs=67.8

Q ss_pred             cCCcEEEEecCCCee------EE------eeeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcc
Q 029893           72 FKADLLLCESGGDNL------AA------NFSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAI  135 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l------~~------~~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~  135 (186)
                      .+..+.+++|.|...      ..      ...++.+|++++|+|+..+.....    .+......+.++|+||+|+.+. 
T Consensus        47 ~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~~ad~il~V~D~~~~~~~~d~~i~~~l~~~~~p~ilv~NK~D~~~~-  125 (439)
T 1mky_A           47 YGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFLRKSTVDTILVANKAENLRE-  125 (439)
T ss_dssp             TTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEEEETTTCCCHHHHHHHHHHHHHTCCEEEEEESCCSHHH-
T ss_pred             CCeEEEEEECCCccccccchHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEeCCCCccc-
Confidence            345688999999421      00      012346899999999987643211    1111124678999999998532 


Q ss_pred             cccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          136 GADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       136 ~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                       . .......+.+. ...+++++||++|.|++++++++.+.+++.
T Consensus       126 -~-~~~~~~~~~~l-g~~~~~~iSA~~g~gv~~L~~~i~~~l~~~  167 (439)
T 1mky_A          126 -F-EREVKPELYSL-GFGEPIPVSAEHNINLDTMLETIIKKLEEK  167 (439)
T ss_dssp             -H-HHHTHHHHGGG-SSCSCEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             -c-HHHHHHHHHhc-CCCCEEEEeccCCCCHHHHHHHHHHhcccc
Confidence             1 11121122222 234789999999999999999999988854

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.26  E-value=2.6e-06  Score=68.19  Aligned_cols=76  Identities=11%  Similarity=0.034  Sum_probs=54.7

Q ss_pred             cCceEEEEEeCCCCCCCcc-CCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHH
Q 029893           94 LADYIIYIIDVSGGDKIPR-KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNH  172 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~~~-~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~  172 (186)
                      .+|+++.|+|+..+..... ... .+..+.++|+||+||++.  ...+...+.+++.  ..++ ++||++|.|+++|++.
T Consensus        21 ~~D~vl~VvDar~P~~~~~~~l~-ll~k~~iivlNK~DL~~~--~~~~~~~~~~~~~--g~~v-~iSa~~~~gi~~L~~~   94 (262)
T 3cnl_A           21 LVNTVVEVRDARAPFATSAYGVD-FSRKETIILLNKVDIADE--KTTKKWVEFFKKQ--GKRV-ITTHKGEPRKVLLKKL   94 (262)
T ss_dssp             TCSEEEEEEETTSTTTTSCTTSC-CTTSEEEEEEECGGGSCH--HHHHHHHHHHHHT--TCCE-EECCTTSCHHHHHHHH
T ss_pred             hCCEEEEEeeCCCCCcCcChHHH-hcCCCcEEEEECccCCCH--HHHHHHHHHHHHc--CCeE-EEECCCCcCHHHHHHH
Confidence            5799999999987643321 111 227789999999999976  4455555555543  3467 9999999999999987


Q ss_pred             HHH
Q 029893          173 ILQ  175 (186)
Q Consensus       173 i~~  175 (186)
                      +.+
T Consensus        95 l~~   97 (262)
T 3cnl_A           95 SFD   97 (262)
T ss_dssp             CCC
T ss_pred             HHH
Confidence            654

>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=98.25  E-value=6.6e-08  Score=77.92  Aligned_cols=100  Identities=15%  Similarity=0.186  Sum_probs=65.1

Q ss_pred             CCcEEEEecCCCe-eEE--------eeee--ecCceEEEEEeCCCCCCCccCCC---CCCCceeEEEEecCCCCCccc--
Q 029893           73 KADLLLCESGGDN-LAA--------NFSR--ELADYIIYIIDVSGGDKIPRKGG---PGITQADLLVINKTDLASAIG--  136 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~--------~~~~--~~ad~~v~VvDa~~~~~~~~~~~---~~~~~adiivlNK~Dl~~~~~--  136 (186)
                      +..+.|++|+|.. ...        ...+  ..+|++++|+|+++..... .+.   .....+.++|+||+|+.+...  
T Consensus        48 ~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~vi~V~D~t~~e~~~-~~~~~l~~~~~p~ilv~NK~Dl~~~~~~~  126 (272)
T 3b1v_A           48 NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQRADSILNVVDATNLERNL-YLTTQLIETGIPVTIALNMIDVLDGQGKK  126 (272)
T ss_dssp             CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTTCCSEEEEEEEGGGHHHHH-HHHHHHHHTCSCEEEEEECHHHHHHTTCC
T ss_pred             CCeEEEEECCCcCccCCCChHHHHHHHHHhcCCCCEEEEEecCCchHhHH-HHHHHHHhcCCCEEEEEEChhhCCcCCcH
Confidence            6789999999941 110        0011  1479999999998743211 111   113568999999999865311  


Q ss_pred             ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          137 ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       137 ~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ...+.+.+   .+  ..|++++||++|+|++++++++.+..+
T Consensus       127 ~~~~~l~~---~l--g~~vi~~SA~~g~gi~el~~~i~~~~~  163 (272)
T 3b1v_A          127 INVDKLSY---HL--GVPVVATSALKQTGVDQVVKKAAHTTT  163 (272)
T ss_dssp             CCHHHHHH---HH--TSCEEECBTTTTBSHHHHHHHHHHSCT
T ss_pred             HHHHHHHH---Hc--CCCEEEEEccCCCCHHHHHHHHHHHHh
Confidence            12233322   22  358999999999999999999987543

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=98.25  E-value=1.1e-07  Score=83.34  Aligned_cols=106  Identities=15%  Similarity=0.137  Sum_probs=66.3

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCccCCCCC-----CCceeEEEEecCCCCCcccccHHHHH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPRKGGPG-----ITQADLLVINKTDLASAIGADLAVME  143 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~~~~~~-----~~~adiivlNK~Dl~~~~~~~~~~~~  143 (186)
                      .+..+.+++|+|..-.   ....+..+|++++|+|++..+... .+..+     -..+.++|+||+|+.+......+.+.
T Consensus        96 ~~~~~~i~Dt~G~e~~~~~~~~~l~~~d~ii~V~D~s~~~~~~-~~~~~l~~~~~~~pvilV~NK~Dl~~~~~v~~~~~~  174 (535)
T 3dpu_A           96 KECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDSRTDSNKH-YWLRHIEKYGGKSPVIVVMNKIDENPSYNIEQKKIN  174 (535)
T ss_dssp             TTCEEEEECCCSCCTTTTTCHHHHHSSEEEEEEECGGGGGGHH-HHHHHHHHHSSSCCEEEEECCTTTCTTCCCCHHHHH
T ss_pred             ceEEEEEEECCcHHHHHHHHHHHccCCcEEEEEEeCCCchhHH-HHHHHHHHhCCCCCEEEEEECCCcccccccCHHHHH
Confidence            3688999999993100   111233579999999998753211 11000     13588999999999875322344444


Q ss_pred             HHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          144 RDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       144 ~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      +.....  ..+++++||++|.|++++++++.+.+...
T Consensus       175 ~~~~~~--~~~~~~vSA~~g~gi~eL~~~l~~~~~~~  209 (535)
T 3dpu_A          175 ERFPAI--ENRFHRISCKNGDGVESIAKSLKSAVLHP  209 (535)
T ss_dssp             HHCGGG--TTCEEECCC-----CTTHHHHHHHHHTCT
T ss_pred             HHHHhc--CCceEEEecCcccCHHHHHHHHHHHHhcc
Confidence            444443  35899999999999999999998877643

>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=98.24  E-value=8.3e-07  Score=73.76  Aligned_cols=104  Identities=21%  Similarity=0.260  Sum_probs=67.6

Q ss_pred             CcEEEEecCCCe--------eEEee--eeecCceEEEEEeCCCC---CCC---------ccCCCC-CCCceeEEEEecCC
Q 029893           74 ADLLLCESGGDN--------LAANF--SRELADYIIYIIDVSGG---DKI---------PRKGGP-GITQADLLVINKTD  130 (186)
Q Consensus        74 ~D~iiIEtsG~~--------l~~~~--~~~~ad~~v~VvDa~~~---~~~---------~~~~~~-~~~~adiivlNK~D  130 (186)
                      ..++|++|+|..        +...|  ....++++++|+|+++.   +..         ...+.. ....+.++|+||+|
T Consensus       206 ~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~D  285 (342)
T 1lnz_A          206 RSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMD  285 (342)
T ss_dssp             CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTT
T ss_pred             ceEEEecCCCCcccccccchhHHHHHHHHHhccEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECcc
Confidence            678999999921        00111  11237999999999863   111         011221 24568899999999


Q ss_pred             CCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          131 LASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       131 l~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      +.+.  .  +.+.+..+.+....+++++||++++|+++++++|.+.+...+
T Consensus       286 l~~~--~--e~~~~l~~~l~~~~~v~~iSA~tg~gi~eL~~~l~~~l~~~~  332 (342)
T 1lnz_A          286 MPEA--A--ENLEAFKEKLTDDYPVFPISAVTREGLRELLFEVANQLENTP  332 (342)
T ss_dssp             STTH--H--HHHHHHHHHCCSCCCBCCCSSCCSSTTHHHHHHHHHHHTSCC
T ss_pred             CCCC--H--HHHHHHHHHhhcCCCEEEEECCCCcCHHHHHHHHHHHHhhCc
Confidence            9865  2  122222233332368999999999999999999998886543

>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=98.23  E-value=2e-07  Score=75.70  Aligned_cols=108  Identities=13%  Similarity=0.054  Sum_probs=64.2

Q ss_pred             CCcEEEEecCCCeeEE------e----e------eeecCceEEEEEeCCC-CCCCcc-----CCCCCCCceeEEEEecCC
Q 029893           73 KADLLLCESGGDNLAA------N----F------SRELADYIIYIIDVSG-GDKIPR-----KGGPGITQADLLVINKTD  130 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~------~----~------~~~~ad~~v~VvDa~~-~~~~~~-----~~~~~~~~adiivlNK~D  130 (186)
                      +++++|++|+|..-..      .    +      .+..+|.+++|+|+.. +.....     .+......+.++|+||+|
T Consensus       130 ~~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~~~~~~~~i~v~NK~D  209 (315)
T 1jwy_B          130 VVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVDPEGKRTIGVITKLD  209 (315)
T ss_dssp             SCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHCSSCSSEEEEEECTT
T ss_pred             CCCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHhCCCCCcEEEEEcCcc
Confidence            4789999999942100      0    0      1235799999999743 221111     111224568899999999


Q ss_pred             CCCcccccHHHHHHHHHhh-CCCCCEEEEeccC---CCCHHHHHHHHHHHHHHh
Q 029893          131 LASAIGADLAVMERDALRM-RDGGPFIFAQVKH---GLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       131 l~~~~~~~~~~~~~~l~~~-~p~a~i~~~Sa~~---g~gi~~l~~~i~~~~~~~  180 (186)
                      +.+......+.+...+... .++.++..+||.+   +.|++++++.+.++++..
T Consensus       210 l~~~~~~~~~~~~~~~~~~~~~~~~v~~~sa~~~~~~~gv~~l~~~~~~~~~~~  263 (315)
T 1jwy_B          210 LMDKGTDAMEVLTGRVIPLTLGFIGVINRSQEDIIAKKSIRESLKSEILYFKNH  263 (315)
T ss_dssp             SSCSSCCCHHHHTTSSSCCTTCEEECCCCCHHHHSSSCCHHHHHHHHHHHHHTC
T ss_pred             cCCcchHHHHHHhCCCccCCCCeEEEecCChhhhccCCCHHHHHHHHHHHHhCC
Confidence            9876211122222111111 2334556667777   899999999999888763

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=98.23  E-value=2e-07  Score=74.96  Aligned_cols=103  Identities=15%  Similarity=-0.019  Sum_probs=63.9

Q ss_pred             CCcEEEEecCCCeeEE----e------e------eeecCc-eEEEEEeCCCCCCCcc--CC---CCCCCceeEEEEecCC
Q 029893           73 KADLLLCESGGDNLAA----N------F------SRELAD-YIIYIIDVSGGDKIPR--KG---GPGITQADLLVINKTD  130 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~----~------~------~~~~ad-~~v~VvDa~~~~~~~~--~~---~~~~~~adiivlNK~D  130 (186)
                      .+++.|++|+|..-..    +      +      .+..++ ++++|+|++.+.....  .+   ......+.++|+||+|
T Consensus       124 ~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~~~~~~~~~~~~~i~V~NK~D  203 (299)
T 2aka_B          124 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDPQGQRTIGVITKLD  203 (299)
T ss_dssp             CCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCTTCSSEEEEEECGG
T ss_pred             CCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHHHHHHhCCCCCeEEEEEEccc
Confidence            3799999999942100    0      0      112344 4457999987543221  11   1123457899999999


Q ss_pred             CCCcccccHHHHHHHHHhh-C----CCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          131 LASAIGADLAVMERDALRM-R----DGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       131 l~~~~~~~~~~~~~~l~~~-~----p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      +.++. ....   +.++.. .    ++.+++++||++|.|++++++++.+..+.
T Consensus       204 l~~~~-~~~~---~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l~~~~~~  253 (299)
T 2aka_B          204 LMDEG-TDAR---DVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAERKF  253 (299)
T ss_dssp             GSCTT-CCCH---HHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHHHHHHHH
T ss_pred             cCCCC-chHH---HHHhCCcCcCCCCcEEEECCChhhccccccHHHHHHHHHHH
Confidence            98752 1111   222221 1    24588999999999999999998876553

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=98.22  E-value=4.8e-08  Score=86.78  Aligned_cols=107  Identities=13%  Similarity=0.101  Sum_probs=58.6

Q ss_pred             cCCcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCC-------CCcc-C---CCCCCCce-eEEEEecCCCCCccc
Q 029893           72 FKADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGD-------KIPR-K---GGPGITQA-DLLVINKTDLASAIG  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~-------~~~~-~---~~~~~~~a-diivlNK~Dl~~~~~  136 (186)
                      .+..+.|++|+|.. ....  .....+|++|+|+|+.++.       ..+. .   ....+..+ .++|+||+|+.+...
T Consensus       253 ~~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~lgip~iIvviNKiDl~~~~~  332 (592)
T 3mca_A          253 DKKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRALGISEIVVSVNKLDLMSWSE  332 (592)
T ss_dssp             ------CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHHSSCCCEEEEEECGGGGTTCH
T ss_pred             CCeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHHcCCCeEEEEEeccccccccH
Confidence            35678999999932 1111  1223579999999998753       1111 0   01123444 677999999986311


Q ss_pred             ccHHHHHHHHHhhC----C----CCCEEEEeccCCCCHH--------------HHHHHHHHHHH
Q 029893          137 ADLAVMERDALRMR----D----GGPFIFAQVKHGLGVE--------------EIVNHILQAWE  178 (186)
Q Consensus       137 ~~~~~~~~~l~~~~----p----~a~i~~~Sa~~g~gi~--------------~l~~~i~~~~~  178 (186)
                      ...+.+...++...    .    ..+++++||++|.|+.              .|++.|....+
T Consensus       333 ~~~~~i~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~e~~~~~~~~w~~g~~Lle~l~~~~p  396 (592)
T 3mca_A          333 DRFQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLIQKDSSDLYKWYKGPTLLSALDQLVP  396 (592)
T ss_dssp             HHHHHHHHHHHHHHTTTSCCCGGGEEEEEECSSSCSSSCSCCCCGGGGTCCSCCHHHHHHTSCC
T ss_pred             HHHHHHHHHHHHHHHHhhCCCccceEEEEEecccCcccccccccccccccchHHHHHHHHhhcc
Confidence            33444444444322    1    3489999999999998              78888876544

>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=98.21  E-value=9e-07  Score=66.82  Aligned_cols=104  Identities=13%  Similarity=0.025  Sum_probs=64.2

Q ss_pred             cCCcEEEEecCCCee-EE-----eeeeecCceEEEEEeCCCCCCCc-c---CCC-----CCCCceeEEEEecCCCCCccc
Q 029893           72 FKADLLLCESGGDNL-AA-----NFSRELADYIIYIIDVSGGDKIP-R---KGG-----PGITQADLLVINKTDLASAIG  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~~-----~~~~~~ad~~v~VvDa~~~~~~~-~---~~~-----~~~~~adiivlNK~Dl~~~~~  136 (186)
                      ....+.|++|+|..- ..     ...+..+|.+++|+|+++..... .   .+.     ..-..+.++|+||+|+.++..
T Consensus        67 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~~~~piilv~nK~Dl~~~~~  146 (196)
T 3llu_A           67 SFVNFQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMNFEVFIHKVDGLSDDH  146 (196)
T ss_dssp             TSCCEEEEECCSSCCTTCTTCCHHHHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCHHH
T ss_pred             CeeEEEEEECCCCHHHHhhhhhcccccccCCEEEEEEECCCchHHHHHHHHHHHHHHHhcCCCCcEEEEEeccccCchhh
Confidence            467899999999311 01     12234589999999998751100 0   000     012458899999999987410


Q ss_pred             --ccHHHH----HHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          137 --ADLAVM----ERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       137 --~~~~~~----~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                        .....+    ...+...   ....+++++||++ .|++++++.+.+.
T Consensus       147 ~~~~~~~v~~~~~~~~~~~~~~~~~~~~~e~Sa~~-~~v~~~f~~l~~~  194 (196)
T 3llu_A          147 KIETQRDIHQRANDDLADAGLEKLHLSFYLTSIYD-HSIFEAFSKVVQK  194 (196)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCTTSCEEEEEECTTS-THHHHHHHHHHHH
T ss_pred             hhHHHhHHHHHHHHHHHHhhhhcCCcceEEEEech-hhHHHHHHHHHHH
Confidence              001111    1122221   2346899999999 9999999988764

>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=98.20  E-value=2.9e-07  Score=74.72  Aligned_cols=105  Identities=14%  Similarity=0.077  Sum_probs=65.8

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc---CCCC-----CCCceeEEEEecCCCCCcc------
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR---KGGP-----GITQADLLVINKTDLASAI------  135 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~---~~~~-----~~~~adiivlNK~Dl~~~~------  135 (186)
                      .+.+.|++|+|..--   ....+..+|.+++|+|+++......   .+..     .-..+.++|+||+|+.+..      
T Consensus       202 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~  281 (332)
T 2wkq_A          202 PVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKL  281 (332)
T ss_dssp             EEEEEEEEECCCGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTSCEEEEEECHHHHTCHHHHHHH
T ss_pred             EEEEEEEeCCCchhhhHHHHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhCCCCcEEEEEEchhcccccchhhhc
Confidence            455669999993110   1112345799999999987532111   1100     0146889999999997541      


Q ss_pred             ------cccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          136 ------GADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       136 ------~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                            ....+...+..+.. ...+++++||++|.|++++++++.+.+.
T Consensus       282 ~~~~~~~v~~~~~~~~~~~~-~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  329 (332)
T 2wkq_A          282 KEKKLTPITYPQGLAMAKEI-GAVKYLECSALTQRGLKTVFDEAIRAVL  329 (332)
T ss_dssp             HHTTCCCCCHHHHHHHHHHT-TCSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             cccccccccHHHHHHHHHHc-CCcEEEEecCCCCcCHHHHHHHHHHHHh
Confidence                  01122233333332 2348999999999999999999987654

>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=98.20  E-value=2.9e-07  Score=68.36  Aligned_cols=100  Identities=22%  Similarity=0.287  Sum_probs=63.3

Q ss_pred             CCcEEEEecCCCeeE-E---------e-eeeecCceEEEEEeCCCCCCCcc-CCCC------CCCceeEEEEecCCCCCc
Q 029893           73 KADLLLCESGGDNLA-A---------N-FSRELADYIIYIIDVSGGDKIPR-KGGP------GITQADLLVINKTDLASA  134 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~-~---------~-~~~~~ad~~v~VvDa~~~~~~~~-~~~~------~~~~adiivlNK~Dl~~~  134 (186)
                      +..+.+++|+|..-. .         . ..+..+|.+++|+|+++...... .+..      ....+.++|+||+|+.++
T Consensus        51 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  130 (172)
T 2gj8_A           51 GMPLHIIDTAGLREASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKADITGE  130 (172)
T ss_dssp             TEEEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSEEEEEEETTTCCCCSHHHHCHHHHHHSCTTCCEEEEEECHHHHCC
T ss_pred             CeEEEEEECCCcccchhHHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHhcccCCCEEEEEECccCCcc
Confidence            345789999994210 0         0 12345799999999987654211 1110      123578999999999653


Q ss_pred             ccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          135 IGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       135 ~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      . ...       .+. ...+++++||++|.|++++++++.+.+....
T Consensus       131 ~-~~~-------~~~-~~~~~~~~SA~~g~gv~~l~~~l~~~~~~~~  168 (172)
T 2gj8_A          131 T-LGM-------SEV-NGHALIRLSARTGEGVDVLRNHLKQSMGFDT  168 (172)
T ss_dssp             C-CEE-------EEE-TTEEEEECCTTTCTTHHHHHHHHHHHC----
T ss_pred             h-hhh-------hhc-cCCceEEEeCCCCCCHHHHHHHHHHHhhhcc
Confidence            1 110       011 2458999999999999999999998776543

>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=98.20  E-value=6e-08  Score=71.44  Aligned_cols=100  Identities=20%  Similarity=0.193  Sum_probs=63.0

Q ss_pred             CCcEEEEecCCCeeEE---------eeee--ecCceEEEEEeCCCCCCCccC--CCCCCCceeEEEEecCCCCCccc--c
Q 029893           73 KADLLLCESGGDNLAA---------NFSR--ELADYIIYIIDVSGGDKIPRK--GGPGITQADLLVINKTDLASAIG--A  137 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~---------~~~~--~~ad~~v~VvDa~~~~~~~~~--~~~~~~~adiivlNK~Dl~~~~~--~  137 (186)
                      +..+.+++|+|..--.         ...+  ..+|++++|+|+++.+.....  .......+.++|+||+|+.+...  .
T Consensus        49 ~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~  128 (165)
T 2wji_A           49 GEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATALERNLYLTLQLMEMGANLLLALNKMDLAKSLGIEI  128 (165)
T ss_dssp             TEEEEEEECCCCSCSSSSSHHHHHHHHHHHHHCCSEEEEEEETTCHHHHHHHHHHHHHTTCCEEEEEECHHHHHHTTCCC
T ss_pred             CcEEEEEECCCcccCCCcchhHHHHHHHHhcCCCCEEEEEecCCchhHhHHHHHHHHhcCCCEEEEEEchHhccccChhh
Confidence            4578899999931100         0111  157899999999874321100  00112468899999999864311  1


Q ss_pred             cHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          138 DLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       138 ~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      +.+.+.   +..+  .+++++||++|.|++++++++.+.+
T Consensus       129 ~~~~~~---~~~~--~~~~~~SA~~~~~v~~l~~~l~~~~  163 (165)
T 2wji_A          129 DVDKLE---KILG--VKVVPLSAAKKMGIEELKKAISIAV  163 (165)
T ss_dssp             CHHHHH---HHHT--SCEEECBGGGTBSHHHHHHHHHHHT
T ss_pred             HHHHHH---HHhC--CCEEEEEcCCCCCHHHHHHHHHHHh
Confidence            222222   2232  5899999999999999999998754

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.20  E-value=3.2e-06  Score=70.85  Aligned_cols=84  Identities=17%  Similarity=0.087  Sum_probs=55.5

Q ss_pred             cCceEEEEEeCCCCCCCcc-CCCCCC-CceeEEEEecCCCCCcccccHHHHHHHH----HhhC-CCCCEEEEeccCCCCH
Q 029893           94 LADYIIYIIDVSGGDKIPR-KGGPGI-TQADLLVINKTDLASAIGADLAVMERDA----LRMR-DGGPFIFAQVKHGLGV  166 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~~~-~~~~~~-~~adiivlNK~Dl~~~~~~~~~~~~~~l----~~~~-p~a~i~~~Sa~~g~gi  166 (186)
                      .+++++.|+|+++.+.... .....+ ..+.++|+||+||.+.. ...+.+.+++    ++.. +..+++.+||++|.|+
T Consensus        71 ~~~lil~VvD~~d~~~s~~~~l~~~l~~~piilV~NK~DLl~~~-~~~~~~~~~l~~~~~~~g~~~~~v~~iSA~~g~gi  149 (369)
T 3ec1_A           71 SKALVVNIVDIFDFNGSFIPGLPRFAADNPILLVGNKADLLPRS-VKYPKLLRWMRRMAEELGLCPVDVCLVSAAKGIGM  149 (369)
T ss_dssp             HCCEEEEEEETTCSGGGCCSSHHHHCTTSCEEEEEECGGGSCTT-CCHHHHHHHHHHHHHTTTCCCSEEEECBTTTTBTH
T ss_pred             cCcEEEEEEECCCCCCchhhHHHHHhCCCCEEEEEEChhcCCCc-cCHHHHHHHHHHHHHHcCCCcccEEEEECCCCCCH
Confidence            4689999999988653211 000011 45789999999998652 2233333333    3222 1247999999999999


Q ss_pred             HHHHHHHHHHHH
Q 029893          167 EEIVNHILQAWE  178 (186)
Q Consensus       167 ~~l~~~i~~~~~  178 (186)
                      ++|++.+.++.+
T Consensus       150 ~~L~~~I~~~~~  161 (369)
T 3ec1_A          150 AKVMEAINRYRE  161 (369)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHhhcc
Confidence            999999987653

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=98.19  E-value=1.4e-06  Score=78.71  Aligned_cols=108  Identities=10%  Similarity=0.074  Sum_probs=68.0

Q ss_pred             CcEEEEecCCCeeEE-----e-eeeecCceEEEEEeCCCCCCCcc-----CCCCCCCceeEEEEecCCCCCcc---cc--
Q 029893           74 ADLLLCESGGDNLAA-----N-FSRELADYIIYIIDVSGGDKIPR-----KGGPGITQADLLVINKTDLASAI---GA--  137 (186)
Q Consensus        74 ~D~iiIEtsG~~l~~-----~-~~~~~ad~~v~VvDa~~~~~~~~-----~~~~~~~~adiivlNK~Dl~~~~---~~--  137 (186)
                      .++.||+|+|+.-..     . ..+..+|++++|+|++++.....     ........+.++|+||+|+.+..   ..  
T Consensus       174 ~~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~~~~~~iiiVlNK~Dl~~~~~~~~ee~  253 (695)
T 2j69_A          174 KGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIKGRGLTVFFLVNAWDQVRESLIDPDDV  253 (695)
T ss_dssp             TTEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTTTSCCCEEEEEECGGGGGGGCSSTTCH
T ss_pred             CCeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHHhhCCCEEEEEECcccccccccChhhH
Confidence            589999999942100     0 11235899999999987643211     11222345789999999997541   01  


Q ss_pred             -cHHH----HHH----HHHhhC-------CCCCEEEEecc--------------CCCCHHHHHHHHHHHHHHhh
Q 029893          138 -DLAV----MER----DALRMR-------DGGPFIFAQVK--------------HGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       138 -~~~~----~~~----~l~~~~-------p~a~i~~~Sa~--------------~g~gi~~l~~~i~~~~~~~~  181 (186)
                       .++.    +.+    .+....       ...+++++||+              +|.|++++++++.+.+...+
T Consensus       254 e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~~~~~~~~Gi~~L~~~L~~~l~~~~  327 (695)
T 2j69_A          254 EELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQADLDGTGFPKFMDSLNTFLTRER  327 (695)
T ss_dssp             HHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCTTCCCTTSSHHHHHHHHHHHHHHTH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhhccCchhhhhccCHHHHHHHHHHHHHHhH
Confidence             1221    211    122211       23489999999              99999999999988775433

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=98.19  E-value=2.2e-07  Score=79.42  Aligned_cols=102  Identities=20%  Similarity=0.293  Sum_probs=61.9

Q ss_pred             cCCcEEEEecCCCeeEE-----e------eeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCccc
Q 029893           72 FKADLLLCESGGDNLAA-----N------FSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIG  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~-----~------~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~  136 (186)
                      .+..+.+++|.|.....     .      ..++.+|++++|+|+..+.....    .+......+.++|+||+|+.+.. 
T Consensus        49 ~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvD~~~~~~~~d~~~~~~l~~~~~pvilv~NK~D~~~~~-  127 (436)
T 2hjg_A           49 LNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAADEEVAKILYRTKKPVVLAVNKLDNTEMR-  127 (436)
T ss_dssp             CSSCCEEEC---------CHHHHHHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHTTCCSCEEEEEECCCC-----
T ss_pred             CCceEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECccCccch-
Confidence            46689999999942110     0      12345799999999988654221    11122456899999999997541 


Q ss_pred             ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          137 ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       137 ~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ...   .+ ..+. ...+++++||++|.|+++|++++.+.+++
T Consensus       128 ~~~---~~-~~~l-g~~~~~~iSA~~g~gv~~L~~~i~~~l~~  165 (436)
T 2hjg_A          128 ANI---YD-FYSL-GFGEPYPISGTHGLGLGDLLDAVAEHFKN  165 (436)
T ss_dssp             -CC---CS-SGGG-SSCCCEECBTTTTBTHHHHHHHHHHTGGG
T ss_pred             hhH---HH-HHHc-CCCCeEEEeCcCCCChHHHHHHHHHhcCc
Confidence            111   11 1122 22378999999999999999999988764

>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=98.18  E-value=3.4e-07  Score=70.11  Aligned_cols=104  Identities=18%  Similarity=0.182  Sum_probs=66.0

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc---cCCCCC-----CCceeEEEEecCCCCCcc------
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP---RKGGPG-----ITQADLLVINKTDLASAI------  135 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~---~~~~~~-----~~~adiivlNK~Dl~~~~------  135 (186)
                      .+.+.|++|+|...   ..+..+..+|.+++|+|+++.....   ..+...     -..+.++|+||+|+.+..      
T Consensus        75 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~  154 (205)
T 1gwn_A           75 RIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVEL  154 (205)
T ss_dssp             EEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHH
T ss_pred             EEEEEEEeCCCcHhhhHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEechhhccchhhhhhh
Confidence            56788999999310   0112234579999999998753211   111110     135789999999997520      


Q ss_pred             ------cccHHHHHHHHHhhCCCCCEEEEecc-CCCCHHHHHHHHHHHH
Q 029893          136 ------GADLAVMERDALRMRDGGPFIFAQVK-HGLGVEEIVNHILQAW  177 (186)
Q Consensus       136 ------~~~~~~~~~~l~~~~p~a~i~~~Sa~-~g~gi~~l~~~i~~~~  177 (186)
                            ....++..+..+..+ ..+++++||+ +|.|++++++++.+..
T Consensus       155 ~~~~~~~v~~~~~~~~~~~~~-~~~~~e~SAk~~~~gv~~lf~~l~~~~  202 (205)
T 1gwn_A          155 SNHRQTPVSYDQGANMAKQIG-AATYIECSALQSENSVRDIFHVATLAC  202 (205)
T ss_dssp             HTTTCCCCCHHHHHHHHHHHT-CSEEEECCTTTCHHHHHHHHHHHHHHH
T ss_pred             cccccCCCCHHHHHHHHHHcC-CCEEEEeeeccCCcCHHHHHHHHHHHH
Confidence                  012233333344432 3589999999 6899999999988754

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.17  E-value=2.2e-06  Score=71.80  Aligned_cols=80  Identities=19%  Similarity=0.182  Sum_probs=53.7

Q ss_pred             cCceEEEEEeCCCCCCCccCCCCC-----CCceeEEEEecCCCCCcccccHHHHHHHH----HhhC-CCCCEEEEeccCC
Q 029893           94 LADYIIYIIDVSGGDKIPRKGGPG-----ITQADLLVINKTDLASAIGADLAVMERDA----LRMR-DGGPFIFAQVKHG  163 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~~~~~~~~-----~~~adiivlNK~Dl~~~~~~~~~~~~~~l----~~~~-p~a~i~~~Sa~~g  163 (186)
                      .++++++|+|+++.+.   .+...     -..+.++|+||+||.+.. ...+.+.+++    ++.. +..+++.+||++|
T Consensus        69 ~~~~il~VvD~~d~~~---~~~~~l~~~~~~~p~ilV~NK~DL~~~~-~~~~~~~~~l~~~~~~~g~~~~~v~~iSA~~g  144 (368)
T 3h2y_A           69 SDALVVKIVDIFDFNG---SWLPGLHRFVGNNKVLLVGNKADLIPKS-VKHDKVKHWMRYSAKQLGLKPEDVFLISAAKG  144 (368)
T ss_dssp             SCCEEEEEEETTSHHH---HCCTTHHHHSSSSCEEEEEECGGGSCTT-SCHHHHHHHHHHHHHHTTCCCSEEEECCTTTC
T ss_pred             cCcEEEEEEECCCCcc---cHHHHHHHHhCCCcEEEEEEChhcCCcc-cCHHHHHHHHHHHHHHcCCCcccEEEEeCCCC
Confidence            3579999999987432   11111     145789999999998652 2223333332    2222 1237999999999


Q ss_pred             CCHHHHHHHHHHHH
Q 029893          164 LGVEEIVNHILQAW  177 (186)
Q Consensus       164 ~gi~~l~~~i~~~~  177 (186)
                      .|++++++.+.++.
T Consensus       145 ~gi~~L~~~l~~~~  158 (368)
T 3h2y_A          145 QGIAELADAIEYYR  158 (368)
T ss_dssp             TTHHHHHHHHHHHH
T ss_pred             cCHHHHHhhhhhhc
Confidence            99999999998765

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=98.15  E-value=2.1e-07  Score=82.88  Aligned_cols=97  Identities=16%  Similarity=0.170  Sum_probs=58.8

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCC-------CCcc-C---CCCCCCc-eeEEEEecCCCCCcccc
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGD-------KIPR-K---GGPGITQ-ADLLVINKTDLASAIGA  137 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~-------~~~~-~---~~~~~~~-adiivlNK~Dl~~~~~~  137 (186)
                      +..+.|++|+|..- .  ....+..+|++|+|+|++++.       ..+. .   ....+.. +.++|+||+|+.+....
T Consensus       244 ~~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~lgi~~iIVVvNKiDl~~~~~~  323 (611)
T 3izq_1          244 RANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVDWSQQ  323 (611)
T ss_dssp             SCEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTTTCCEEEEEEECTTTTTTCHH
T ss_pred             CceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHcCCCeEEEEEecccccchhHH
Confidence            56899999999310 0  011234589999999998742       0000 0   0111232 47888999999873212


Q ss_pred             cHHHHHHHH----HhhC---CCCCEEEEeccCCCCHHHH
Q 029893          138 DLAVMERDA----LRMR---DGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       138 ~~~~~~~~l----~~~~---p~a~i~~~Sa~~g~gi~~l  169 (186)
                      ..+.+.+.+    +...   ...+++++||++|.|++++
T Consensus       324 ~~~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          324 RFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             HHHHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             HHHHHHHHHHHHHHhhcccccCccEEeeecccCCCcccc
Confidence            233333333    3322   1479999999999999865

>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=98.15  E-value=1.1e-07  Score=75.37  Aligned_cols=105  Identities=9%  Similarity=0.048  Sum_probs=66.0

Q ss_pred             cCCcEEEEecCCCeeE-Ee-------------eeeecCceEEEEEeCCCCCCCccC--------CCCCCCceeEEEEe-c
Q 029893           72 FKADLLLCESGGDNLA-AN-------------FSRELADYIIYIIDVSGGDKIPRK--------GGPGITQADLLVIN-K  128 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~-~~-------------~~~~~ad~~v~VvDa~~~~~~~~~--------~~~~~~~adiivlN-K  128 (186)
                      .+..+.|++|+|..-. ..             ..+..+|.+++|+|++........        +......+.++|+| |
T Consensus        69 ~~~~i~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~~~d~il~V~d~~~~~~~~~~~~~~l~~~~~~~~~~~~i~vv~nK  148 (260)
T 2xtp_A           69 GNREIVIIDTPDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIFGEDAMGHTIVLFTHK  148 (260)
T ss_dssp             TTEEEEEEECCGGGGSSCCCHHHHHHHHHHHHHHTTCCSEEEEEEETTCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECG
T ss_pred             CCCEEEEEECcCCCCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCchhhccEEEEEEcc
Confidence            4678999999994100 00             022457999999999862211100        11112457888888 9


Q ss_pred             CCCCCcccccHHH---------HHHHHHhhCC----CCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          129 TDLASAIGADLAV---------MERDALRMRD----GGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       129 ~Dl~~~~~~~~~~---------~~~~l~~~~p----~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      +|+.+.   ....         +.+.++....    +.+ +++||++|.|++++++++.+.++..
T Consensus       149 ~Dl~~~---~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~-~~~SA~~~~gv~~l~~~i~~~~~~~  209 (260)
T 2xtp_A          149 EDLNGG---SLMDYMHDSDNKALSKLVAACGGRICAFNN-RAEGSNQDDQVKELMDCIEDLLMEK  209 (260)
T ss_dssp             GGGTTC---CHHHHHHHCCCHHHHHHHHHTTTCEEECCT-TCCHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             cccCCc---cHHHHHHhcchHHHHHHHHHhCCeEEEecC-cccccccHHHHHHHHHHHHHHHHhC
Confidence            999854   2222         2223333321    333 7899999999999999999888763

>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=98.15  E-value=1.2e-07  Score=82.60  Aligned_cols=100  Identities=14%  Similarity=0.263  Sum_probs=63.1

Q ss_pred             CCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCcccccHHHHHHH
Q 029893           73 KADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASAIGADLAVMERD  145 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~  145 (186)
                      +..+.|++|+|-. ...  ......+|.+++|+|+.++...+..    +......+.++++||+|+.+.....   +...
T Consensus        50 ~~~i~~iDTPGhe~f~~~~~~~~~~aD~aILVVda~~g~~~qT~e~l~~~~~~~vPiIVviNKiDl~~~~~~~---v~~~  126 (501)
T 1zo1_I           50 NGMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQTIEAIQHAKAAQVPVVVAVNKIDKPEADPDR---VKNE  126 (501)
T ss_dssp             SSCCCEECCCTTTCCTTSBCSSSBSCSSEEEEEETTTBSCTTTHHHHHHHHHTTCCEEEEEECSSSSTTCCCC---TTCC
T ss_pred             CEEEEEEECCCcHHHHHHHHHHHhhCCEEEEEeecccCccHHHHHHHHHHHhcCceEEEEEEeccccccCHHH---HHHH
Confidence            4568899999931 000  0112347999999999886433211    1112345789999999997531111   1111


Q ss_pred             HH-------hhCCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          146 AL-------RMRDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       146 l~-------~~~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      +.       .+....+++++||++|.|+++|++++..
T Consensus       127 l~~~~~~~~~~~~~~~~v~vSAktG~gI~eLle~I~~  163 (501)
T 1zo1_I          127 LSQYGILPEEWGGESQFVHVSAKAGTGIDELLDAILL  163 (501)
T ss_dssp             CCCCCCCTTCCSSSCEEEECCTTTCTTCTTHHHHTTT
T ss_pred             HHHhhhhHHHhCCCccEEEEeeeeccCcchhhhhhhh
Confidence            11       1112368999999999999999999864

>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=98.12  E-value=3.1e-06  Score=70.84  Aligned_cols=105  Identities=16%  Similarity=0.139  Sum_probs=66.8

Q ss_pred             CCcEEEEecCCC-e-eE----Eee-----eeecCceEEEEEeCCCCC--CCc-----cC---CCCCCCceeEEEEecCCC
Q 029893           73 KADLLLCESGGD-N-LA----ANF-----SRELADYIIYIIDVSGGD--KIP-----RK---GGPGITQADLLVINKTDL  131 (186)
Q Consensus        73 ~~D~iiIEtsG~-~-l~----~~~-----~~~~ad~~v~VvDa~~~~--~~~-----~~---~~~~~~~adiivlNK~Dl  131 (186)
                      +..+.+++|+|. . +.    ..+     .+..+|++++|+|+++..  ...     ..   .......+.++|.||+|+
T Consensus       225 g~~v~l~DT~G~i~~lp~~lve~f~~tl~~~~~aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl  304 (364)
T 2qtf_A          225 NRKIMLVDTVGFIRGIPPQIVDAFFVTLSEAKYSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDK  304 (364)
T ss_dssp             TEEEEEEECCCBCSSCCGGGHHHHHHHHHGGGGSSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGG
T ss_pred             CEEEEEEeCCCchhcCCHHHHHHHHHHHHHHHhCCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCC
Confidence            456789999993 1 00    001     123579999999998754  110     00   001124578999999999


Q ss_pred             CCcccccHH---HHHHHHHhh-CCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          132 ASAIGADLA---VMERDALRM-RDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       132 ~~~~~~~~~---~~~~~l~~~-~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      .+.  ....   .+....+.. .+..+++++||++|.|+++++++|.+.+..
T Consensus       305 ~~~--~~~~~~~~~~~l~~~l~~~~~~~~~~SA~~g~gi~~L~~~I~~~l~~  354 (364)
T 2qtf_A          305 ING--DLYKKLDLVEKLSKELYSPIFDVIPISALKRTNLELLRDKIYQLATQ  354 (364)
T ss_dssp             CCS--CHHHHHHHHHHHHHHHCSCEEEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             CCc--hHHHHHHHHHHHHHHhcCCCCcEEEEECCCCcCHHHHHHHHHHHhcc
Confidence            875  2111   121122444 344578999999999999999999887654

>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=98.11  E-value=1.3e-06  Score=82.42  Aligned_cols=106  Identities=11%  Similarity=0.106  Sum_probs=67.6

Q ss_pred             cCCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCccC-C---CCCCCce-eEEEEecCCCCCcccccH----
Q 029893           72 FKADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPRK-G---GPGITQA-DLLVINKTDLASAIGADL----  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~~-~---~~~~~~a-diivlNK~Dl~~~~~~~~----  139 (186)
                      .+..+.|++|+|-. ...  ...+..+|.+|+|+|++++...+.. +   ......+ .++++||+|+.+.. ...    
T Consensus       357 ~~~kI~IIDTPGHedF~~~mi~gas~AD~aILVVDAtdGv~~QTrEhL~ll~~lgIP~IIVVINKiDLv~d~-e~le~i~  435 (1289)
T 3avx_A          357 PTRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNKCDMVDDE-ELLELVE  435 (1289)
T ss_dssp             SSCEEEEEECCCHHHHHHHHHHTSCCCSEEEEEEETTTCSCTTHHHHHHHHHHHTCSCEEEEEECCTTCCCH-HHHHHHH
T ss_pred             CCEEEEEEECCChHHHHHHHHHHHhhCCEEEEEEcCCccCcHHHHHHHHHHHHcCCCeEEEEEeecccccch-hhHHHHH
Confidence            45788999999921 000  0112357999999999987543211 1   1123446 47899999998641 222    


Q ss_pred             HHHHHHHHhhC---CCCCEEEEeccCC--------CCHHHHHHHHHHHHH
Q 029893          140 AVMERDALRMR---DGGPFIFAQVKHG--------LGVEEIVNHILQAWE  178 (186)
Q Consensus       140 ~~~~~~l~~~~---p~a~i~~~Sa~~g--------~gi~~l~~~i~~~~~  178 (186)
                      +++.+.+++..   ...+++++||++|        .|+++|++.+.++++
T Consensus       436 eEi~elLk~~G~~~~~vp~IpvSAktG~ng~~~w~eGI~eLleaL~~~Ip  485 (1289)
T 3avx_A          436 MEVRELLSQYDFPGDDTPIVRGSALKALEGDAEWEAKILELAGFLDSYIP  485 (1289)
T ss_dssp             HHHHHHHHHTTSCTTTCCEEECCSTTTTTCCHHHHHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHhccccccceeEEEEEeccCCCCCccccccchhhHhHHhhhcC
Confidence            23333444433   2479999999999        578999998887655

>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=98.11  E-value=3.4e-07  Score=83.26  Aligned_cols=100  Identities=16%  Similarity=0.051  Sum_probs=65.9

Q ss_pred             CCcEEEEecCCCeeEE----e-------------eeeecCceEEEEEeCCCCCCCccC-----CCCCCCceeEEEEecCC
Q 029893           73 KADLLLCESGGDNLAA----N-------------FSRELADYIIYIIDVSGGDKIPRK-----GGPGITQADLLVINKTD  130 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~----~-------------~~~~~ad~~v~VvDa~~~~~~~~~-----~~~~~~~adiivlNK~D  130 (186)
                      .++++||+|+|+.-..    |             +....+|++++|+|+..+......     .......+.++|+||+|
T Consensus       149 ~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~ll~~L~~~g~pvIlVlNKiD  228 (772)
T 3zvr_A          149 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDPQGQRTIGVITKLD  228 (772)
T ss_dssp             CCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHHHHHHHCTTCSSEEEEEECTT
T ss_pred             CCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHHHHHHHHhcCCCEEEEEeCcc
Confidence            4679999999953211    1             111246899999999876432221     11223568999999999


Q ss_pred             CCCcccccHHHHHHHHHhh----CCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          131 LASAIGADLAVMERDALRM----RDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       131 l~~~~~~~~~~~~~~l~~~----~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      ++++. .....+..  .+.    .++.+++++||++|.|+++|++.+.+
T Consensus       229 lv~~~-~~~~~il~--~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~  274 (772)
T 3zvr_A          229 LMDEG-TDARDVLE--NKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  274 (772)
T ss_dssp             SSCTT-CCSHHHHT--TCSSCCSSCEEECCCCCCEESSSSEEHHHHHHH
T ss_pred             cCCcc-hhhHHHHH--HHhhhhhccCCceEEecccccccchhHHHHHHH
Confidence            99762 12122211  111    24568999999999999999999886

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=98.10  E-value=1.2e-07  Score=80.94  Aligned_cols=100  Identities=13%  Similarity=0.070  Sum_probs=65.5

Q ss_pred             cEEEEecCCCeeEE---ee-------eeecCceEEEEEeCCCCCCCccCC---CCCCCceeEEEEecCCCCCcccccHHH
Q 029893           75 DLLLCESGGDNLAA---NF-------SRELADYIIYIIDVSGGDKIPRKG---GPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        75 D~iiIEtsG~~l~~---~~-------~~~~ad~~v~VvDa~~~~~~~~~~---~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.|++|+|..--.   ..       .+..+|.+++|+|+.. ......+   ......+.++|+||+|+.++  ... +
T Consensus        84 ~l~liDTpG~~d~~~l~~~~~~~~~~~l~~aD~vllVvD~~~-~~~~~~~l~~l~~~~~piIvV~NK~Dl~~~--~~~-~  159 (423)
T 3qq5_A           84 PVTLVDTPGLDDVGELGRLRVEKARRVFYRADCGILVTDSAP-TPYEDDVVNLFKEMEIPFVVVVNKIDVLGE--KAE-E  159 (423)
T ss_dssp             EEEEEECSSTTCCCTTCCCCHHHHHHHHTSCSEEEEECSSSC-CHHHHHHHHHHHHTTCCEEEECCCCTTTTC--CCT-H
T ss_pred             eEEEEECcCCCcccchhHHHHHHHHHHHhcCCEEEEEEeCCC-hHHHHHHHHHHHhcCCCEEEEEeCcCCCCc--cHH-H
Confidence            78999999941100   00       1234799999999822 1111111   11235688999999999876  332 2


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ..+.+.+.. ..+++++||++|.|++++++++.+.++.
T Consensus       160 ~~~~l~~~~-g~~v~~vSAktg~gI~eL~~~L~~~l~~  196 (423)
T 3qq5_A          160 LKGLYESRY-EAKVLLVSALQKKGFDDIGKTISEILPG  196 (423)
T ss_dssp             HHHHSSCCT-TCCCCCCSSCCTTSTTTHHHHHHHHSCC
T ss_pred             HHHHHHHHc-CCCEEEEECCCCCCHHHHHHHHHHhhhh
Confidence            223333222 3699999999999999999999988743

>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=98.08  E-value=1.8e-06  Score=77.86  Aligned_cols=63  Identities=17%  Similarity=0.161  Sum_probs=41.7

Q ss_pred             cCCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCc
Q 029893           72 FKADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~  134 (186)
                      .+..+.|++|+|.. ...  ...+..+|.+++|+|++++......    .......+.++|+||+|+...
T Consensus        75 ~~~~i~liDTPG~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~~~~~~~p~ivviNKiD~~~~  144 (691)
T 1dar_A           75 KDHRINIIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDKTGA  144 (691)
T ss_dssp             TTEEEEEECCCSSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEEEEEECTTSTTC
T ss_pred             CCeEEEEEECcCccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHHHHHcCCCEEEEEECCCcccC
Confidence            36789999999931 000  0122357999999999987643211    112235688999999999864

>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=98.07  E-value=5.6e-06  Score=74.89  Aligned_cols=62  Identities=15%  Similarity=0.166  Sum_probs=40.6

Q ss_pred             CCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCc
Q 029893           73 KADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~  134 (186)
                      .+++.||+|+|-. ...  ...+..+|.+|+|+|++++...+..    .......+.++++||+|+...
T Consensus        81 ~~~i~liDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~~~~~~ip~ilviNKiD~~~~  149 (704)
T 2rdo_7           81 PHRINIIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWRQANKYKVPRIAFVNKMDRMGA  149 (704)
T ss_pred             ceeEEEEeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHHHHHHcCCCEEEEEeCCCcccc
Confidence            4889999999921 000  0122357999999999987543211    111234578999999999764

>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=98.05  E-value=9.5e-07  Score=75.50  Aligned_cols=97  Identities=12%  Similarity=0.096  Sum_probs=58.3

Q ss_pred             cCCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCC-------CCCcc-CC---CCCCCc-eeEEEEecCCCCCcc-
Q 029893           72 FKADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGG-------DKIPR-KG---GPGITQ-ADLLVINKTDLASAI-  135 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~-------~~~~~-~~---~~~~~~-adiivlNK~Dl~~~~-  135 (186)
                      .+..+.|++|+|.. ...  ...+..+|.+++|+|+.++       ...+. .+   ...+.. +.++++||+|+.+.. 
T Consensus        82 ~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~~~  161 (435)
T 1jny_A           82 KKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPPY  161 (435)
T ss_dssp             SSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSSTT
T ss_pred             CCeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCCCccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCCCccc
Confidence            46789999999931 000  0123457999999999885       11110 00   111233 367899999998731 


Q ss_pred             -cccHH----HHHHHHHhhC--C-CCCEEEEeccCCCCHHH
Q 029893          136 -GADLA----VMERDALRMR--D-GGPFIFAQVKHGLGVEE  168 (186)
Q Consensus       136 -~~~~~----~~~~~l~~~~--p-~a~i~~~Sa~~g~gi~~  168 (186)
                       ....+    ++.+.++...  + ..+++++||++|.|+.+
T Consensus       162 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e  202 (435)
T 1jny_A          162 DEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITH  202 (435)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTB
T ss_pred             cHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecccCccccc
Confidence             12222    3333343332  2 36899999999999973

>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=98.01  E-value=2.4e-06  Score=73.67  Aligned_cols=98  Identities=17%  Similarity=0.138  Sum_probs=57.7

Q ss_pred             CCcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCC-------Ccc-C---CCCCCCce-eEEEEecCCCCCcc--
Q 029893           73 KADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDK-------IPR-K---GGPGITQA-DLLVINKTDLASAI--  135 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~-------~~~-~---~~~~~~~a-diivlNK~Dl~~~~--  135 (186)
                      +..+.|++|+|-. ....  ..+..+|.+++|+|+.++..       .+. .   .......+ .++++||+|+.+..  
T Consensus       120 ~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~~~~~  199 (467)
T 1r5b_A          120 HRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPSVQWS  199 (467)
T ss_dssp             SEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTTCSSC
T ss_pred             CeEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccCCCcccc
Confidence            5678999999921 0011  11234799999999998731       010 0   01123445 68899999996421  


Q ss_pred             cccHH----HHHHHHHhh-C-C---CCCEEEEeccCCCCHHHHH
Q 029893          136 GADLA----VMERDALRM-R-D---GGPFIFAQVKHGLGVEEIV  170 (186)
Q Consensus       136 ~~~~~----~~~~~l~~~-~-p---~a~i~~~Sa~~g~gi~~l~  170 (186)
                      .+..+    ++.+.++.. . .   ..+++++||++|.|+.+++
T Consensus       200 ~~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          200 EERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCccCCceEEeccccccccccccc
Confidence            01222    334444443 1 1   4689999999999998643

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=97.99  E-value=2.3e-07  Score=69.11  Aligned_cols=104  Identities=19%  Similarity=0.187  Sum_probs=65.5

Q ss_pred             CCcEEEEecCCCeeEEe---------eee--ecCceEEEEEeCCCCCCCcc--CCCCCCCceeEEEEecCCCCCccc--c
Q 029893           73 KADLLLCESGGDNLAAN---------FSR--ELADYIIYIIDVSGGDKIPR--KGGPGITQADLLVINKTDLASAIG--A  137 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~---------~~~--~~ad~~v~VvDa~~~~~~~~--~~~~~~~~adiivlNK~Dl~~~~~--~  137 (186)
                      +..+.+++|+|..--.+         ..+  ..+|++++|+|+++......  ........+.++|+||+|+.+...  .
T Consensus        53 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~  132 (188)
T 2wjg_A           53 GEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATALERNLYLTLQLMEMGANLLLALNKMDLAKSLGIEI  132 (188)
T ss_dssp             TEEEEEEECCCCSCCSSSSHHHHHHHHHHHHHCCSEEEEEEEGGGHHHHHHHHHHHHTTTCCEEEEEECHHHHHHTTCCC
T ss_pred             CcEEEEEECCCcCccccccHHHHHHHHHHhccCCCEEEEEecchhHHHHHHHHHHHHhcCCCEEEEEEhhhccccccchH
Confidence            56788999999321000         011  13789999999876322110  000113457899999999865311  1


Q ss_pred             cHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          138 DLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       138 ~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      ..+.+.   +..+  .+++++||++|.|++++++++.+.++...
T Consensus       133 ~~~~~~---~~~~--~~~~~~Sa~~~~~v~~l~~~i~~~~~~~~  171 (188)
T 2wjg_A          133 DVDKLE---KILG--VKVVPLSAAKKMGIEELKKAISIAVKDKK  171 (188)
T ss_dssp             CHHHHH---HHHT--SCEEECBGGGTBSHHHHHHHHHHHHTTC-
T ss_pred             HHHHHH---HHhC--CCeEEEEecCCCCHHHHHHHHHHHHHhcc
Confidence            222222   2332  58999999999999999999998876543

>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=97.99  E-value=3.3e-07  Score=78.96  Aligned_cols=97  Identities=15%  Similarity=0.071  Sum_probs=58.0

Q ss_pred             cCCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCC-------cc-C---CCCCCCce-eEEEEecCCCCCccc
Q 029893           72 FKADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKI-------PR-K---GGPGITQA-DLLVINKTDLASAIG  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~-------~~-~---~~~~~~~a-diivlNK~Dl~~~~~  136 (186)
                      .+..+.|++|+|-. ...  ...+..+|++++|+|+.++...       +. .   .......+ .++++||+|+.+...
T Consensus        83 ~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~~~v~~iivviNK~Dl~~~~~  162 (458)
T 1f60_A           83 PKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNKMDSVKWDE  162 (458)
T ss_dssp             SSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTTCCEEEEEEECGGGGTTCH
T ss_pred             CCceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHHcCCCeEEEEEEccccccCCH
Confidence            35679999999921 000  0123457999999999875210       10 0   11123344 678999999984211


Q ss_pred             ccHHHH----HHHHHhhCC---CCCEEEEeccCCCCHHH
Q 029893          137 ADLAVM----ERDALRMRD---GGPFIFAQVKHGLGVEE  168 (186)
Q Consensus       137 ~~~~~~----~~~l~~~~p---~a~i~~~Sa~~g~gi~~  168 (186)
                      ...+..    .+.++...-   ..+++++||++|.|+.+
T Consensus       163 ~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~  201 (458)
T 1f60_A          163 SRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  201 (458)
T ss_dssp             HHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             HHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCccc
Confidence            223333    333333321   37999999999999974

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=97.97  E-value=3.5e-06  Score=76.03  Aligned_cols=63  Identities=14%  Similarity=0.173  Sum_probs=41.4

Q ss_pred             cCCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCc
Q 029893           72 FKADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~  134 (186)
                      .+..+.|++|+|.. ...  ...+..+|.+++|+|++++......    .......+.++|+||+|+.+.
T Consensus        73 ~~~~i~liDTPG~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~~~~~~~p~ilviNK~Dl~~~  142 (693)
T 2xex_A           73 EGHRVNIIDTPGHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQATTYGVPRIVFVNKMDKLGA  142 (693)
T ss_dssp             TTEEEEEECCCCCSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHHHTTCCEEEEEECTTSTTC
T ss_pred             CCeeEEEEECcCCcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHHHHHcCCCEEEEEECCCcccc
Confidence            36789999999931 000  0122357999999999887542211    111235688999999999865

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=97.97  E-value=2e-06  Score=68.80  Aligned_cols=82  Identities=15%  Similarity=0.109  Sum_probs=44.2

Q ss_pred             CceEEEEEeCCC-CCCCcc----CCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhh--CCCCCEEEEeccCCCCHH
Q 029893           95 ADYIIYIIDVSG-GDKIPR----KGGPGITQADLLVINKTDLASAIGADLAVMERDALRM--RDGGPFIFAQVKHGLGVE  167 (186)
Q Consensus        95 ad~~v~VvDa~~-~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~--~p~a~i~~~Sa~~g~gi~  167 (186)
                      +|.++++++.+. +.....    ..... ..+.++|+||+|+.+.  .+.....+.+++.  ....+++++||++++|++
T Consensus       116 ~~~~l~~i~~~~~~~~~~d~~~l~~l~~-~~pvi~V~nK~D~~~~--~e~~~~~~~i~~~l~~~~i~v~~~sa~~~~~~~  192 (274)
T 3t5d_A          116 VQCCLYFIAPSGHGLKPLDIEFMKRLHE-KVNIIPLIAKADTLTP--EECQQFKKQIMKEIQEHKIKIYEFPETDDEEEN  192 (274)
T ss_dssp             CCEEEEEECSCCSSCCHHHHHHHHHHTT-TSCEEEEESSGGGSCH--HHHHHHHHHHHHHHHHTTCCCCCC---------
T ss_pred             eeEEEEEecCCCCCCCHHHHHHHHHHhc-cCCEEEEEeccCCCCH--HHHHHHHHHHHHHHHHcCCeEEcCCCCCChhHH
Confidence            467888887654 322111    11111 5689999999999876  5555444444322  134688999999999999


Q ss_pred             HHHHHHHHHHHH
Q 029893          168 EIVNHILQAWEA  179 (186)
Q Consensus       168 ~l~~~i~~~~~~  179 (186)
                      ++++++.+.+|.
T Consensus       193 ~l~~~l~~~~p~  204 (274)
T 3t5d_A          193 KLVKKIKDRLPL  204 (274)
T ss_dssp             --CHHHHHTCSE
T ss_pred             HHHHHHhcCCCc
Confidence            999999887654

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=97.94  E-value=8.4e-07  Score=77.33  Aligned_cols=160  Identities=14%  Similarity=0.181  Sum_probs=88.4

Q ss_pred             HHHHHHHhc-CCcEEEEEcccC-Cc-hhHH--HHHhcCCCCcCceEeccCCCcccCCcccccccCc-chhHhhhhhcCCc
Q 029893            2 LALCKFLRD-KYSLAAVTNDIF-TK-EDGE--FLMRNGALPEERIRAVETGGCPHAAIREDISINL-GPLEELSNLFKAD   75 (186)
Q Consensus         2 ~~~~~~l~~-~~~vaVi~nd~g-~~-iD~~--~i~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~-~~l~~l~~~~~~D   75 (186)
                      .+|+.++.. ++|++++-.|.. .. +|..  .-.+.++    .+....++.        |....+ +++..+ ...++|
T Consensus       119 ~kLA~~l~~~G~kVllVd~D~~r~aa~~qL~~~~~~~~i----~v~~~~~~~--------dp~~i~~~al~~~-~~~~~D  185 (504)
T 2j37_W          119 SKLAYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARI----PFYGSYTEM--------DPVIIASEGVEKF-KNENFE  185 (504)
T ss_dssp             HHHHHHHHHTTCCEEEEEECCSSSHHHHHHHHHHHHHTC----CEEECCCCS--------CHHHHHHHHHHHH-HHTTCC
T ss_pred             HHHHHHHHhCCCeEEEEeccccchhHHHHHHHHhhccCc----eEEccCCCC--------CHHHHHHHHHHHH-HHCCCc
Confidence            355666665 489999999986 32 2311  1122233    233321211        111111 334433 246899


Q ss_pred             EEEEecCCCeeE-Eee--------eeecCceEEEEEeCCCCCCCccCCCCCCC--ce-eEEEEecCCCCCcccccHHHHH
Q 029893           76 LLLCESGGDNLA-ANF--------SRELADYIIYIIDVSGGDKIPRKGGPGIT--QA-DLLVINKTDLASAIGADLAVME  143 (186)
Q Consensus        76 ~iiIEtsG~~l~-~~~--------~~~~ad~~v~VvDa~~~~~~~~~~~~~~~--~a-diivlNK~Dl~~~~~~~~~~~~  143 (186)
                      ++||+|+|..-. ..+        ....+|.+++|+|+..+.... .....+.  .+ ..+|+||+|........+. +.
T Consensus       186 vvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~-~~a~~~~~~~~i~gvVlNK~D~~~~~g~~l~-~~  263 (504)
T 2j37_W          186 IIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACE-AQAKAFKDKVDVASVIVTKLDGHAKGGGALS-AV  263 (504)
T ss_dssp             EEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHH-HHHHHHHHHHCCCCEEEECTTSCCCCTHHHH-HH
T ss_pred             EEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHH-HHHHHHHhhcCceEEEEeCCccccchHHHHH-HH
Confidence            999999994210 011        011358899999998874311 1111121  34 5899999998754211111 22


Q ss_pred             HHH-------------HhhCCCCCEEEEeccCCCC-HHHHHHHHHHH
Q 029893          144 RDA-------------LRMRDGGPFIFAQVKHGLG-VEEIVNHILQA  176 (186)
Q Consensus       144 ~~l-------------~~~~p~a~i~~~Sa~~g~g-i~~l~~~i~~~  176 (186)
                      ...             ..+.++.|++++|+++|.| +++|++++.+.
T Consensus       264 ~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          264 AATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             HHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             HHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence            111             1123455667789999999 99999999876

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=97.93  E-value=4.1e-06  Score=73.72  Aligned_cols=61  Identities=16%  Similarity=0.166  Sum_probs=42.3

Q ss_pred             hcCCcEEEEecCCCeeEEee------eeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCc
Q 029893           71 LFKADLLLCESGGDNLAANF------SRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l~~~~------~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~  134 (186)
                      ..+..+=||+|+| ..  -|      ....+|.+|+|+|+.+|-+.+..    .......+-++++||+|....
T Consensus        97 ~~~~~iNlIDTPG-Hv--DF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~~~a~~~~lp~i~fINK~Dr~~a  167 (548)
T 3vqt_A           97 YRDRVVNLLDTPG-HQ--DFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLMDVCRMRATPVMTFVNKMDREAL  167 (548)
T ss_dssp             ETTEEEEEECCCC-GG--GCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHHHHHHHTTCCEEEEEECTTSCCC
T ss_pred             ECCEEEEEEeCCC-cH--HHHHHHHHHHHhcCceEEEeecCCCcccccHHHHHHHHHhCCceEEEEecccchhc
Confidence            3467788999999 22  22      12346999999999998764321    122345588999999998764

>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=97.93  E-value=1.2e-05  Score=70.46  Aligned_cols=63  Identities=16%  Similarity=0.104  Sum_probs=41.8

Q ss_pred             cCCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCc
Q 029893           72 FKADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~  134 (186)
                      .+..+.|++|+|.. ...  ...+..+|.+|+|+|++.+.....    ........+.++++||+|+.+.
T Consensus        80 ~~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~t~~~~~~~~~~~ipiivviNK~Dl~~~  149 (529)
T 2h5e_A           80 HDCLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRTRKLMEVTRLRDTPILTFMNKLDRDIR  149 (529)
T ss_dssp             TTEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHHHTTTTCCEEEEEECTTSCCS
T ss_pred             CCeEEEEEECCCChhHHHHHHHHHHHCCEEEEEEeCCccchHHHHHHHHHHHHcCCCEEEEEcCcCCccc
Confidence            46789999999931 110  012345799999999998754221    1122345678999999999765

>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=97.89  E-value=3.9e-06  Score=72.02  Aligned_cols=102  Identities=20%  Similarity=0.265  Sum_probs=61.6

Q ss_pred             cCCcEEEEecCCCeeE-Ee----------eeeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCccc
Q 029893           72 FKADLLLCESGGDNLA-AN----------FSRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIG  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~-~~----------~~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~  136 (186)
                      .+..+.+++|.|+... ..          ..++.+|++++|+|+..+.....    .+......+.++|+||+|+.+.  
T Consensus        69 ~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~VvD~~~~~~~~d~~l~~~l~~~~~pvilV~NK~D~~~~--  146 (456)
T 4dcu_A           69 LNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAADEEVAKILYRTKKPVVLAVNKLDNTEM--  146 (456)
T ss_dssp             CSSCCEEECCCC------CCHHHHHHHHHHHHHHCSEEEEEEESSSCSCHHHHHHHHHHTTCCSCEEEEEECC-------
T ss_pred             CCceEEEEECCCCCCcchHHHHHHHHHHHhhHhhCCEEEEEEeCCCCCChHHHHHHHHHHHcCCCEEEEEECccchhh--
Confidence            4678999999994311 00          12235799999999987643221    1122345689999999998754  


Q ss_pred             ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          137 ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       137 ~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      .  ....+.. +. ...+.+++||++|.|+.++++.+.+.++.
T Consensus       147 ~--~~~~e~~-~l-g~~~~~~iSA~~g~gv~~L~~~i~~~l~~  185 (456)
T 4dcu_A          147 R--ANIYDFY-SL-GFGEPYPISGTHGLGLGDLLDAVAEHFKN  185 (456)
T ss_dssp             ------CCSG-GG-SSSSEEECCTTTCTTHHHHHHHHHTTGGG
T ss_pred             h--hhHHHHH-Hc-CCCceEEeecccccchHHHHHHHHhhccc
Confidence            1  1111111 11 23467899999999999999999877653

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=97.87  E-value=4.9e-06  Score=73.26  Aligned_cols=111  Identities=15%  Similarity=0.175  Sum_probs=60.1

Q ss_pred             EEEEEcccC-CchhHHHHHhcCCCCcCceEecc-------CCC-cccCCcccccccCcchhHhhhhhcCCcEEEEecCCC
Q 029893           14 LAAVTNDIF-TKEDGEFLMRNGALPEERIRAVE-------TGG-CPHAAIREDISINLGPLEELSNLFKADLLLCESGGD   84 (186)
Q Consensus        14 vaVi~nd~g-~~iD~~~i~~~~~~~~~~~~~l~-------~Gc-cc~l~~r~d~~~~~~~l~~l~~~~~~D~iiIEtsG~   84 (186)
                      .+|+.|+++ +..|..++...+.    .+.+|+       +|| ||++  +++          +.    ..++||+|+|.
T Consensus       105 ~~i~~~~~~~i~~g~~l~~~~~~----~~~~L~~~g~~~~~~~~~~~~--~~~----------ll----~~l~lIDTPG~  164 (550)
T 2qpt_A          105 VAVMHGETEGTVPGNALVVDPEK----PFRKLNPFGNTFLNRFMCAQL--PNQ----------VL----ESISIIDTPGI  164 (550)
T ss_dssp             EEEECCSSSEEECCC----------------------CCCTTEEEEEC--CCH----------HH----HHCEEEECCCB
T ss_pred             EEEEECCcccccCCceeeecCcc----cHHHHhhhcccccccceEEec--ccc----------cc----CCEEEEECcCC
Confidence            577777777 5566555432211    233333       788 8875  211          11    14789999994


Q ss_pred             ee------EEe--e------eeecCceEEEEEeCCCCCCCc-----cCCCCCCCceeEEEEecCCCCCcccccHHHHHHH
Q 029893           85 NL------AAN--F------SRELADYIIYIIDVSGGDKIP-----RKGGPGITQADLLVINKTDLASAIGADLAVMERD  145 (186)
Q Consensus        85 ~l------~~~--~------~~~~ad~~v~VvDa~~~~~~~-----~~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~  145 (186)
                      .-      ...  +      ....+|.+++|+|+.+.....     .....+...+.++|+||+|+++.  .++.++...
T Consensus       165 ~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~~~~pvilVlNK~Dl~~~--~el~~~~~~  242 (550)
T 2qpt_A          165 LSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRGHEDKIRVVLNKADMVET--QQLMRVYGA  242 (550)
T ss_dssp             CC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTTCGGGEEEEEECGGGSCH--HHHHHHHHH
T ss_pred             CCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHhcCCCEEEEEECCCccCH--HHHHHHHHH
Confidence            21      000  1      122469999999997732111     11123345689999999999976  566655555


Q ss_pred             H
Q 029893          146 A  146 (186)
Q Consensus       146 l  146 (186)
                      +
T Consensus       243 l  243 (550)
T 2qpt_A          243 L  243 (550)
T ss_dssp             H
T ss_pred             h
Confidence            4

>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=97.83  E-value=1.3e-06  Score=72.55  Aligned_cols=102  Identities=14%  Similarity=-0.031  Sum_probs=62.0

Q ss_pred             CCcEEEEecCCCeeEE----e------e------ee-ecCceEEEEEeCCCCCCCccC--C---CCCCCceeEEEEecCC
Q 029893           73 KADLLLCESGGDNLAA----N------F------SR-ELADYIIYIIDVSGGDKIPRK--G---GPGITQADLLVINKTD  130 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~----~------~------~~-~~ad~~v~VvDa~~~~~~~~~--~---~~~~~~adiivlNK~D  130 (186)
                      .++++|++|+|+.-..    +      +      .+ ...+++++|+|+.........  .   ......+.++|+||+|
T Consensus       129 ~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~~~i~~~~~~~~~~~i~V~NK~D  208 (353)
T 2x2e_A          129 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKVAKEVDPQGQRTIGVITKLD  208 (353)
T ss_dssp             CCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCHHHHHHHHHCTTCTTEEEEEECGG
T ss_pred             CCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhHHHHHHHHhCcCCCceEEEecccc
Confidence            4789999999942100    1      0      11 123677888888654322110  1   1112457899999999


Q ss_pred             CCCcccccHHHHHHHHHh-hC----CCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          131 LASAIGADLAVMERDALR-MR----DGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       131 l~~~~~~~~~~~~~~l~~-~~----p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      +.++. .....   .++. ..    ++.+++++||++|.|++++++++.+..+
T Consensus       209 l~~~~-~~~~~---~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~e~~  257 (353)
T 2x2e_A          209 LMDEG-TDARD---VLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAERK  257 (353)
T ss_dssp             GSCTT-CCCHH---HHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHHHHH
T ss_pred             ccCcc-hhHHH---HHhCCcccccCCceEEEeCCcccccccccHHHHHHHHHH
Confidence            98652 11121   2221 12    2457889999999999999999887443

>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=97.74  E-value=3e-05  Score=60.35  Aligned_cols=84  Identities=11%  Similarity=0.035  Sum_probs=55.2

Q ss_pred             eecCceEEEEEeCCCCCCCcc--------C-C-CC-C-CCceeEEEEecC-CCCCcccccHHHHHHHH--HhhCCCCCEE
Q 029893           92 RELADYIIYIIDVSGGDKIPR--------K-G-GP-G-ITQADLLVINKT-DLASAIGADLAVMERDA--LRMRDGGPFI  156 (186)
Q Consensus        92 ~~~ad~~v~VvDa~~~~~~~~--------~-~-~~-~-~~~adiivlNK~-Dl~~~~~~~~~~~~~~l--~~~~p~a~i~  156 (186)
                      +...|.+|+|||+++.+....        . . .. . -..+-+|+.||. |+...  ....++.+.+  .++.....|.
T Consensus       123 y~~TdglIfVVDSsD~~R~eak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~A--ms~~EI~e~L~L~~l~R~W~Iq  200 (227)
T 3l82_B          123 CEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKR--MPCFYLAHELHLNLLNHPWLVQ  200 (227)
T ss_dssp             HHHCSEEEEEEECBTTCCCCHHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSCB--CCHHHHHHHTTGGGGCSCEEEE
T ss_pred             hcCCCEEEEEeccccHhHHHHHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccCC--CCHHHHHHHcCCcCCCCCEEEE
Confidence            345799999999986532111        0 1 11 1 234667777996 78655  3444555443  2333345899


Q ss_pred             EEeccCCCCHHHHHHHHHHHH
Q 029893          157 FAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       157 ~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      .+||+||+|+.+-++|+.+.+
T Consensus       201 ~csA~TGeGL~EGLdWL~~~l  221 (227)
T 3l82_B          201 DTEAETLTGFLNGIEWILEEV  221 (227)
T ss_dssp             EEETTTCTTHHHHHHHHTTTT
T ss_pred             EeECCCCcCHHHHHHHHHHHH
Confidence            999999999999999998655

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=97.73  E-value=1.6e-05  Score=64.69  Aligned_cols=100  Identities=11%  Similarity=0.103  Sum_probs=62.2

Q ss_pred             CCcEEEEecCCCe-eE-------EeeeeecCceEEEEEeCCCCCCCcc--CC---CC-----CCCceeEEEEecCCCCCc
Q 029893           73 KADLLLCESGGDN-LA-------ANFSRELADYIIYIIDVSGGDKIPR--KG---GP-----GITQADLLVINKTDLASA  134 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~-------~~~~~~~ad~~v~VvDa~~~~~~~~--~~---~~-----~~~~adiivlNK~Dl~~~  134 (186)
                      +..+.|++|+|.. ..       ....+..+|++++|+|+++......  .+   ..     .-..+.++|+||+|+.++
T Consensus        51 ~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~~  130 (307)
T 3r7w_A           51 NMTLNLWDCGGQDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQL  130 (307)
T ss_dssp             TEEEEEEEECCSHHHHHHHHTTTHHHHHTTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCH
T ss_pred             ceEEEEEECCCcHHHhhhhhhhHHHHHhccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccch
Confidence            6788999999931 10       0011245799999999988642110  01   00     114689999999999873


Q ss_pred             ccccH--------HHHHHHHHhhC-CCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          135 IGADL--------AVMERDALRMR-DGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       135 ~~~~~--------~~~~~~l~~~~-p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                        ...        +...+..+... |..+++++||++ .|+.+.+..+.+
T Consensus       131 --~~r~~~~~v~~~~~~~~~~~~g~~~~~~~~tSa~~-~~i~e~~~~iv~  177 (307)
T 3r7w_A          131 --DKREELFQIMMKNLSETSSEFGFPNLIGFPTSIWD-ESLYKAWSQIVC  177 (307)
T ss_dssp             --HHHHHHHHHHHHHHHHHHHTTTCCSCEEEECCTTS-SHHHHHHHHHHH
T ss_pred             --hhhhHHHHHHHHHHHHHHHHcCCCCeEEEEeeecC-ChHHHHHHHHHH
Confidence              122        22222233332 247999999999 788888776543

>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=97.73  E-value=1.3e-05  Score=71.98  Aligned_cols=60  Identities=15%  Similarity=0.218  Sum_probs=38.4

Q ss_pred             CCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCC
Q 029893           73 KADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLA  132 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~  132 (186)
                      ...+.|++|.|.. ...  ...+..+|..++|+|++++......    .......+.++++||+|+.
T Consensus        73 ~~~~nliDTpG~~~f~~~~~~~l~~ad~~ilVvD~~~g~~~qt~~~~~~~~~~~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           73 GHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQVGTERAWTVAERLGLPRMVVVTKLDKG  139 (665)
T ss_dssp             TEEEEEEECCCSGGGHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEEEEEECGGGC
T ss_pred             CEEEEEEeCCCccchHHHHHHHHhhcCcEEEEEcCCcccchhHHHHHHHHHHccCCEEEEecCCchh
Confidence            5678889999921 000  0122357999999999887543211    1112346789999999997

>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=97.70  E-value=2.8e-05  Score=58.81  Aligned_cols=84  Identities=11%  Similarity=0.074  Sum_probs=56.0

Q ss_pred             cCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccccH----HHHHHHHHhhCCCCCEEEEeccCCCC
Q 029893           94 LADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGADL----AVMERDALRMRDGGPFIFAQVKHGLG  165 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~~----~~~~~~l~~~~p~a~i~~~Sa~~g~g  165 (186)
                      .++.+++++|+..+.....    .+......+.+++.||+|+.+.  .+.    ..+...+++.....+++++||+++.|
T Consensus       108 ~~~~~~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~v~nK~D~~s~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sal~~~~  185 (210)
T 1pui_A          108 SLQGLVVLMDIRHPLKDLDQQMIEWAVDSNIAVLVLLTKADKLAS--GARKAQLNMVREAVLAFNGDVQVETFSSLKKQG  185 (210)
T ss_dssp             TEEEEEEEEETTSCCCHHHHHHHHHHHHTTCCEEEEEECGGGSCH--HHHHHHHHHHHHHHGGGCSCEEEEECBTTTTBS
T ss_pred             cccEEEEEEECCCCCchhHHHHHHHHHHcCCCeEEEEecccCCCc--hhHHHHHHHHHHHHHhcCCCCceEEEeecCCCC
Confidence            3577899999987543211    1111234577889999999875  322    23333344333346789999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 029893          166 VEEIVNHILQAWEA  179 (186)
Q Consensus       166 i~~l~~~i~~~~~~  179 (186)
                      ++++++++.+..+.
T Consensus       186 ~~~l~~~l~~~~~~  199 (210)
T 1pui_A          186 VDKLRQKLDTWFSE  199 (210)
T ss_dssp             HHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999887654

>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=97.69  E-value=1.4e-05  Score=66.81  Aligned_cols=106  Identities=13%  Similarity=0.086  Sum_probs=65.4

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc-------------------CCCCCCCceeEEEEecCC
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR-------------------KGGPGITQADLLVINKTD  130 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~-------------------~~~~~~~~adiivlNK~D  130 (186)
                      +..+-+.+|.|-.--   .+..++.++.+|+|+|.++.++...                   .....-..+.++++||+|
T Consensus       200 ~~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~~piILv~NK~D  279 (362)
T 1zcb_A          200 NVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTD  279 (362)
T ss_dssp             TEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHH
T ss_pred             CeEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchhhCCCCEEEEEEChh
Confidence            567888899992100   1123456899999999998542110                   000112358899999999


Q ss_pred             CCCcc----------------cccHHHHHHHHH----hhC-----CCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          131 LASAI----------------GADLAVMERDAL----RMR-----DGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       131 l~~~~----------------~~~~~~~~~~l~----~~~-----p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      |.++.                ....++..+.++    .++     ....+++|||++|+|++++|+++.+..-
T Consensus       280 L~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF~~v~~~i~  352 (362)
T 1zcb_A          280 LLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTIL  352 (362)
T ss_dssp             HHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHH
T ss_pred             hhhhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEecCCchhHHHHHHHHHHHHH
Confidence            86321                022344444432    221     1357889999999999999999887553

>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=97.69  E-value=1.1e-05  Score=67.35  Aligned_cols=106  Identities=13%  Similarity=0.059  Sum_probs=65.9

Q ss_pred             CCcEEEEecCCCe-e--EEeeeeecCceEEEEEeCCCCCCCc---------c----------CCCCCCCceeEEEEecCC
Q 029893           73 KADLLLCESGGDN-L--AANFSRELADYIIYIIDVSGGDKIP---------R----------KGGPGITQADLLVINKTD  130 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l--~~~~~~~~ad~~v~VvDa~~~~~~~---------~----------~~~~~~~~adiivlNK~D  130 (186)
                      +..+-+.+|.|-. .  ..+..++.++.+|+|+|.++.+...         .          .....-..+.++++||+|
T Consensus       192 ~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~~~piiLv~NK~D  271 (353)
T 1cip_A          192 DLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKD  271 (353)
T ss_dssp             TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHH
T ss_pred             CeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCccccCCcEEEEEECcC
Confidence            4556777888821 0  0112345689999999998854310         0          000112358899999999


Q ss_pred             CCCcc---------------cccHHHHHHHHH----hhC-----CCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          131 LASAI---------------GADLAVMERDAL----RMR-----DGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       131 l~~~~---------------~~~~~~~~~~l~----~~~-----p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      |.++.               ....++..+.++    .++     ....+++|||++|.|++++|+++.+...
T Consensus       272 L~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~vF~~v~~~i~  343 (353)
T 1cip_A          272 LFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVII  343 (353)
T ss_dssp             HHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHH
T ss_pred             chhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHHHHHHHHHHHH
Confidence            85321               012344444444    222     2457899999999999999999887654

>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=97.62  E-value=8.9e-05  Score=55.08  Aligned_cols=108  Identities=13%  Similarity=0.122  Sum_probs=64.5

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCC-C--ccCCCC-----CCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDK-I--PRKGGP-----GITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~-~--~~~~~~-----~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ....+.+.+|+|..-   ..+..+..++++++|+|.+++.. .  ...+..     .-..+.++|.||+|+.+.  ....
T Consensus        54 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~s~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~  131 (184)
T 2zej_A           54 RDLVLNVWDFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARASSSPVILVGTHLDVSDE--KQRK  131 (184)
T ss_dssp             --CEEEEEEECSHHHHHTTSHHHHHHSEEEEEEEEGGGCHHHHHTHHHHHHHHHHHCTTCEEEEEEECGGGCCH--HHHH
T ss_pred             CceEEEEEecCCCHHHHHhhHHHccCCcEEEEEEeCCcchhHHHHHHHHHHHHHhhCCCCcEEEEEECCCcccc--hhhH
Confidence            356788899999310   01122334788899999877531 1  111100     013577888899999865  2322


Q ss_pred             H----HHHHHHhhCCCCC----EEEEeccCCC-CHHHHHHHHHHHHHHhhc
Q 029893          141 V----MERDALRMRDGGP----FIFAQVKHGL-GVEEIVNHILQAWEASTG  182 (186)
Q Consensus       141 ~----~~~~l~~~~p~a~----i~~~Sa~~g~-gi~~l~~~i~~~~~~~~~  182 (186)
                      .    ....+.+.. ..+    ++++||++|. |+++|++.+.+.++..+.
T Consensus       132 ~~~~~~~~~~~~~~-~~~~~~~~~~~Sa~~~~~~~~~l~~~i~~~~~~~~~  181 (184)
T 2zej_A          132 ACMSKITKELLNKR-GFPAIRDYHFVNATEESDALAKLRKTIINESLNFKI  181 (184)
T ss_dssp             HHHHHHHHHTTTCT-TSCEEEEEEECCTTSCCHHHHHHHHHHHHHHHCC--
T ss_pred             HHHHHHHHHHHHhc-CCcchhheEEEecccCchhHHHHHHHHHHHHhcccc
Confidence            1    112222112 233    8999999997 999999999988876553

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=97.62  E-value=5.1e-06  Score=74.34  Aligned_cols=104  Identities=18%  Similarity=0.276  Sum_probs=68.7

Q ss_pred             cCCcEEEEecCCCeeEEee------eeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCcccccHHH
Q 029893           72 FKADLLLCESGGDNLAANF------SRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~~------~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.-+=||+|+| ..  .|      ..+.+|.+|+|+|+.+|-+.+..    .......+-++++||+|.....   ...
T Consensus        65 ~~~~iNlIDTPG-H~--DF~~Ev~raL~~~DgavlVVDa~~GV~~qT~~v~~~a~~~~lp~i~~INKmDr~~a~---~~~  138 (638)
T 3j25_A           65 ENTKVNIIDTPG-HM--DFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKMGIPTIFFINKIDQNGID---LST  138 (638)
T ss_dssp             SSCBCCCEECCC-SS--STHHHHHHHHTTCSEEECCEESSCTTCSHHHHHHHHHHHHTCSCEECCEECCSSSCC---SHH
T ss_pred             CCEEEEEEECCC-cH--HHHHHHHHHHHHhCEEEEEEeCCCCCcHHHHHHHHHHHHcCCCeEEEEeccccccCC---HHH
Confidence            466677899999 22  12      12346999999999998765421    1122345779999999986541   111


Q ss_pred             HHHHHHh---------------------------------------------------------------hCCCCCEEEE
Q 029893          142 MERDALR---------------------------------------------------------------MRDGGPFIFA  158 (186)
Q Consensus       142 ~~~~l~~---------------------------------------------------------------~~p~a~i~~~  158 (186)
                      ..+.+++                                                               .....|++..
T Consensus       139 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~e~~d~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~Pv~~g  218 (638)
T 3j25_A          139 VYQDIKEKLSAEIVIKQKVELYPNVCVTNFTESEQWDTVIEGNDDLLEKYMSGKSLEALELEQEESIRFQNCSLFPLYHG  218 (638)
T ss_dssp             HHHHHHHTTCCCCCCCCCCCSCGGGCCCCCCCHHHHHHHHHHHCHHHHHHHHHCCCCSHHHHHHHHHHHHHTSCCCCCCC
T ss_pred             HHHHHHHHhCCCccccceeEeeccccccccchhhhhhhhhcccHHHHhhhccCCccchHHHHHHHhhhhccccccccccc
Confidence            1111111                                                               0123589999


Q ss_pred             eccCCCCHHHHHHHHHHHHHHhh
Q 029893          159 QVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       159 Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      ||+++.|++.|++.+..++|..+
T Consensus       219 Sa~~~~Gv~~LLd~i~~~~p~p~  241 (638)
T 3j25_A          219 SAKSNIGIDNLIEVITNKFYSST  241 (638)
T ss_dssp             CSTTCCSHHHHHHHHHHSCCCSG
T ss_pred             ccccCCCchhHhhhhhccccCcc
Confidence            99999999999999988776543

>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=97.61  E-value=1.1e-05  Score=66.02  Aligned_cols=75  Identities=15%  Similarity=0.161  Sum_probs=51.0

Q ss_pred             cCceEEEEEeCCCCCCCcc---CCC---CCCCceeEEEEecCCCCCccccc----HHHHHHHHHhhCCCCCEEEEeccCC
Q 029893           94 LADYIIYIIDVSGGDKIPR---KGG---PGITQADLLVINKTDLASAIGAD----LAVMERDALRMRDGGPFIFAQVKHG  163 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~~~---~~~---~~~~~adiivlNK~Dl~~~~~~~----~~~~~~~l~~~~p~a~i~~~Sa~~g  163 (186)
                      .+|.+++|+|+..++....   .+.   .....+.++|+||+||.++  .+    .+.+.+..++.  ..+++.+||++|
T Consensus        86 nvD~v~~V~~~~~p~~~~~~i~r~L~~~~~~~~~~vivlnK~DL~~~--~~~~~~~~~~~~~y~~~--g~~v~~~sa~~~  161 (307)
T 1t9h_A           86 NVDQAVLVFSAVQPSFSTALLDRFLVLVEANDIQPIICITKMDLIED--QDTEDTIQAYAEDYRNI--GYDVYLTSSKDQ  161 (307)
T ss_dssp             CCCEEEEEEESTTTTCCHHHHHHHHHHHHTTTCEEEEEEECGGGCCC--HHHHHHHHHHHHHHHHH--TCCEEECCHHHH
T ss_pred             hCCEEEEEEeCCCCCCCHHHHHHHHHHHHHCCCCEEEEEECCccCch--hhhHHHHHHHHHHHHhC--CCeEEEEecCCC
Confidence            4699999999987653321   111   1234578999999999976  33    34444444443  358999999999


Q ss_pred             CCHHHHHHH
Q 029893          164 LGVEEIVNH  172 (186)
Q Consensus       164 ~gi~~l~~~  172 (186)
                      .|+++|++.
T Consensus       162 ~g~~~L~~~  170 (307)
T 1t9h_A          162 DSLADIIPH  170 (307)
T ss_dssp             TTCTTTGGG
T ss_pred             CCHHHHHhh
Confidence            998887654

>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=97.51  E-value=6.9e-05  Score=58.30  Aligned_cols=105  Identities=8%  Similarity=0.064  Sum_probs=61.9

Q ss_pred             cCCcEEEEecCCCeeEE--------ee------eeecCceEEEEEeCCCCCCCccCCC--------CCCCceeEEEEecC
Q 029893           72 FKADLLLCESGGDNLAA--------NF------SRELADYIIYIIDVSGGDKIPRKGG--------PGITQADLLVINKT  129 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~--------~~------~~~~ad~~v~VvDa~~~~~~~~~~~--------~~~~~adiivlNK~  129 (186)
                      .+..+.|++|+|..-..        .+      ....+|++++|+|+.+.........        .....+.++|+||+
T Consensus        76 ~~~~i~liDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~l~~~~~~~~~~~~~~~iiv~nK~  155 (239)
T 3lxx_A           76 KETELVVVDTPGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPLGRYTEEEHKATEKILKMFGERARSFMILIFTRK  155 (239)
T ss_dssp             TTEEEEEEECCSCC-----CHHHHHHHHHHHHHTTTCCSEEEEEEETTCCSSHHHHHHHHHHHHHHHHHGGGEEEEEECG
T ss_pred             CCceEEEEECCCccCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEeeCCCCCHHHHHHHHHHHHHhhhhccceEEEEEeCC
Confidence            35678999999942100        00      1124599999999876433211110        11224789999999


Q ss_pred             CCCCcccccHH--------HHHHHHHhhCCCCCEEEEeccCC-----CCHHHHHHHHHHHHHHh
Q 029893          130 DLASAIGADLA--------VMERDALRMRDGGPFIFAQVKHG-----LGVEEIVNHILQAWEAS  180 (186)
Q Consensus       130 Dl~~~~~~~~~--------~~~~~l~~~~p~a~i~~~Sa~~g-----~gi~~l~~~i~~~~~~~  180 (186)
                      |+.+.  ..++        .+.+.+++..  .+++.++...+     .|+.+|++.+.+.+...
T Consensus       156 D~~~~--~~~~~~i~~~~~~l~~l~~~~~--~~~~~~~~~~~~~~~~~~v~~ll~~i~~~~~~~  215 (239)
T 3lxx_A          156 DDLGD--TNLHDYLREAPEDIQDLMDIFG--DRYCALNNKATGAEQEAQRAQLLGLIQRVVREN  215 (239)
T ss_dssp             GGC--------------CHHHHHHHHHHS--SSEEECCTTCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             ccCCc--ccHHHHHHhchHHHHHHHHHcC--CEEEEEECCCCccccHHHHHHHHHHHHHHHHHc
Confidence            99865  3332        3344444443  35677766643     79999999998887653

>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=97.50  E-value=7.6e-05  Score=63.96  Aligned_cols=146  Identities=14%  Similarity=0.204  Sum_probs=78.3

Q ss_pred             HHHHHHHhcC-CcEEEEEcccC-CchhHHHH---HhcCCCCcCceEeccCCCcccCCcccccccCc-chhHhhhhhcCCc
Q 029893            2 LALCKFLRDK-YSLAAVTNDIF-TKEDGEFL---MRNGALPEERIRAVETGGCPHAAIREDISINL-GPLEELSNLFKAD   75 (186)
Q Consensus         2 ~~~~~~l~~~-~~vaVi~nd~g-~~iD~~~i---~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~-~~l~~l~~~~~~D   75 (186)
                      .+|+.++... +|++++..|.. .+--.++-   ...++    ++.....+.        |..... +++..+ ...++|
T Consensus       118 ~kLA~~l~~~G~kVllv~~D~~R~aa~eqL~~~~~~~gv----pv~~~~~~~--------dp~~i~~~al~~a-~~~~~D  184 (443)
T 3dm5_A          118 AKLARYFQKRGYKVGVVCSDTWRPGAYHQLRQLLDRYHI----EVFGNPQEK--------DAIKLAKEGVDYF-KSKGVD  184 (443)
T ss_dssp             HHHHHHHHTTTCCEEEEECCCSSTHHHHHHHHHHGGGTC----EEECCTTCC--------CHHHHHHHHHHHH-HHTTCS
T ss_pred             HHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHHhcCC----cEEecCCCC--------CHHHHHHHHHHHH-HhCCCC
Confidence            3566777764 99999999987 43222221   11222    233322221        111111 333333 245799


Q ss_pred             EEEEecCCCeeEE-ee--------eeecCceEEEEEeCCCCCCCcc---CCCCCCCceeEEEEecCCCCCcccccHHHHH
Q 029893           76 LLLCESGGDNLAA-NF--------SRELADYIIYIIDVSGGDKIPR---KGGPGITQADLLVINKTDLASAIGADLAVME  143 (186)
Q Consensus        76 ~iiIEtsG~~l~~-~~--------~~~~ad~~v~VvDa~~~~~~~~---~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~  143 (186)
                      +|||||+|..-.. ..        .....|.+++|+|+..+.+...   .+.+. .....+|+||+|....  .  ..+.
T Consensus       185 vVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~~~a~~f~~~-~~i~gVIlTKlD~~~~--g--G~~l  259 (443)
T 3dm5_A          185 IIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAYNQALAFKEA-TPIGSIIVTKLDGSAK--G--GGAL  259 (443)
T ss_dssp             EEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHHHS-CTTEEEEEECCSSCSS--H--HHHH
T ss_pred             EEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHHHHHHHHHhh-CCCeEEEEECCCCccc--c--cHHH
Confidence            9999999931100 00        0112478999999987643211   11111 1246799999998755  1  1222


Q ss_pred             HHHHhhCCCCCEEEEeccCCCCHHHH
Q 029893          144 RDALRMRDGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       144 ~~l~~~~p~a~i~~~Sa~~g~gi~~l  169 (186)
                      .....  ...||.+++.  |+++++|
T Consensus       260 s~~~~--~g~PI~fig~--Ge~vddL  281 (443)
T 3dm5_A          260 SAVAA--TGAPIKFIGT--GEKIDDI  281 (443)
T ss_dssp             HHHHT--TCCCEEEEEC--SSSTTCE
T ss_pred             HHHHH--HCCCEEEEEc--CCChHHh
Confidence            22222  3568988884  8887654

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=97.49  E-value=6.3e-05  Score=62.67  Aligned_cols=106  Identities=11%  Similarity=-0.035  Sum_probs=60.9

Q ss_pred             CCcEEEEecCCCe-e--EEeeeeecCceEEEEEeCCCCCCCccC-------------------CCCCCCceeEEEEecCC
Q 029893           73 KADLLLCESGGDN-L--AANFSRELADYIIYIIDVSGGDKIPRK-------------------GGPGITQADLLVINKTD  130 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l--~~~~~~~~ad~~v~VvDa~~~~~~~~~-------------------~~~~~~~adiivlNK~D  130 (186)
                      ...+-+.+|.|-. .  ..+..++.++.+|+|+|.++.++....                   ....-..+.++|+||+|
T Consensus       182 ~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~piiLvgNK~D  261 (354)
T 2xtz_A          182 GEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKTSFMLFLNKFD  261 (354)
T ss_dssp             --EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHH
T ss_pred             ceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCCeEEEEEECcc
Confidence            3556777888821 0  011234567899999999844322100                   00012357899999999


Q ss_pred             CCCccc---------------------ccHHHHHHHHHh----h---C--C-----CCCEEEEeccCCCCHHHHHHHHHH
Q 029893          131 LASAIG---------------------ADLAVMERDALR----M---R--D-----GGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       131 l~~~~~---------------------~~~~~~~~~l~~----~---~--p-----~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      |.++..                     ...++..+.+++    +   +  |     ...+++|||++++|++++|+++.+
T Consensus       262 L~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~~~eTSA~d~~nV~~vF~~v~~  341 (354)
T 2xtz_A          262 IFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFKIYRTTALDQKLVKKTFKLVDE  341 (354)
T ss_dssp             HHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEEEEECCTTCHHHHHHHHHHHHH
T ss_pred             hhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceEEEEEEeecchhHHHHHHHHHH
Confidence            843210                     012333333332    1   1  1     124689999999999999998876


Q ss_pred             HHH
Q 029893          176 AWE  178 (186)
Q Consensus       176 ~~~  178 (186)
                      ..-
T Consensus       342 ~I~  344 (354)
T 2xtz_A          342 TLR  344 (354)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=97.48  E-value=0.00015  Score=54.28  Aligned_cols=76  Identities=17%  Similarity=0.085  Sum_probs=38.6

Q ss_pred             HHHHHHHhcC-CcEEEEEcccC-Cch------hHHHHHhcCCCCcCceEeccCCCcccCCcc-cccccCcchhHhhhhhc
Q 029893            2 LALCKFLRDK-YSLAAVTNDIF-TKE------DGEFLMRNGALPEERIRAVETGGCPHAAIR-EDISINLGPLEELSNLF   72 (186)
Q Consensus         2 ~~~~~~l~~~-~~vaVi~nd~g-~~i------D~~~i~~~~~~~~~~~~~l~~Gccc~l~~r-~d~~~~~~~l~~l~~~~   72 (186)
                      .++++.|+.+ .|+++|.+|++ ..+      |..++++.|.   +.+...+.||||.. .+ .++.  .+.+.++..+.
T Consensus        22 ~~L~~~l~~~g~~v~~ik~~~~~~diD~~~g~D~~r~~~aGa---~~v~~~s~~~~~~~-~~~~~~~--~~~~~~ll~~~   95 (169)
T 1xjc_A           22 EKWVAAAVREGWRVGTVKHHGHGGEPARPEGVDSVRHERAGA---VATAVEGDGLLQLH-LRRPLWR--LDDVLALYAPL   95 (169)
T ss_dssp             HHHHHHHHHTTCCEEEEECCC--------------------C---SEEEEEETTEEEEE-ECCSCCC--HHHHHHHHGGG
T ss_pred             HHHHHhhHhcCCeeeEEEeCCCCcccccCCChhHHHHHhcCC---CeEEeccCCEEEEE-ecccccc--hHHHHHHHHhc
Confidence            4677777654 89999999987 444      5667766554   23555556663322 11 0111  13344444333


Q ss_pred             CCcEEEEecCC
Q 029893           73 KADLLLCESGG   83 (186)
Q Consensus        73 ~~D~iiIEtsG   83 (186)
                      ++|++|||+.|
T Consensus        96 ~~D~vlVEg~~  106 (169)
T 1xjc_A           96 RLDLVLVEGYK  106 (169)
T ss_dssp             CCSEEEEECCT
T ss_pred             CCCEEEEeCCC
Confidence            89999999999

>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=97.46  E-value=0.0002  Score=60.86  Aligned_cols=102  Identities=17%  Similarity=0.275  Sum_probs=67.8

Q ss_pred             CcEEEEecCCCe--------eEEee--eeecCceEEEEEeCCCCCCCcc----------CCCC-CCCceeEEEEecCCCC
Q 029893           74 ADLLLCESGGDN--------LAANF--SRELADYIIYIIDVSGGDKIPR----------KGGP-GITQADLLVINKTDLA  132 (186)
Q Consensus        74 ~D~iiIEtsG~~--------l~~~~--~~~~ad~~v~VvDa~~~~~~~~----------~~~~-~~~~adiivlNK~Dl~  132 (186)
                      ..+.+.+++|..        +...+  ....++.++.++|++  .....          .+.. ....|.++|+||+|+.
T Consensus       205 ~~~~l~DtpGli~~a~~~~~L~~~fl~~~era~~lL~vvDls--~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~  282 (416)
T 1udx_A          205 ERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLDAA--DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLL  282 (416)
T ss_dssp             CEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEEEEEETT--SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTS
T ss_pred             ceEEEEeccccccchhhhhhhhHHHHHHHHHHHhhhEEeCCc--cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChh
Confidence            568889999931        00011  112468899999997  21111          0111 1356899999999998


Q ss_pred             CcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          133 SAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       133 ~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      +.  ..++.+.+.++..  ..+++.+||++++|+++|++++.+.+....
T Consensus       283 ~~--~~~~~l~~~l~~~--g~~vi~iSA~~g~gi~eL~~~i~~~l~~~~  327 (416)
T 1udx_A          283 EE--EAVKALADALARE--GLAVLPVSALTGAGLPALKEALHALVRSTP  327 (416)
T ss_dssp             CH--HHHHHHHHHHHTT--TSCEEECCTTTCTTHHHHHHHHHHHHHTSC
T ss_pred             hH--HHHHHHHHHHHhc--CCeEEEEECCCccCHHHHHHHHHHHHHhcc
Confidence            65  3444454444432  358999999999999999999999887544

>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=97.35  E-value=0.00063  Score=50.99  Aligned_cols=105  Identities=16%  Similarity=0.064  Sum_probs=66.0

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--CCC------CCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--KGG------PGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~~~------~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+.+.+|+|....   ....+..++.+++|+|.........  .+.      .....+.++++||+|+.+......+.
T Consensus        53 ~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~  132 (199)
T 2f9l_A           53 TIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDE  132 (199)
T ss_dssp             EEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHH
T ss_pred             EEEEEEEECCCchhhhhhhHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccCcCHHH
Confidence            355677899983110   1112235688999999876432110  010      11245789999999997542222333


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      .....+  .|..+++.+||+++.|++++++++.+.+..
T Consensus       133 a~~l~~--~~~~~~~d~Sal~~~~i~~l~~~l~~~~~~  168 (199)
T 2f9l_A          133 ARAFAE--KNNLSFIETSALDSTNVEEAFKNILTEIYR  168 (199)
T ss_dssp             HHHHHH--HTTCEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHH--HcCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            333333  256789999999999999999999887654

>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=97.26  E-value=0.00024  Score=57.79  Aligned_cols=83  Identities=12%  Similarity=0.087  Sum_probs=55.3

Q ss_pred             ecCceEEEEEeCCCCCCCccCC---------CC--CC-CceeEEEEec-CCCCCcccccHHHHHHHH--HhhCCCCCEEE
Q 029893           93 ELADYIIYIIDVSGGDKIPRKG---------GP--GI-TQADLLVINK-TDLASAIGADLAVMERDA--LRMRDGGPFIF  157 (186)
Q Consensus        93 ~~ad~~v~VvDa~~~~~~~~~~---------~~--~~-~~adiivlNK-~Dl~~~~~~~~~~~~~~l--~~~~p~a~i~~  157 (186)
                      ...|.+|+|||+++.+....+.         .+  .+ ..+-+|+.|| -|+...  ....++.+.+  .++...-.|..
T Consensus       209 ~~tdglIfVVDSsDreRleak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~A--ms~~EI~e~L~L~~l~r~W~Iq~  286 (312)
T 3l2o_B          209 EVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKR--MPCFYLAHELHLNLLNHPWLVQD  286 (312)
T ss_dssp             HHCSEEEECCBCBTTCCCCHHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSCB--CCHHHHHHHTTGGGGCSCEEEEE
T ss_pred             cCCCEEEEEecCCcHhHHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccCC--CCHHHHHHHcCCccCCCcEEEEe
Confidence            4579999999998765322100         01  12 3456667797 588765  3444555443  23333458999


Q ss_pred             EeccCCCCHHHHHHHHHHHH
Q 029893          158 AQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       158 ~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      +||+||+|+.+-++|+.+.+
T Consensus       287 csA~tGeGL~EGldWL~~~l  306 (312)
T 3l2o_B          287 TEAETLTGFLNGIEWILEEV  306 (312)
T ss_dssp             EETTTCTTHHHHHHHHHHHS
T ss_pred             cccCCCcCHHHHHHHHHHHH
Confidence            99999999999999998765

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=97.22  E-value=0.00013  Score=65.99  Aligned_cols=58  Identities=16%  Similarity=0.210  Sum_probs=38.7

Q ss_pred             CcEEEEecCCCeeEEee------eeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCc
Q 029893           74 ADLLLCESGGDNLAANF------SRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        74 ~D~iiIEtsG~~l~~~~------~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~  134 (186)
                      +-+=||+|.| .+  .|      ..+.+|.+|+|||+.+|-..+..    .......+-++++||+|....
T Consensus        85 ~~iNlIDTPG-Hv--DF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~a~~~~lp~i~~iNKiDr~~a  152 (709)
T 4fn5_A           85 YRVNVIDTPG-HV--DFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQANKYGVPRIVYVNKMDRQGA  152 (709)
T ss_dssp             EEEEEECCCS-CT--TCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHHTCCEEEEEECSSSTTC
T ss_pred             EEEEEEeCCC-Cc--ccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHHHHHHcCCCeEEEEccccccCc
Confidence            3455899999 22  12      12346999999999998764321    112234578999999998643

>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=97.07  E-value=0.0012  Score=49.27  Aligned_cols=102  Identities=17%  Similarity=0.069  Sum_probs=62.3

Q ss_pred             CcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCc--cCCC------CCCCceeEEEEecCCCCCcccccHHHH
Q 029893           74 ADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIP--RKGG------PGITQADLLVINKTDLASAIGADLAVM  142 (186)
Q Consensus        74 ~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~--~~~~------~~~~~adiivlNK~Dl~~~~~~~~~~~  142 (186)
                      +...+.+|.|..- .  .+..+..++.+++|+|........  ..+.      .....+.++++||+|+.+......+..
T Consensus        78 ~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a  157 (191)
T 1oix_A           78 IKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEA  157 (191)
T ss_dssp             EEEEEEEECSCCSSSCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHH
T ss_pred             EEEEEEECCCCcchhhhhHHHhhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHH
Confidence            4455678888311 0  011123467889999987642210  0010      112457899999999975421223333


Q ss_pred             HHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          143 ERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       143 ~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ....+  .|...++.+||+++.|++++++++.+.+
T Consensus       158 ~~l~~--~~~~~~ld~Sald~~~v~~l~~~l~~~i  190 (191)
T 1oix_A          158 RAFAE--KNGLSFIETSALDSTNVEAAFQTILTEI  190 (191)
T ss_dssp             HHHHH--HTTCEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHH--HcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            33333  3567899999999999999999987653

>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=97.06  E-value=0.00023  Score=58.96  Aligned_cols=98  Identities=16%  Similarity=0.132  Sum_probs=57.8

Q ss_pred             CCcEEEEecCCCeeEE----e------------eeeecCceEEEEEeCCCCCCCcc------CCCCCCCceeEEEEecCC
Q 029893           73 KADLLLCESGGDNLAA----N------------FSRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTD  130 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~----~------------~~~~~ad~~v~VvDa~~~~~~~~------~~~~~~~~adiivlNK~D  130 (186)
                      .+++.|++|+|+.-..    +            ..+..+|.+++++|+...+....      ........+.++|+||+|
T Consensus       135 ~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~~~~~~l~~~~~~~~~~~i~V~nK~D  214 (360)
T 3t34_A          135 VVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLATSDAIKISREVDPSGDRTFGVLTKID  214 (360)
T ss_dssp             SCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGGCHHHHHHHHSCTTCTTEEEEEECGG
T ss_pred             CCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCCHHHHHHHHHhcccCCCEEEEEeCCc
Confidence            5689999999942100    0            01235788888898765332111      111223457899999999


Q ss_pred             CCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHH
Q 029893          131 LASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNH  172 (186)
Q Consensus       131 l~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~  172 (186)
                      ++++.....+.+...  ......+++.+|+.++.++++.+..
T Consensus       215 l~~~~~~~~~~~~~~--~~~~~~~~~~v~~~s~~~i~~~~~~  254 (360)
T 3t34_A          215 LMDKGTDAVEILEGR--SFKLKYPWVGVVNRSQADINKNVDM  254 (360)
T ss_dssp             GCCTTCCSHHHHTTS--SSCCSSCCEEECCCCHHHHHTTCCH
T ss_pred             cCCCcccHHHHHcCc--cccccCCeEEEEECChHHhccCCCH
Confidence            987532222211111  1223458899999999988876544

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=97.05  E-value=0.00031  Score=59.48  Aligned_cols=105  Identities=15%  Similarity=0.087  Sum_probs=60.3

Q ss_pred             CcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc-------------------CCCCCCCceeEEEEecCCC
Q 029893           74 ADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR-------------------KGGPGITQADLLVINKTDL  131 (186)
Q Consensus        74 ~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~-------------------~~~~~~~~adiivlNK~Dl  131 (186)
                      ..+-|.+|.|-.-   ..+..++.++.+|+|+|.++.+....                   .....-..+.++|+||+||
T Consensus       217 v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~~~~~piiLvgNK~DL  296 (402)
T 1azs_C          217 VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDL  296 (402)
T ss_dssp             EEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTTCSSCCEEEEEECHHH
T ss_pred             ccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhcccCCCCeEEEEEEChhh
Confidence            4455667777210   01123456899999999988432110                   0011123478999999998


Q ss_pred             CCccc----------------------------c--cHHHHHHHH----HhhC-------CCCCEEEEeccCCCCHHHHH
Q 029893          132 ASAIG----------------------------A--DLAVMERDA----LRMR-------DGGPFIFAQVKHGLGVEEIV  170 (186)
Q Consensus       132 ~~~~~----------------------------~--~~~~~~~~l----~~~~-------p~a~i~~~Sa~~g~gi~~l~  170 (186)
                      .++..                            .  ..++....+    .+.+       ....+++|||++++|++++|
T Consensus       297 ~~~ki~~~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~~~~~~TSA~d~~nV~~vF  376 (402)
T 1azs_C          297 LAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVF  376 (402)
T ss_dssp             HHHHHHHCSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSCEEEEECCTTCHHHHHHHH
T ss_pred             hhhhhcccccchhhccccccccccccccccccCCcccHHHHHHHHHHHHHHhhccccccCcccEEEEEEeecCcCHHHHH
Confidence            43210                            0  122333332    1221       12356789999999999999


Q ss_pred             HHHHHHHH
Q 029893          171 NHILQAWE  178 (186)
Q Consensus       171 ~~i~~~~~  178 (186)
                      .++.+.+.
T Consensus       377 ~~v~~~I~  384 (402)
T 1azs_C          377 NDCRDIIQ  384 (402)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            98876543

>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=97.01  E-value=0.00042  Score=57.09  Aligned_cols=105  Identities=13%  Similarity=0.049  Sum_probs=62.0

Q ss_pred             CcEEEEecCCCe-e--EEeeeeecCceEEEEEeCCCCCCCccC-------------------CCCCCCceeEEEEecCCC
Q 029893           74 ADLLLCESGGDN-L--AANFSRELADYIIYIIDVSGGDKIPRK-------------------GGPGITQADLLVINKTDL  131 (186)
Q Consensus        74 ~D~iiIEtsG~~-l--~~~~~~~~ad~~v~VvDa~~~~~~~~~-------------------~~~~~~~adiivlNK~Dl  131 (186)
                      ..+-+.+|.|-. .  ..+..++.++.+++|+|.++.+.....                   .+..-..+.++++||+||
T Consensus       167 v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~~~~~~iiL~~NK~DL  246 (327)
T 3ohm_A          167 VIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDL  246 (327)
T ss_dssp             EEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGGGTTCEEEEEEECHHH
T ss_pred             eeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhhccCCceEEEEEECchh
Confidence            445566666610 0  011234568999999988743321100                   001123578999999998


Q ss_pred             CCcc----------------cccHHHHHHHHH----hhCC----CCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          132 ASAI----------------GADLAVMERDAL----RMRD----GGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       132 ~~~~----------------~~~~~~~~~~l~----~~~p----~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .++.                ....++..+.++    +.++    ....++|||+++.|++.+|..+.+..-
T Consensus       247 ~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~vF~~v~~~Il  317 (327)
T 3ohm_A          247 LEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTIL  317 (327)
T ss_dssp             HHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHHHHHHHHHHHH
T ss_pred             hhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHHHHHHHHHHHH
Confidence            6431                123444444443    2221    236788999999999999999887654

>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=97.00  E-value=0.0011  Score=55.29  Aligned_cols=53  Identities=15%  Similarity=0.218  Sum_probs=36.7

Q ss_pred             CceeEEEEecCCCCCcccccHHHHHHHHHhh-CCCCCEEEEeccCCCCHHHHHHHH
Q 029893          119 TQADLLVINKTDLASAIGADLAVMERDALRM-RDGGPFIFAQVKHGLGVEEIVNHI  173 (186)
Q Consensus       119 ~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~-~p~a~i~~~Sa~~g~gi~~l~~~i  173 (186)
                      ..+.+||+||+||+++  ...+.+.+++... ....+++++||++|.|+++|...+
T Consensus       160 ~~~~iivlNK~DL~~~--~~~~~~~~~~~~y~~~G~~v~~~Sa~~~~gl~~L~~~~  213 (358)
T 2rcn_A          160 QVEPLIVLNKIDLLDD--EGMDFVNEQMDIYRNIGYRVLMVSSHTQDGLKPLEEAL  213 (358)
T ss_dssp             TCEEEEEEECGGGCCH--HHHHHHHHHHHHHHTTTCCEEECBTTTTBTHHHHHHHH
T ss_pred             CCCEEEEEECccCCCc--hhHHHHHHHHHHHHhCCCcEEEEecCCCcCHHHHHHhc
Confidence            3567999999999976  3322233333221 234589999999999999987653

>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=96.94  E-value=0.00049  Score=56.98  Aligned_cols=105  Identities=12%  Similarity=0.060  Sum_probs=62.7

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCccC-------------------CCCCCCceeEEEEecCC
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPRK-------------------GGPGITQADLLVINKTD  130 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~~-------------------~~~~~~~adiivlNK~D  130 (186)
                      +..+-+.+|.|-.-   .....++.++.+|+|+|.++.++....                   ....-..+.++++||+|
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            45566667777100   011134568999999999854332100                   00012357899999999


Q ss_pred             CCCcc---------------cccHHHHHHHHHhhC-------------------------CCCCEEEEeccCCCCHHHHH
Q 029893          131 LASAI---------------GADLAVMERDALRMR-------------------------DGGPFIFAQVKHGLGVEEIV  170 (186)
Q Consensus       131 l~~~~---------------~~~~~~~~~~l~~~~-------------------------p~a~i~~~Sa~~g~gi~~l~  170 (186)
                      |..+.               ....++..++++..+                         .....++|||+++.+++.+|
T Consensus       240 L~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~iy~h~TsA~dt~nv~~vF  319 (340)
T 4fid_A          240 LFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNISGADGTANIEGAVNEKVYTNPTNATDGSNIKRVF  319 (340)
T ss_dssp             HHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC--------------CEEEEEEECTTCHHHHHHHH
T ss_pred             hhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhhhccccccccccccccCcceEEEEEEeeCcHHHHHHH
Confidence            86421               012344444443332                         12467899999999999999


Q ss_pred             HHHHHHH
Q 029893          171 NHILQAW  177 (186)
Q Consensus       171 ~~i~~~~  177 (186)
                      +.+.+..
T Consensus       320 ~~v~~~I  326 (340)
T 4fid_A          320 MLAVDVI  326 (340)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8887644

>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=96.90  E-value=3.4e-05  Score=58.76  Aligned_cols=92  Identities=14%  Similarity=0.142  Sum_probs=44.6

Q ss_pred             cCCcEEEEecCCCeeE----Eeeee---ecCceEEEEEeCC-CCCCCcc--CCC----------CCCCceeEEEEecCCC
Q 029893           72 FKADLLLCESGGDNLA----ANFSR---ELADYIIYIIDVS-GGDKIPR--KGG----------PGITQADLLVINKTDL  131 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~----~~~~~---~~ad~~v~VvDa~-~~~~~~~--~~~----------~~~~~adiivlNK~Dl  131 (186)
                      ....+.+++|+|...-    ..+..   ..+|.+++|+|++ .......  .+.          ..-..+.++|+||+|+
T Consensus        53 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl  132 (218)
T 1nrj_B           53 DGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSEL  132 (218)
T ss_dssp             GGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTS
T ss_pred             eCceEEEEECCCcHHHHHHHHHHHHhccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHh
Confidence            4578999999994210    01110   1268899999998 3322110  000          0124578999999999


Q ss_pred             CCcccccHHHH----HHHHHhh--CCCCCEEEEeccCCCC
Q 029893          132 ASAIGADLAVM----ERDALRM--RDGGPFIFAQVKHGLG  165 (186)
Q Consensus       132 ~~~~~~~~~~~----~~~l~~~--~p~a~i~~~Sa~~g~g  165 (186)
                      .+.  .....+    .+.++.+  ....+++++||++|.+
T Consensus       133 ~~~--~~~~~~~~~l~~~~~~~~~~~~~~~~~~Sa~~~~~  170 (218)
T 1nrj_B          133 FTA--RPPSKIKDALESEIQKVIERRKKSLNEVERKINEE  170 (218)
T ss_dssp             TTC--CCHHHHHHHHHHHHHHHHHHHHHHHHC--------
T ss_pred             ccc--CCHHHHHHHHHHHHHHHHHHHhccccccccccccc
Confidence            876  333222    1112111  0124667777776654

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=96.46  E-value=0.0015  Score=53.85  Aligned_cols=100  Identities=15%  Similarity=0.037  Sum_probs=61.0

Q ss_pred             CCcEEEEecCCCe-eEEe-----eeeecCceEEEEEeCCCCCC-CccCC---CC-----CCCceeEEEEecCCCCCcccc
Q 029893           73 KADLLLCESGGDN-LAAN-----FSRELADYIIYIIDVSGGDK-IPRKG---GP-----GITQADLLVINKTDLASAIGA  137 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~~-----~~~~~ad~~v~VvDa~~~~~-~~~~~---~~-----~~~~adiivlNK~Dl~~~~~~  137 (186)
                      ...+-|-+|+|-. ...+     ..++.++.+++|+|.++... ....+   ..     .-..+.++++||+||.++  .
T Consensus        45 ~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~~IlV~Ditd~~~~~~~~l~~~l~~~~~~~~~ipillvgNK~DL~~~--~  122 (331)
T 3r7w_B           45 LIDLAVMELPGQLNYFEPSYDSERLFKSVGALVYVIDSQDEYINAITNLAMIIEYAYKVNPSINIEVLIHKVDGLSE--D  122 (331)
T ss_dssp             SSCEEEEECCSCSSSCCCSHHHHHHHTTCSEEEEECCCSSCTTHHHHHHHHHHHHHHHHCTTCEEEEECCCCCSSCS--H
T ss_pred             EEEEEEEECCCchhccchhhhhhhhccCCCEEEEEEECCchHHHHHHHHHHHHHHHhhcCCCCcEEEEEECcccCch--h
Confidence            4788999999921 1111     12456899999999987511 00000   00     113478999999999875  2


Q ss_pred             cH----HHHHHHH-HhhC------CCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          138 DL----AVMERDA-LRMR------DGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       138 ~~----~~~~~~l-~~~~------p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      ..    ..+.... +++.      -..+.++|||++ .++.+.|..+.+
T Consensus       123 ~R~~~~R~V~~~~~~~la~~~~~~~~i~f~eTSAkd-~nV~eAFs~iv~  170 (331)
T 3r7w_B          123 FKVDAQRDIMQRTGEELLELGLDGVQVSFYLTSIFD-HSIYEAFSRIVQ  170 (331)
T ss_dssp             HHHHHHHHHHHHHHHTTSSSSCSCCCEEEECCCSSS-SHHHHHHHHHHT
T ss_pred             hhhhHHHHhhHHHHHHHHhhcccccCceEEEeccCC-CcHHHHHHHHHH
Confidence            21    1222221 2221      246899999998 589999887754

>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=96.40  E-value=0.0018  Score=53.82  Aligned_cols=54  Identities=11%  Similarity=0.001  Sum_probs=28.5

Q ss_pred             CceeEEEEecCCCCCcccccHHHHHHHHHhhC--CCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          119 TQADLLVINKTDLASAIGADLAVMERDALRMR--DGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       119 ~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~--p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      ..+.++|+||+|+.+.  .++..+...+++..  ...+++++||++|.| ++.+..+.+
T Consensus       174 ~~piIlV~NK~Dl~~~--~ev~~~k~~i~~~~~~~~i~~~~~Sa~~~~~-~e~~~~l~~  229 (361)
T 2qag_A          174 KVNIVPVIAKADTLTL--KERERLKKRILDEIEEHNIKIYHLPDAESDE-DEDFKEQTR  229 (361)
T ss_dssp             -SCEEEEEECCSSSCH--HHHHHHHHHHHHHTTCC-CCSCCCC----------CHHHHH
T ss_pred             CCCEEEEEECCCCCCH--HHHHHHHHHHHHHHHHCCCCEEeCCCcCCCc-chhHHHHHH
Confidence            3578999999999876  45544434443322  246899999999998 555554443

>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=96.33  E-value=0.0013  Score=53.24  Aligned_cols=54  Identities=9%  Similarity=-0.033  Sum_probs=31.7

Q ss_pred             ceeEEEEecCCCCCcccccHH----HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          120 QADLLVINKTDLASAIGADLA----VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       120 ~adiivlNK~Dl~~~~~~~~~----~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .+.++|+||.|+.+.  .++.    +..+.++..  ..+++++||++| |+++++.++.+.+.
T Consensus       156 ~~iilV~~K~Dl~~~--~e~~~~~~~~~~~~~~~--~~~~~e~Sa~~~-~v~e~f~~l~~~i~  213 (301)
T 2qnr_A          156 VNIVPVIAKADTLTL--KERERLKKRILDEIEEH--NIKIYHLPDAES-DEDEDFKEQTRLLK  213 (301)
T ss_dssp             SCEEEEECCGGGSCH--HHHHHHHHHHHHHHHHT--TCCCCCCC----------CHHHHHHHH
T ss_pred             CCEEEEEEeCCCCCH--HHHHHHHHHHHHHHHHc--CCeEEecCCccc-cccHHHHHHHHHhh
Confidence            468999999999875  3332    334444444  368999999999 99999998887664

>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=95.96  E-value=0.0066  Score=51.79  Aligned_cols=143  Identities=17%  Similarity=0.221  Sum_probs=74.0

Q ss_pred             HHHHHHhc-CCcEEEEEcccC-C-chhHHH-HHh-cCCCCcCceEeccCCCcccCCcccccccCc-chhHhhhhhcCCcE
Q 029893            3 ALCKFLRD-KYSLAAVTNDIF-T-KEDGEF-LMR-NGALPEERIRAVETGGCPHAAIREDISINL-GPLEELSNLFKADL   76 (186)
Q Consensus         3 ~~~~~l~~-~~~vaVi~nd~g-~-~iD~~~-i~~-~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~-~~l~~l~~~~~~D~   76 (186)
                      +++..+.. ++|++++.-|.. . .++... ... .++    ++....++...        .... +++..+ ...++|+
T Consensus       116 kLA~~l~~~G~kVllv~~D~~r~~a~eqL~~~~~~~gv----~~~~~~~~~dp--------~~i~~~al~~a-~~~~~Dv  182 (433)
T 3kl4_A          116 KLAYFYKKRGYKVGLVAADVYRPAAYDQLLQLGNQIGV----QVYGEPNNQNP--------IEIAKKGVDIF-VKNKMDI  182 (433)
T ss_dssp             HHHHHHHHTTCCEEEEEECCSCHHHHHHHHHHHHTTTC----CEECCTTCSCH--------HHHHHHHHHHT-TTTTCSE
T ss_pred             HHHHHHHHcCCeEEEEecCccchhHHHHHHHHHHhcCC----ceeeccccCCH--------HHHHHHHHHHH-HhcCCCE
Confidence            45566665 489999999977 3 232211 111 122    22322111111        1101 233333 2458999


Q ss_pred             EEEecCCC-e--eEEee--------eeecCceEEEEEeCCCCCCCcc---CCCCCCCceeEEEEecCCCCCcccccHHHH
Q 029893           77 LLCESGGD-N--LAANF--------SRELADYIIYIIDVSGGDKIPR---KGGPGITQADLLVINKTDLASAIGADLAVM  142 (186)
Q Consensus        77 iiIEtsG~-~--l~~~~--------~~~~ad~~v~VvDa~~~~~~~~---~~~~~~~~adiivlNK~Dl~~~~~~~~~~~  142 (186)
                      |||+|+|. .  ....+        .....+.+++|+|+..+.+...   .+.+.+ ....+|+||+|....    ....
T Consensus       183 vIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~~~a~~f~~~~-~~~gVIlTKlD~~a~----~G~a  257 (433)
T 3kl4_A          183 IIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYDLASRFHQAS-PIGSVIITKMDGTAK----GGGA  257 (433)
T ss_dssp             EEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGHHHHHHHHHHC-SSEEEEEECGGGCSC----HHHH
T ss_pred             EEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHHHHHHHHhccc-CCcEEEEeccccccc----chHH
Confidence            99999992 1  10000        0001377899999987643211   111111 357899999998754    1222


Q ss_pred             HHHHHhhCCCCCEEEEeccCCCCHH
Q 029893          143 ERDALRMRDGGPFIFAQVKHGLGVE  167 (186)
Q Consensus       143 ~~~l~~~~p~a~i~~~Sa~~g~gi~  167 (186)
                      .......  ..||.+++.  |++++
T Consensus       258 ls~~~~~--g~Pi~fig~--Ge~v~  278 (433)
T 3kl4_A          258 LSAVVAT--GATIKFIGT--GEKID  278 (433)
T ss_dssp             HHHHHHH--TCEEEEEEC--CSSSS
T ss_pred             HHHHHHH--CCCEEEEEC--CCChH
Confidence            2223322  468888884  88874

>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=95.85  E-value=2.8e-05  Score=66.48  Aligned_cols=102  Identities=18%  Similarity=0.198  Sum_probs=57.0

Q ss_pred             cCCcEEEEecCCCeeE-Eee--------eeecCceEEEEEeCCCCCCCcc---CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLA-ANF--------SRELADYIIYIIDVSGGDKIPR---KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~-~~~--------~~~~ad~~v~VvDa~~~~~~~~---~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .++|+|||+|+|..-. ..+        ....+|.+++|+|+..+.+...   .+...+.....+|+||+|....  .. 
T Consensus       179 ~~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~~~~~~~~~~~~~~~i~gvVlnK~D~~~~--~g-  255 (432)
T 2v3c_C          179 KKADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQAGIQAKAFKEAVGEIGSIIVTKLDGSAK--GG-  255 (432)
T ss_dssp             SSCSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGGHHHHHHHHHTTSCSCEEEEEECSSSCST--TH-
T ss_pred             hCCCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHHHHHHHHHHhhcccCCeEEEEeCCCCccc--hH-
Confidence            6899999999994210 000        1113588999999977642111   1111110127899999998654  11 


Q ss_pred             HHHHHHHHhh----------------CCCCCEEEEeccCCCC-HHHHHHHHHHHH
Q 029893          140 AVMERDALRM----------------RDGGPFIFAQVKHGLG-VEEIVNHILQAW  177 (186)
Q Consensus       140 ~~~~~~l~~~----------------~p~a~i~~~Sa~~g~g-i~~l~~~i~~~~  177 (186)
                       .........                .++.|..++|+..|.| +..|++.+.+.+
T Consensus       256 -~~l~~~~~~~~pi~~ig~Ge~~~dl~~f~~~~~~s~l~g~gdi~~L~e~~~~~~  309 (432)
T 2v3c_C          256 -GALSAVAETKAPIKFIGIGEGIDDLEPFDPKKFISRLLGMGDLESLLEKAEDMV  309 (432)
T ss_dssp             -HHHHHHHHSSCCEEEECCSSSSSSCCBCCHHHHHHHHTCSSCSSTTSSTTTSCS
T ss_pred             -HHHHHHHHHCCCEEEeecCccccccccCCHHHHHHHHcCCCcHHHHHHHHHHHH
Confidence             122222211                1344555667888888 777766654443

>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=95.82  E-value=0.0011  Score=60.98  Aligned_cols=60  Identities=22%  Similarity=0.247  Sum_probs=39.4

Q ss_pred             CCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCC
Q 029893           73 KADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLA  132 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~  132 (186)
                      +..+-|++|+|.. ...  ...+..+|.+|+|+|+.++...+..    .......+.++++||+|+.
T Consensus        97 ~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~~~~~p~ilviNK~D~~  163 (842)
T 1n0u_A           97 SFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALGERIKPVVVINKVDRA  163 (842)
T ss_dssp             EEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHHTTCEEEEEEECHHHH
T ss_pred             CceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCeEEEEECCCcc
Confidence            5678899999921 000  1123457999999999987543221    1112345789999999987

>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=95.28  E-value=0.0029  Score=53.73  Aligned_cols=57  Identities=9%  Similarity=0.002  Sum_probs=27.4

Q ss_pred             CceeEEEEecCCCCCcccccHHHH----HHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          119 TQADLLVINKTDLASAIGADLAVM----ERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       119 ~~adiivlNK~Dl~~~~~~~~~~~----~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ..+.++|+||+|+.+.  .++..+    .+.+...  +.+++.+||+++.++++++..+...+|.
T Consensus       167 ~v~iIlVinK~Dll~~--~ev~~~k~~i~~~~~~~--~i~~~~~sa~~~~~v~~~~~~l~~~iPf  227 (418)
T 2qag_C          167 KVNIIPLIAKADTLTP--EECQQFKKQIMKEIQEH--KIKIYEFPETDDEEENKLVKKIKDRLPL  227 (418)
T ss_dssp             TSEEEEEEESTTSSCH--HHHHHHHHHHHHHHHHH--TCCCCCCC-----------------CCE
T ss_pred             cCcEEEEEEcccCccH--HHHHHHHHHHHHHHHHc--CCeEEeCCCCCCcCHHHHHHHHHhhCCc
Confidence            4578999999999876  444433    3334333  4688999999999999988887776554

>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=94.82  E-value=0.004  Score=52.46  Aligned_cols=49  Identities=18%  Similarity=0.220  Sum_probs=35.5

Q ss_pred             CceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHH
Q 029893          119 TQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVN  171 (186)
Q Consensus       119 ~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~  171 (186)
                      ..|.++|+||+|+...  ..++.+.+.....  .++++++||+.+.|+.++++
T Consensus       214 ~kP~i~v~NK~D~~~~--~~l~~l~~~~~~~--~~~vv~iSA~~e~~l~~L~~  262 (397)
T 1wxq_A          214 NKPMVIAANKADAASD--EQIKRLVREEEKR--GYIVIPTSAAAELTLRKAAK  262 (397)
T ss_dssp             HSCEEEEEECGGGSCH--HHHHHHHHHHHHT--TCEEEEECHHHHHHHHSCSS
T ss_pred             CCCEEEEEeCccccch--HHHHHHHHHHhhc--CCcEEEEeccchhhHHHHHh
Confidence            3689999999998733  4455554444322  46899999999999987643

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=94.12  E-value=0.017  Score=45.60  Aligned_cols=63  Identities=11%  Similarity=0.116  Sum_probs=37.1

Q ss_pred             cCCcEEEEecCCCeeE----Eee--------eeecCceEEEEEeCCCCCCC--ccCC--------CCCCCceeEEEEecC
Q 029893           72 FKADLLLCESGGDNLA----ANF--------SRELADYIIYIIDVSGGDKI--PRKG--------GPGITQADLLVINKT  129 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~----~~~--------~~~~ad~~v~VvDa~~~~~~--~~~~--------~~~~~~adiivlNK~  129 (186)
                      .+..+.|++|+|..-.    ..+        ....+|++++|+|+......  ...+        ...+..+.++|+||+
T Consensus        85 ~~~~l~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~d~il~v~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~  164 (270)
T 1h65_A           85 AGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHA  164 (270)
T ss_dssp             TTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECC
T ss_pred             CCeEEEEEECCCCCCCccchHHHHHHHHHHhhcCCCCEEEEEEeCCCCcCCHHHHHHHHHHHHHhCcccccCEEEEEECc
Confidence            4678999999994210    000        01136899999887542111  0011        111225789999999


Q ss_pred             CCCCc
Q 029893          130 DLASA  134 (186)
Q Consensus       130 Dl~~~  134 (186)
                      |+.++
T Consensus       165 Dl~~~  169 (270)
T 1h65_A          165 QFSPP  169 (270)
T ss_dssp             SCCCG
T ss_pred             ccCCc
Confidence            99865

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=93.94  E-value=0.016  Score=42.64  Aligned_cols=73  Identities=14%  Similarity=0.075  Sum_probs=42.4

Q ss_pred             cCCcEEEEecCCCeeEEee---eee----cCceEEEEEeCC-CCCCCcc--CCC----------CCCCceeEEEEecCCC
Q 029893           72 FKADLLLCESGGDNLAANF---SRE----LADYIIYIIDVS-GGDKIPR--KGG----------PGITQADLLVINKTDL  131 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~~---~~~----~ad~~v~VvDa~-~~~~~~~--~~~----------~~~~~adiivlNK~Dl  131 (186)
                      .+..+.|++|+|..--...   .+.    .+|.+++|+|++ .......  .+.          ..-..+.++|+||+|+
T Consensus        89 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl  168 (193)
T 2ged_A           89 DGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSEL  168 (193)
T ss_dssp             CCTTCSEEEETTCCBSSCCHHHHHHHHGGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTS
T ss_pred             cCCeEEEEECCCCchHHHHHHHHHHhhcccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHh
Confidence            4678889999993110010   111    268999999998 3221100  000          0124578999999999


Q ss_pred             CCcccccHHHHHHHH
Q 029893          132 ASAIGADLAVMERDA  146 (186)
Q Consensus       132 ~~~~~~~~~~~~~~l  146 (186)
                      .++  .....+.+.+
T Consensus       169 ~~~--~~~~~~~~~l  181 (193)
T 2ged_A          169 FTA--RPPSKIKDAL  181 (193)
T ss_dssp             TTC--CCHHHHHHHH
T ss_pred             cCC--CCHHHHHHHH
Confidence            876  4555554444

>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=93.80  E-value=0.019  Score=46.40  Aligned_cols=91  Identities=18%  Similarity=0.215  Sum_probs=52.4

Q ss_pred             hcCCcEEEEecCCCee--E-Eee--------eeecCceEEEEEeCCCCCCCccCCCCCC--Cce-eEEEEecCCCCCccc
Q 029893           71 LFKADLLLCESGGDNL--A-ANF--------SRELADYIIYIIDVSGGDKIPRKGGPGI--TQA-DLLVINKTDLASAIG  136 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l--~-~~~--------~~~~ad~~v~VvDa~~~~~~~~~~~~~~--~~a-diivlNK~Dl~~~~~  136 (186)
                      ..++|+|||+|+|..-  . ...        ....+|.+++|+|+..+...... ...+  ..+ ..+|+||+|....  
T Consensus       178 ~~~~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~~~~~~-~~~~~~~~~i~gvVlnk~D~~~~--  254 (297)
T 1j8m_F          178 SEKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDL-ASKFNQASKIGTIIITKMDGTAK--  254 (297)
T ss_dssp             HTTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHH-HHHHHHTCTTEEEEEECGGGCTT--
T ss_pred             hCCCCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchHHHHHH-HHHHHhhCCCCEEEEeCCCCCcc--
Confidence            3689999999999321  1 011        11235888999998765321110 0111  123 6789999997643  


Q ss_pred             ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHH
Q 029893          137 ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIV  170 (186)
Q Consensus       137 ~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~  170 (186)
                        ...+.......  ..|+.+++  +|++++++.
T Consensus       255 --~g~~~~~~~~~--~~pi~~i~--~Ge~v~dl~  282 (297)
T 1j8m_F          255 --GGGALSAVAAT--GATIKFIG--TGEKIDELE  282 (297)
T ss_dssp             --HHHHHHHHHTT--TCCEEEEE--CSSSTTCEE
T ss_pred             --hHHHHHHHHHH--CcCEEEEe--CCCChhhcc
Confidence              22223322322  46888877  688886653

>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=91.79  E-value=0.15  Score=43.07  Aligned_cols=107  Identities=10%  Similarity=0.036  Sum_probs=60.2

Q ss_pred             CcEEEEecCCCeeEE-e-------eeeecCceEEEEEeCCCCCCCccC---CCCCCCceeEEEEecCCCC--Cc-----c
Q 029893           74 ADLLLCESGGDNLAA-N-------FSRELADYIIYIIDVSGGDKIPRK---GGPGITQADLLVINKTDLA--SA-----I  135 (186)
Q Consensus        74 ~D~iiIEtsG~~l~~-~-------~~~~~ad~~v~VvDa~~~~~~~~~---~~~~~~~adiivlNK~Dl~--~~-----~  135 (186)
                      +...+.|+.|..... .       +.....+..+. ++..++......   .......+.++|+||.|+.  ++     .
T Consensus       120 ~~ltv~D~~g~~~~~~~~~~~L~~~~L~~~~~~~~-lS~G~~~kqrv~la~aL~~~~~p~~lV~tkpdlllLDEPtsgLD  198 (413)
T 1tq4_A          120 PNVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFII-ISATRFKKNDIDIAKAISMMKKEFYFVRTKVDSDITNEADGEPQ  198 (413)
T ss_dssp             TTEEEEECCCGGGSSCCHHHHHHHTTGGGCSEEEE-EESSCCCHHHHHHHHHHHHTTCEEEEEECCHHHHHHHHHTTCCT
T ss_pred             CCeeehHhhcccchHHHHHHHHHHcCCCccCCeEE-eCCCCccHHHHHHHHHHHhcCCCeEEEEecCcccccCcccccCC
Confidence            478899999942110 0       01111244444 776543221111   1112346889999999975  10     0


Q ss_pred             cccHHHHHHHHHhh---------CCCCCEEEEec--cCCCCHHHHHHHHHHHHHHhh
Q 029893          136 GADLAVMERDALRM---------RDGGPFIFAQV--KHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       136 ~~~~~~~~~~l~~~---------~p~a~i~~~Sa--~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      .....++.+.+++.         .+...++.+|+  .++.|++++.+.+.+.+|+.+
T Consensus       199 ~~~~~~l~~~l~~l~~~~l~~~g~~~~~iiliSsh~l~~~~~e~L~d~I~~~Lpeg~  255 (413)
T 1tq4_A          199 TFDKEKVLQDIRLNCVNTFRENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPIYK  255 (413)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHHTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCGGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCCCCcEEEEecCcCCccCHHHHHHHHHHhCccch
Confidence            02233333333332         24568899999  566679999999998887654

>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=90.83  E-value=0.41  Score=35.37  Aligned_cols=25  Identities=12%  Similarity=-0.013  Sum_probs=16.0

Q ss_pred             HHHHHHHhc-CCcEEEEEcccC-Cchh
Q 029893            2 LALCKFLRD-KYSLAAVTNDIF-TKED   26 (186)
Q Consensus         2 ~~~~~~l~~-~~~vaVi~nd~g-~~iD   26 (186)
                      .++++.+.. +.++++|.++++ ..+|
T Consensus        24 ~~l~~~l~~~g~~v~~i~~~~~~~~id   50 (174)
T 1np6_A           24 KKLIPALCARGIRPGLIKHTHHDMDVD   50 (174)
T ss_dssp             HHHHHHHHHTTCCEEEEEECCC-----
T ss_pred             HHHHHhccccCCceeEEeeCCCccccC
Confidence            456666654 489999999987 6665

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=90.83  E-value=0.39  Score=37.43  Aligned_cols=63  Identities=14%  Similarity=0.099  Sum_probs=35.8

Q ss_pred             cCCcEEEEecCCCeeE---E-ee--------eeecCceEEEEEeCCCCCCC--ccC--------CCCCCCceeEEEEecC
Q 029893           72 FKADLLLCESGGDNLA---A-NF--------SRELADYIIYIIDVSGGDKI--PRK--------GGPGITQADLLVINKT  129 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~-~~--------~~~~ad~~v~VvDa~~~~~~--~~~--------~~~~~~~adiivlNK~  129 (186)
                      .+..+.|++|+|..--   . .+        ....+|++++|+|.......  ...        .......+.++|+||+
T Consensus        82 ~~~~l~liDTpG~~~~~~~~~~~~~~i~~~l~~~~~~~il~V~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~  161 (262)
T 3def_A           82 GGFTINIIDTPGLVEAGYVNHQALELIKGFLVNRTIDVLLYVDRLDVYAVDELDKQVVIAITQTFGKEIWCKTLLVLTHA  161 (262)
T ss_dssp             TTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCSCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECT
T ss_pred             CCeeEEEEECCCCCCcccchHHHHHHHHHHHhcCCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhchhhhcCEEEEEeCc
Confidence            4568999999994100   0 00        00135889999877543211  001        1112223679999999


Q ss_pred             CCCCc
Q 029893          130 DLASA  134 (186)
Q Consensus       130 Dl~~~  134 (186)
                      |+.++
T Consensus       162 Dl~~~  166 (262)
T 3def_A          162 QFSPP  166 (262)
T ss_dssp             TCCCS
T ss_pred             ccCCC
Confidence            99744

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=90.76  E-value=0.25  Score=41.91  Aligned_cols=118  Identities=19%  Similarity=0.228  Sum_probs=58.6

Q ss_pred             HHHHHHhc--CCcEEEEEcccC-C-chhHHH--HHhcCCCCcCceEeccCCCcccCCcccccccCc-chhHhhhhhcCCc
Q 029893            3 ALCKFLRD--KYSLAAVTNDIF-T-KEDGEF--LMRNGALPEERIRAVETGGCPHAAIREDISINL-GPLEELSNLFKAD   75 (186)
Q Consensus         3 ~~~~~l~~--~~~vaVi~nd~g-~-~iD~~~--i~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~-~~l~~l~~~~~~D   75 (186)
                      +|+..+..  ++|+.+|--|+. . .++...  -...++    ++.....+.        |-...+ +++..+ ...++|
T Consensus       119 ~LA~~l~~~~G~kVllvd~D~~r~~a~~ql~~~~~~~~l----~v~~~~~~~--------dp~~i~~~~l~~~-~~~~~D  185 (433)
T 2xxa_A          119 KLGKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGV----DFFPSDVGQ--------KPVDIVNAALKEA-KLKFYD  185 (433)
T ss_dssp             HHHHHHHHTSCCCEEEEECCCSSTTHHHHHHHHHHHHTC----EECCCCSSS--------CHHHHHHHHHHHH-HHTTCS
T ss_pred             HHHHHHHHhcCCeEEEEecCCCCccHHHHHHhhcccCCe----eEEeCCCCC--------CHHHHHHHHHHHH-HhCCCC
Confidence            45555554  689999999987 3 333211  112232    233221111        111111 233333 235899


Q ss_pred             EEEEecCCCe-eEEee--------eeecCceEEEEEeCCCCCCCcc---CCCCCCCceeEEEEecCCCCCc
Q 029893           76 LLLCESGGDN-LAANF--------SRELADYIIYIIDVSGGDKIPR---KGGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        76 ~iiIEtsG~~-l~~~~--------~~~~ad~~v~VvDa~~~~~~~~---~~~~~~~~adiivlNK~Dl~~~  134 (186)
                      +|||+|+|.. .....        .....+.+++|+|+..+.+...   .+...+. -.-+|+||+|....
T Consensus       186 ~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g~~~~~~~~~f~~~l~-i~gvVlnK~D~~~~  255 (433)
T 2xxa_A          186 VLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDAANTAKAFNEALP-LTGVVLTKVDGDAR  255 (433)
T ss_dssp             EEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBCTTHHHHHHHHHHHSC-CCCEEEECTTSSSC
T ss_pred             EEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchhHHHHHHHHHHhccCC-CeEEEEecCCCCcc
Confidence            9999999931 00000        0113467889999987633211   0111111 14579999997644

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=88.05  E-value=0.11  Score=42.26  Aligned_cols=90  Identities=16%  Similarity=0.151  Sum_probs=49.4

Q ss_pred             hcCCcEEEEecCCCeeEE--e-------------eeeecCceEEEEEeCCCCCCCcc---CCCCCCCceeEEEEecCCCC
Q 029893           71 LFKADLLLCESGGDNLAA--N-------------FSRELADYIIYIIDVSGGDKIPR---KGGPGITQADLLVINKTDLA  132 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l~~--~-------------~~~~~ad~~v~VvDa~~~~~~~~---~~~~~~~~adiivlNK~Dl~  132 (186)
                      ..++|+|||+|+|..-..  .             ..+...|.+++|+|+..+.....   .+...+ .-.-+|+||.|-.
T Consensus       189 ~~~yD~VIIDTpg~l~~~~~l~~eL~~~~~vi~~~~p~~~d~vllVl~a~~~~~~l~~~~~~~~~~-~i~GvVltk~d~~  267 (320)
T 1zu4_A          189 EQNYDLLLIDTAGRLQNKTNLMAELEKMNKIIQQVEKSAPHEVLLVIDATTGQNGVIQAEEFSKVA-DVSGIILTKMDST  267 (320)
T ss_dssp             HTTCSEEEEECCCCGGGHHHHHHHHHHHHHHHHTTCTTCCSEEEEEEEGGGTHHHHHHHHHHTTTS-CCCEEEEECGGGC
T ss_pred             hcCCCEEEEcCCCcccccHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCcHHHHHHHHHHhhcC-CCcEEEEeCCCCC
Confidence            468999999999931100  0             00112577899999885421111   111111 1245899999975


Q ss_pred             CcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHH
Q 029893          133 SAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       133 ~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l  169 (186)
                      ..  .  ..+.......  ..|+.+++  +|++++++
T Consensus       268 ~~--~--g~~~~~~~~~--~~Pi~~i~--~Ge~~~dl  296 (320)
T 1zu4_A          268 SK--G--GIGLAIKELL--NIPIKMIG--VGEKVDDL  296 (320)
T ss_dssp             SC--T--THHHHHHHHH--CCCEEEEE--CSSSTTCE
T ss_pred             Cc--h--hHHHHHHHHH--CcCEEEEe--CCCCcccc
Confidence            43  1  1233333333  35787776  57777554

>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=86.71  E-value=1.1  Score=37.47  Aligned_cols=58  Identities=12%  Similarity=0.079  Sum_probs=44.1

Q ss_pred             CceeEEEEecCCC--C-CcccccHHHHHHHHHhhCCCCCEEEEeccC---------------------CCCHHHHHHHHH
Q 029893          119 TQADLLVINKTDL--A-SAIGADLAVMERDALRMRDGGPFIFAQVKH---------------------GLGVEEIVNHIL  174 (186)
Q Consensus       119 ~~adiivlNK~Dl--~-~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~---------------------g~gi~~l~~~i~  174 (186)
                      .++.++++||.|-  . +. ...++.+.+++++.+|.++++++||+.                     +.|++.+++...
T Consensus       224 ~kp~~y~~Nv~e~~~~~~~-~~~~~~~~~~~~~~~p~~~~v~~sa~~E~~l~~l~~~~~~~~l~~~g~~~gl~~~i~~~~  302 (392)
T 1ni3_A          224 AKPVIYLVNMSERDFLRQK-NKYLPKIKKWIDENSPGDTLIPMSVAFEERLTNFTEEEAIEECKKLNTKSMLPKIIVTGY  302 (392)
T ss_dssp             GSCEEEEEECCHHHHTTTC-CSSHHHHHHHHHTTSTTCCEEEECHHHHHHHTTSCHHHHHHHHHHTTCCCSHHHHHHHHH
T ss_pred             cCceEEEEEecchhhcccc-hHHHHHHHHHHHhcCCCCeEEEEEhHHHHHHhhCCHHHHHHHHHHhCCcccHHHHHHHHH
Confidence            4689999999983  2 21 145777777777777889999999986                     688888888776


Q ss_pred             HHH
Q 029893          175 QAW  177 (186)
Q Consensus       175 ~~~  177 (186)
                      +.+
T Consensus       303 ~~L  305 (392)
T 1ni3_A          303 NAL  305 (392)
T ss_dssp             HHT
T ss_pred             HHh
Confidence            554

>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=86.37  E-value=0.84  Score=37.82  Aligned_cols=49  Identities=16%  Similarity=0.284  Sum_probs=31.5

Q ss_pred             ceeEEEEecCC--CCCc-ccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHH
Q 029893          120 QADLLVINKTD--LASA-IGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIV  170 (186)
Q Consensus       120 ~adiivlNK~D--l~~~-~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~  170 (186)
                      +|.+++.||.|  +.+. ....++.+.+..+..  +++++++||+++.++.++.
T Consensus       202 KPvi~v~N~~e~d~~~~~~n~~~~~v~~~a~~~--g~~vv~iSAk~E~el~eL~  253 (368)
T 2dby_A          202 KPVIYVANVAEEDLPDGRGNPQVEAVRRKALEE--GAEVVVVSARLEAELAELS  253 (368)
T ss_dssp             SCEEEEEECCGGGTTTCTTCHHHHHHHHHHHHH--TCEEEEECHHHHHHHHTSC
T ss_pred             CCeEEeccccHHhhcccchhhHHHHHHHHHHHc--CCeEEEeechhHHHHHHhc
Confidence            68999999997  4331 013445555555444  3799999999855555443

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=83.81  E-value=1.8  Score=35.93  Aligned_cols=49  Identities=14%  Similarity=0.202  Sum_probs=36.6

Q ss_pred             eeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          121 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       121 adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      +.+++.||+|..+.  ++++.+       ......+++|+.++.|++.|++.+.+.+.
T Consensus       251 p~i~v~nKid~~~~--eele~l-------~~~~~~~~is~~~e~gLd~Li~~~y~~L~  299 (376)
T 4a9a_A          251 PAIYVLNKIDSLSI--EELELL-------YRIPNAVPISSGQDWNLDELLQVMWDRLN  299 (376)
T ss_dssp             CEEEEEECGGGSCH--HHHHHH-------TTSTTEEECCTTTCTTHHHHHHHHHHHHC
T ss_pred             ceEEEEecccccCH--HHHHHH-------hcccchhhhhhhhcccchhHHHHHHHHcC
Confidence            67899999998765  333222       22346789999999999999998877653

>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=80.58  E-value=0.59  Score=39.63  Aligned_cols=60  Identities=15%  Similarity=0.100  Sum_probs=36.5

Q ss_pred             EEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHh-h-CCCCCEEEEec
Q 029893           98 IIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGADLAVMERDALR-M-RDGGPFIFAQV  160 (186)
Q Consensus        98 ~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~-~-~p~a~i~~~Sa  160 (186)
                      +.+++|+.++.....    +... ...+.++|+||+|.+++  .++..+...+++ + ..+.+|+.+|.
T Consensus       152 v~fI~d~~~~l~~~Dieilk~L~-~~~~vI~Vi~KtD~Lt~--~E~~~l~~~I~~~L~~~gi~I~~is~  217 (427)
T 2qag_B          152 LYFIAPTGHSLKSLDLVTMKKLD-SKVNIIPIIAKADAISK--SELTKFKIKITSELVSNGVQIYQFPT  217 (427)
T ss_dssp             EEEECCCC---CHHHHHHHHHTC-SCSEEEEEESCGGGSCH--HHHHHHHHHHHHHHBTTBCCCCCCC-
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHh-hCCCEEEEEcchhccch--HHHHHHHHHHHHHHHHcCCcEEecCC
Confidence            566777766543211    1111 34578999999999987  677777777765 3 24567777774

---

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	186
d2qm8a1	323	c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylo	3e-16
d2p67a1	327	c.37.1.10 (A:1-327) LAO/AO transport system kinase	1e-10

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]} Length = 323

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]

 Score = 73.0 bits (178), Expect = 3e-16
 Identities = 29/192 (15%), Positives = 59/192 (30%), Gaps = 11/192 (5%)

Query: 1   MLALCKFLRD-KYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGGCPHAAIREDIS 59
           + AL   L    + +A +  D  +   G  ++ +                P  +      
Sbjct: 68  IDALGSLLTAAGHKVAVLAVDPSSTRTGGSILGDKTRMARLAIDRNAFIRPSPSSGTLGG 127

Query: 60  INLGPLE--ELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPG 117
           +     E   L      D++L E+ G   +     +L D+ + ++    GD++       
Sbjct: 128 VAAKTRETMLLCEAAGFDVILVETVGVGQSETAVADLTDFFLVLMLPGAGDELQGIKKGI 187

Query: 118 ITQADLLVINKTDLASAIGADLAVMERDALRMR--------DGGPFIFAQVKHGLGVEEI 169
              AD++ +NK D         A        +            P +     HG G++ +
Sbjct: 188 FELADMIAVNKADDGDGERRASAAASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSL 247

Query: 170 VNHILQAWEAST 181
            + I       T
Sbjct: 248 WSRIEDHRSKLT 259

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]} Length = 327

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]

 Score = 57.2 bits (137), Expect = 1e-10
 Identities = 36/191 (18%), Positives = 64/191 (33%), Gaps = 10/191 (5%)

Query: 1   MLALCKFLRDKY-SLAAVTNDIFTKEDGEFLMRNGALPEE--RIRAVETGGCPHAAIRED 57
           + A    L  +   +A +  D  +   G  ++ +     +  R  A      P +     
Sbjct: 71  LEAFGMLLIREGLKVAVIAVDPSSPVTGGSILGDKTRMNDLARAEAAFIRPVPSSGHLGG 130

Query: 58  ISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPG 117
            S     L  L      D+++ E+ G   +      + D  I +    GGD +       
Sbjct: 131 ASQRARELMLLCEAAGYDVVIVETVGVGQSETEVARMVDCFISLQIAGGGDDLQGIKKGL 190

Query: 118 ITQADLLVINKTDLASAIGADLAVME-RDALRMRDGG------PFIFAQVKHGLGVEEIV 170
           +  ADL+VINK D  +     +A      AL +            +        G++EI 
Sbjct: 191 MEVADLIVINKDDGDNHTNVAIARHMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIW 250

Query: 171 NHILQAWEAST 181
           + I+    A T
Sbjct: 251 HAIIDFKTALT 261

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	186
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	99.91
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	99.87
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	99.83
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	99.44
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.09
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.06
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	98.97
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	98.92
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	98.92
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	98.91
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	98.89
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	98.83
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	98.83
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	98.79
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	98.76
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	98.72
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	98.71
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	98.7
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	98.69
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	98.69
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	98.65
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	98.64
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	98.63
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	98.6
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	98.6
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	98.59
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	98.57
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	98.56
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	98.56
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	98.56
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	98.55
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.55
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	98.55
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	98.53
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	98.53
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	98.52
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.51
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	98.5
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	98.5
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	98.47
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	98.47
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	98.46
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	98.46
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	98.45
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	98.45
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	98.45
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.43
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	98.42
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	98.42
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	98.41
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	98.4
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	98.39
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	98.37
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	98.36
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	98.35
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	98.32
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	98.31
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	98.3
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	98.3
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	98.28
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	98.28
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.26
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	98.24
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	98.24
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.22
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	98.22
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	98.21
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.2
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	98.18
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.17
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	98.13
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	98.12
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	98.06
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	97.88
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	97.87
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	97.86
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	97.7
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.65
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	97.65
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.59
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	97.32
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.18
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	97.06
d1okkd2	207	GTPase domain of the signal recognition particle r	96.62
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.62
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	96.6
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	96.29
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.21
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.11
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	96.04
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.54
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	95.31
d2fh5b1	207	Signal recognition particle receptor beta-subunit	95.27
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	93.14
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	91.74
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	82.38
d1nrjb_	209	Signal recognition particle receptor beta-subunit	80.42

>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=99.91  E-value=5.5e-27  Score=183.33  Aligned_cols=154  Identities=18%  Similarity=0.281  Sum_probs=107.5

Q ss_pred             HHHHHHHhcCCcEEEEEcccC-CchhHHHHHhcCCCCcCceEeccCCC-cccCCcccccccCcchhHhhhh-----hcCC
Q 029893            2 LALCKFLRDKYSLAAVTNDIF-TKEDGEFLMRNGALPEERIRAVETGG-CPHAAIREDISINLGPLEELSN-----LFKA   74 (186)
Q Consensus         2 ~~~~~~l~~~~~vaVi~nd~g-~~iD~~~i~~~~~~~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l~~l~~-----~~~~   74 (186)
                      ++++++ .+++|+|||+|||| +++|+.++...+.    .++++.+|| ||+.  ++++.   +++..+..     ..+|
T Consensus        21 ~~lL~~-~~~~riaVI~Ne~g~~~iD~~~~~~~~~----~~~el~~gcicc~~--~~~~~---~~l~~~~~~~~~~~~~~   90 (222)
T d1nija1          21 RHILNE-QHGYKIAVIENEFGEVSVDDQLIGDRAT----QIKTLTNGCICCSR--SNELE---DALLDLLDNLDKGNIQF   90 (222)
T ss_dssp             HHHHHS-CCCCCEEEECSSCCSCCEEEEEECTTSC----EEEEETTSCEEECT--TSCHH---HHHHHHHHHHHHTSCCC
T ss_pred             HHHHhc-CCCCcEEEEEecccchhhhhhhhccccc----ceEEecCCcceecc--chhHH---HHHHHHHHHHhhccCCc
Confidence            344443 23589999999999 8999998876544    689999999 9985  54544   34433322     1379


Q ss_pred             cEEEEecCCCee----EEeee------e-ecCceEEEEEeCCCCCCCccC---CCCCCCceeEEEEecCCCCCcccccHH
Q 029893           75 DLLLCESGGDNL----AANFS------R-ELADYIIYIIDVSGGDKIPRK---GGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        75 D~iiIEtsG~~l----~~~~~------~-~~ad~~v~VvDa~~~~~~~~~---~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      |+|+|||+|+.-    ...+.      . ...+.+++|+|+.+++.....   +..|++.||+||+||+|++++    .+
T Consensus        91 d~iiIE~sG~~~p~~l~~~~~~~~~~~~~~~l~~vi~vVDa~~~~~~~~~~~~~~~Qi~~AD~ivlNK~Dl~~~----~~  166 (222)
T d1nija1          91 DRLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVGYADRILLTKTDVAGE----AE  166 (222)
T ss_dssp             SEEEEEEETTCCHHHHHHHHHHSHHHHHHEEEEEEEEEEETTTHHHHHHHCHHHHHHHHTCSEEEEECTTTCSC----TH
T ss_pred             ceeEEeecccchhhHHHHHHHhhhcccccccccchhhhhhhhhhhhhhhhhHHHHHHHHhCCcccccccccccH----HH
Confidence            999999999521    11110      0 012668999999987654333   235788999999999999865    35


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIV  170 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~  170 (186)
                      ++++.++++||.++|+.+| .-...++.|+
T Consensus       167 ~~~~~l~~lNP~a~Ii~~~-~g~v~~~~ll  195 (222)
T d1nija1         167 KLHERLARINARAPVYTVT-HGDIDLGLLF  195 (222)
T ss_dssp             HHHHHHHHHCSSSCEEECC-SSCCCGGGGS
T ss_pred             HHHHHHHHHhCCCeEEEee-CCccCHHHhh
Confidence            6888999999999999876 2233555553

>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=99.87  E-value=3.9e-23  Score=169.46  Aligned_cols=176  Identities=16%  Similarity=0.171  Sum_probs=113.4

Q ss_pred             CHHHHHHHhc-CCcEEEEEcccCCchhHHHHHhcCCCCcCceEeccCCC-cc--cCCcccccccCcc---hhHhhhhhcC
Q 029893            1 MLALCKFLRD-KYSLAAVTNDIFTKEDGEFLMRNGALPEERIRAVETGG-CP--HAAIREDISINLG---PLEELSNLFK   73 (186)
Q Consensus         1 ~~~~~~~l~~-~~~vaVi~nd~g~~iD~~~i~~~~~~~~~~~~~l~~Gc-cc--~l~~r~d~~~~~~---~l~~l~~~~~   73 (186)
                      +.+++++++. ++|+|||.||+++++++..+-...    .++.++..++ ||  +...|+.+.+.-.   ....+.+..+
T Consensus        68 i~~l~~~~~~~g~~vaViavDpss~~~gg~llgdr----~rm~~~~~~~~~~ir~~~~~~~~gg~~~~~~~~i~~~~~~g  143 (323)
T d2qm8a1          68 IDALGSLLTAAGHKVAVLAVDPSSTRTGGSILGDK----TRMARLAIDRNAFIRPSPSSGTLGGVAAKTRETMLLCEAAG  143 (323)
T ss_dssp             HHHHHHHHHHTTCCEEEEEECGGGGSSCCCSSCCG----GGSTTGGGCTTEEEECCCCCSSHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhcCCceeeeecccccHHHHhccccch----hhHHHHhcccceeeccccccccccchhHHHHHHHHhhccCC
Confidence            3577887775 599999999999776432221100    1233333333 11  2222222221112   2223445679


Q ss_pred             CcEEEEecCCCeeEEeeeeecCceEEEEEeCCCCCCCccCCCCCCCceeEEEEecCCCCCcccccHH-HHHHH----HHh
Q 029893           74 ADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLA-VMERD----ALR  148 (186)
Q Consensus        74 ~D~iiIEtsG~~l~~~~~~~~ad~~v~VvDa~~~~~~~~~~~~~~~~adiivlNK~Dl~~~~~~~~~-~~~~~----l~~  148 (186)
                      +|+|||||+|...........+|..++|+.+..|++.+..+..+++.||++|+||+|+.+.  .... .....    +..
T Consensus       144 ~d~iiiETVG~gq~e~~~~~~~D~~v~v~~p~~GD~iQ~~k~gilE~aDi~vvNKaD~~~~--~~~~~~~~~~~~~~l~~  221 (323)
T d2qm8a1         144 FDVILVETVGVGQSETAVADLTDFFLVLMLPGAGDELQGIKKGIFELADMIAVNKADDGDG--ERRASAAASEYRAALHI  221 (323)
T ss_dssp             CCEEEEEECSSSSCHHHHHTTSSEEEEEECSCC------CCTTHHHHCSEEEEECCSTTCC--HHHHHHHHHHHHHHHTT
T ss_pred             CCeEEEeehhhhhhhhhhhcccceEEEEeeccchhhhhhhhhhHhhhhheeeEeccccccc--hHHHHHHHHHHHHHhhc
Confidence            9999999999655444444578999999999999999999999999999999999998876  3322 22222    211


Q ss_pred             h-----CCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          149 M-----RDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       149 ~-----~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      .     .+..||+.+||++|+|+++|+++|.+++...++
T Consensus       222 ~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~~~~~~  260 (323)
T d2qm8a1         222 LTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRSKLTA  260 (323)
T ss_dssp             BCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             ccccccCCCCceEEEEecCCCCHHHHHHHHHHHHHHHHH
Confidence            1     145799999999999999999999998876654

>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=99.83  E-value=2.3e-21  Score=158.97  Aligned_cols=174  Identities=22%  Similarity=0.204  Sum_probs=107.4

Q ss_pred             HHHHHHHhcC-CcEEEEEcccCCchhH-------HHHHhcCCCCcCceEeccCCCcccCCcccccccCcchhHhhhhhcC
Q 029893            2 LALCKFLRDK-YSLAAVTNDIFTKEDG-------EFLMRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFK   73 (186)
Q Consensus         2 ~~~~~~l~~~-~~vaVi~nd~g~~iD~-------~~i~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~~~l~~l~~~~~   73 (186)
                      +++++++... +|+|||.+|++++.++       .++...+..+...++++.++|  ++.   .+.........+.+..+
T Consensus        72 ~~l~~~~~~~g~~vavlavDpss~~~ggailgdr~rm~~~~~~~~~~ir~~~~~g--~lg---g~~~~~~~~~~~~~~~g  146 (327)
T d2p67a1          72 EAFGMLLIREGLKVAVIAVDPSSPVTGGSILGDKTRMNDLARAEAAFIRPVPSSG--HLG---GASQRARELMLLCEAAG  146 (327)
T ss_dssp             HHHHHHHHHTTCCEEEEEECCC---------------CTTTTCTTEEEEEECC----------CHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhcCCceeeecCCCceeeeccccccchhHHHHhccccccccccccccc--ccc---cchhhhhHHHHHHHhcC
Confidence            5677777764 9999999999976643       333333332333455555443  110   01111112234455679


Q ss_pred             CcEEEEecCCCeeEEeeeeecCceEEEEEeCCCCCCCccCCCCCCCceeEEEEecCCCCCcccccHH----HHHHHHHhh
Q 029893           74 ADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLA----VMERDALRM  149 (186)
Q Consensus        74 ~D~iiIEtsG~~l~~~~~~~~ad~~v~VvDa~~~~~~~~~~~~~~~~adiivlNK~Dl~~~~~~~~~----~~~~~l~~~  149 (186)
                      +|+|||||+|...........+|.+++|+++..|++.+..+...++.||++|+||+|+...  ....    .+...++..
T Consensus       147 ~d~iliEtvG~gq~e~~i~~~aD~~l~v~~P~~Gd~iq~~k~gi~e~aDi~VvNKaD~~~~--~~~~~~~~~~~~al~~~  224 (327)
T d2p67a1         147 YDVVIVETVGVGQSETEVARMVDCFISLQIAGGGDDLQGIKKGLMEVADLIVINKDDGDNH--TNVAIARHMYESALHIL  224 (327)
T ss_dssp             CSEEEEEEECCTTHHHHHHTTCSEEEEEECC------CCCCHHHHHHCSEEEECCCCTTCH--HHHHHHHHHHHHHHHHS
T ss_pred             CCeEEEeeccccccchhhhhccceEEEEecCCCchhhhhhchhhhccccEEEEEeecccch--HHHHHHHHHHHHHhhhc
Confidence            9999999999544322223468999999999999998888888889999999999998875  2222    222223222


Q ss_pred             C-----CCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          150 R-----DGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       150 ~-----p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      .     +..||+.+||++|+|+++|++.|.++....++
T Consensus       225 ~~~~~~w~p~V~~~SA~~g~Gi~eL~~~I~~~~~~l~~  262 (327)
T d2p67a1         225 RRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKTALTA  262 (327)
T ss_dssp             CCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHHHHHH
T ss_pred             ccCCCCCcceeEEEEeeCCCCHHHHHHHHHHHHHHHHh
Confidence            1     34589999999999999999999998887654

>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=99.44  E-value=1.4e-15  Score=117.51  Aligned_cols=167  Identities=14%  Similarity=0.089  Sum_probs=99.1

Q ss_pred             HHHHHHHhcCCcEEEEEcccC-C------chhHHHHHhcCCCCcCceEeccCCC-cccCCcccccccCcchhHhhh--hh
Q 029893            2 LALCKFLRDKYSLAAVTNDIF-T------KEDGEFLMRNGALPEERIRAVETGG-CPHAAIREDISINLGPLEELS--NL   71 (186)
Q Consensus         2 ~~~~~~l~~~~~vaVi~nd~g-~------~iD~~~i~~~~~~~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l~~l~--~~   71 (186)
                      .++++++..++++|+|.+|+| .      .+|...+........ ......+|| ||+-    .+...++.+....  ..
T Consensus        18 ~~ll~~~~~~~~~~ivn~d~~~~~~~~~~~id~~~~~~~~~~~~-~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~   92 (244)
T d1yrba1          18 GEFGRYLEDNYKVAYVNLDTGVKELPYEPSIDVREFVTVEEIMR-EGYGPNGAIVESYD----RLMEKFNEYLNKILRLE   92 (244)
T ss_dssp             HHHHHHHTTTSCEEEEECCSSCSCCSSCCSEEGGGTCCHHHHHT-TTCCHHHHHHHHHH----HHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHhhCCeEEEEecCcccccCCCcccchHHHHHHHHHHhH-hhhccCCchhhhhH----hHHhhHHHHHHHHHhhc
Confidence            456666666688999888877 3      345443211000001 224445666 4431    1122223332221  12


Q ss_pred             cCCcEEEEecCCCeeEEee----------eeecCceEEEEEeCCCCCCCccC---------CCCCCCceeEEEEecCCCC
Q 029893           72 FKADLLLCESGGDNLAANF----------SRELADYIIYIIDVSGGDKIPRK---------GGPGITQADLLVINKTDLA  132 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~~----------~~~~ad~~v~VvDa~~~~~~~~~---------~~~~~~~adiivlNK~Dl~  132 (186)
                      ..+++++++++|.  ..++          .....+.+++++|+..+.+....         ...++..|+++|+||+|+.
T Consensus        93 ~~~~~~~id~~g~--~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~~~~~~ivvinK~D~~  170 (244)
T d1yrba1          93 KENDYVLIDTPGQ--METFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLL  170 (244)
T ss_dssp             HHCSEEEEECCSS--HHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGC
T ss_pred             cccceeeeccccc--hhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHHHHhCCCceeeeeccccc
Confidence            4789999999993  1111          01123578999999876553211         1124567999999999999


Q ss_pred             CcccccHHHHHH----------------------------HHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          133 SAIGADLAVMER----------------------------DALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       133 ~~~~~~~~~~~~----------------------------~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      +.  .+.+....                            .++...+..|++++||++|+|+++|+..+.+++
T Consensus       171 ~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~~~l~e~~  241 (244)
T d1yrba1         171 SE--EEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHY  241 (244)
T ss_dssp             CH--HHHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHH
T ss_pred             cH--HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            86  32222111                            122334678999999999999999999999875

>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=99.09  E-value=3.9e-11  Score=88.91  Aligned_cols=106  Identities=20%  Similarity=0.279  Sum_probs=69.7

Q ss_pred             CCcEEEEecCCCe-e-E-EeeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCcccccHHHHHH-
Q 029893           73 KADLLLCESGGDN-L-A-ANFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASAIGADLAVMER-  144 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l-~-~~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~-  144 (186)
                      +..+.++.+.|.. . . .......+|.+++++|+.++...+..    .....+.|.++|+||+|+++.  ...+.... 
T Consensus        58 ~~~~~~~d~~g~~~~~~~~~~~l~~~d~~ilv~d~~~g~~~~~~~~~~~~~~~~~p~iiv~NKiD~~~~--~~~~~~~~~  135 (179)
T d1wb1a4          58 NYRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGPKTQTGEHMLILDHFNIPIIVVITKSDNAGT--EEIKRTEMI  135 (179)
T ss_dssp             TEEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTCSCHHHHHHHHHHHHTTCCBCEEEECTTSSCH--HHHHHHHHH
T ss_pred             CccccccccccccccccchhhhhhhccccccccccccccchhhhhhhhhhhhcCCcceeccccccccCH--HHHHHHHHH
Confidence            4556677777710 0 0 00112246999999999987543211    112245689999999999976  43333222 


Q ss_pred             --HH-Hhh--CCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          145 --DA-LRM--RDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       145 --~l-~~~--~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                        .+ +..  .+..|++++||++|+|+++|+++|.+.+|++
T Consensus       136 ~~~~~~~~~~~~~~~iv~iSA~~g~gi~eL~~~I~~~l~~~  176 (179)
T d1wb1a4         136 MKSILQSTHNLKNSSIIPISAKTGFGVDELKNLIITTLNNA  176 (179)
T ss_dssp             HHHHHHHSSSGGGCCEEECCTTTCTTHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHhhcCCCCeEEEEEccCCcCHHHHHHHHHhcCCcc
Confidence              22 221  2357999999999999999999999998875

>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=99.06  E-value=2.3e-11  Score=89.76  Aligned_cols=105  Identities=11%  Similarity=0.042  Sum_probs=74.1

Q ss_pred             cCCcEEEEecCCCeeEEe-----------eeeecCceEEEEEeCCCCCCCccC----CCC--CCCceeEEEEecCCCCCc
Q 029893           72 FKADLLLCESGGDNLAAN-----------FSRELADYIIYIIDVSGGDKIPRK----GGP--GITQADLLVINKTDLASA  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~-----------~~~~~ad~~v~VvDa~~~~~~~~~----~~~--~~~~adiivlNK~Dl~~~  134 (186)
                      .+..+.+++|.|......           .....+|++++|+|++++......    ...  .-..+.++|+||+|+.+.
T Consensus        51 ~~~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~~~ad~il~v~D~~~~~~~~~~~i~~~l~~~~~~~piilv~NK~Dl~~~  130 (178)
T d1wf3a1          51 GRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLDAAKY  130 (178)
T ss_dssp             TTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGTTTSCEEEEEECGGGCSS
T ss_pred             eeeeeeecccccccccccccchhcccccccccccccceeeeechhhhhcccccchhhheeccccchhhhhhhcccccccC
Confidence            467899999999421110           012357999999999886432111    101  123578999999999865


Q ss_pred             ccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          135 IGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       135 ~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                        .  +...+.+++..+...++++||++|.|+++|+++|.+.+|++
T Consensus       131 --~--~~~~~~~~~~~~~~~~~~iSA~~~~gi~~L~~~i~~~lpe~  172 (178)
T d1wf3a1         131 --P--EEAMKAYHELLPEAEPRMLSALDERQVAELKADLLALMPEG  172 (178)
T ss_dssp             --H--HHHHHHHHHTSTTSEEEECCTTCHHHHHHHHHHHHTTCCBC
T ss_pred             --H--HHHHHHHHhhcccCceEEEecCCCCCHHHHHHHHHHhCCCC
Confidence              2  33445566677888999999999999999999999887753

>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=98.97  E-value=5.9e-10  Score=82.15  Aligned_cols=111  Identities=18%  Similarity=0.229  Sum_probs=76.3

Q ss_pred             hcCCcEEEEecCCCee----EEee-----------eeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCC
Q 029893           71 LFKADLLLCESGGDNL----AANF-----------SRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDL  131 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l----~~~~-----------~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl  131 (186)
                      ..+..+.++++.|..-    ....           ....+|++++|+|+..+......    .......+.++|+||+|+
T Consensus        53 ~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dvii~v~d~~~~~~~~~~~~~~~~~~~~~~~i~v~nK~D~  132 (186)
T d1mkya2          53 IDGRKYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQRMAGLMERRGRASVVVFNKWDL  132 (186)
T ss_dssp             ETTEEEEESSCSCC-----------CCSCCHHHHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHHTTCEEEEEEECGGG
T ss_pred             cCCceeeeeccCCccccccccccccccchhHHHHHHHhcCCEEEEeecccccchhhHHHHHHHHHHcCCceeeeccchhh
Confidence            3467788889999421    0000           11246899999999887543221    112245688999999999


Q ss_pred             CCcccccHHHHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          132 ASAIGADLAVMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       132 ~~~~~~~~~~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      .........++.+.+++.   .++.|++++||++|.|+++|++.|.+.+..+.
T Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~~vSa~~g~gv~~L~~~i~~~~~~~~  185 (186)
T d1mkya2         133 VVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGWNIDRMIDAMNLAYASYT  185 (186)
T ss_dssp             STTGGGCHHHHHHHHHHHCGGGTTSCEEECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             hcchhhhhhhHHHHHHHHhcccCCCeEEEEeCCCCCCHHHHHHHHHHHHHhCC
Confidence            866433455555555543   35679999999999999999999999888764

>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=98.92  E-value=3.6e-10  Score=83.21  Aligned_cols=107  Identities=14%  Similarity=0.186  Sum_probs=73.8

Q ss_pred             cCCcEEEEecCCCeeEEe----e------eeecCceEEEEEeCCCCCCCcc----C----C-CCCCCceeEEEEecCCCC
Q 029893           72 FKADLLLCESGGDNLAAN----F------SRELADYIIYIIDVSGGDKIPR----K----G-GPGITQADLLVINKTDLA  132 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~----~------~~~~ad~~v~VvDa~~~~~~~~----~----~-~~~~~~adiivlNK~Dl~  132 (186)
                      .+..+.+++|.|..-...    .      ....++++++++|.........    .    + ......+.++|+||+|+.
T Consensus        47 ~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~D~~  126 (180)
T d1udxa2          47 EEERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLL  126 (180)
T ss_dssp             SSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTS
T ss_pred             CCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhhhhhhhcccccccccchhhhhhhhhccccccchhhhhhhhhhhhhh
Confidence            466789999999411000    0      1224688899999865421100    0    0 111245789999999999


Q ss_pred             CcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          133 SAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       133 ~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      ++  .+.+.+.+.++.  ...+++++||++|+|+++|++.|.+.++....
T Consensus       127 ~~--~~~~~~~~~~~~--~~~~~~~iSA~tg~gid~L~~~i~~~l~~~~~  172 (180)
T d1udxa2         127 EE--EAVKALADALAR--EGLAVLPVSALTGAGLPALKEALHALVRSTPP  172 (180)
T ss_dssp             CH--HHHHHHHHHHHT--TTSCEEECCTTTCTTHHHHHHHHHHHHHTSCC
T ss_pred             hH--HHHHHHHHHHHh--cCCeEEEEEcCCCCCHHHHHHHHHHHHhhcCC
Confidence            87  566666666654  35699999999999999999999999887643

>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=98.92  E-value=2.5e-10  Score=87.78  Aligned_cols=112  Identities=15%  Similarity=0.111  Sum_probs=71.3

Q ss_pred             hcCCcEEEEecCCCe-eEE--eeeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCcccc----c-
Q 029893           71 LFKADLLLCESGGDN-LAA--NFSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASAIGA----D-  138 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~-l~~--~~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~~~~----~-  138 (186)
                      .....+.||+|+|-. ...  ......+|++++|+|+.+|...+..    .......|-++++||+|+.+....    . 
T Consensus        67 ~~~~~~~~iDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~p~iivlNK~D~~~~~~~~~~~~~  146 (227)
T d1g7sa4          67 ETLPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYRTPFVVAANKIDRIHGWRVHEGRPF  146 (227)
T ss_dssp             GTCCEEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHHHHHTTCCEEEEEECGGGSTTCCCCTTCCH
T ss_pred             ccccccccccccceecccccchhcccccceEEEEEecccCcccchhHHHHHhhcCCCeEEEEEECccCCCchhhhhhHHH
Confidence            346679999999921 100  0122347999999999987653321    122355689999999999764210    0 


Q ss_pred             ---------------HHHHHHHHHhh----------------CCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          139 ---------------LAVMERDALRM----------------RDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       139 ---------------~~~~~~~l~~~----------------~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                                     ...+.+.....                ....+++++||++|.|+++|++.+....+.+-.
T Consensus       147 ~~~~~~~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~~~~~~  221 (227)
T d1g7sa4         147 METFSKQDIQVQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQYLR  221 (227)
T ss_dssp             HHHHTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHHCS
T ss_pred             HHhhhcchHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHHHHHHH
Confidence                           00111111110                123589999999999999999999887766544

>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=98.91  E-value=7.7e-10  Score=82.38  Aligned_cols=81  Identities=10%  Similarity=0.047  Sum_probs=60.0

Q ss_pred             CceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHh---hCCCCCEEEEeccCCCCHH
Q 029893           95 ADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGADLAVMERDALR---MRDGGPFIFAQVKHGLGVE  167 (186)
Q Consensus        95 ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~---~~p~a~i~~~Sa~~g~gi~  167 (186)
                      ++.+++++|+.++.....    .+......+.++|+||+|+.++  .+.+...+.+++   ..+..+++++||++|+|++
T Consensus       106 ~~~vi~viD~~~~~~~~~~~~~~~l~~~~~piivv~NK~D~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~SA~~~~gi~  183 (195)
T d1svia_         106 LKAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVIVIATKADKIPK--GKWDKHAKVVRQTLNIDPEDELILFSSETKKGKD  183 (195)
T ss_dssp             EEEEEEEEETTSCCCHHHHHHHHHHHHTTCCEEEEEECGGGSCG--GGHHHHHHHHHHHHTCCTTSEEEECCTTTCTTHH
T ss_pred             hhhhhhhhhccccccccccccccccccccCcceechhhccccCH--HHHHHHHHHHHHHhcccCCCCEEEEeCCCCCCHH
Confidence            478899999987643211    1122345688999999999876  555555554433   3577899999999999999


Q ss_pred             HHHHHHHHHH
Q 029893          168 EIVNHILQAW  177 (186)
Q Consensus       168 ~l~~~i~~~~  177 (186)
                      +++++|.+.+
T Consensus       184 el~~~i~~~l  193 (195)
T d1svia_         184 EAWGAIKKMI  193 (195)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998876

>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=98.89  E-value=4.1e-10  Score=85.09  Aligned_cols=102  Identities=15%  Similarity=0.160  Sum_probs=65.6

Q ss_pred             cEEEEecCCCe--eEEe-eeeecCceEEEEEeCCCCC-CCccC----CCCCCCc-eeEEEEecCCCCCcccccHHHH---
Q 029893           75 DLLLCESGGDN--LAAN-FSRELADYIIYIIDVSGGD-KIPRK----GGPGITQ-ADLLVINKTDLASAIGADLAVM---  142 (186)
Q Consensus        75 D~iiIEtsG~~--l~~~-~~~~~ad~~v~VvDa~~~~-~~~~~----~~~~~~~-adiivlNK~Dl~~~~~~~~~~~---  142 (186)
                      .+-+|+|+|-.  +... .....+|++|+|+|+.++. ..+..    ....+.. +-++++||+|+.++  .+....   
T Consensus        87 ~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~~i~~iIV~vNK~Dl~~~--~~~~~~~~~  164 (205)
T d2qn6a3          87 RISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDVVSK--EEALSQYRQ  164 (205)
T ss_dssp             EEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCCCEEEEEECGGGSCH--HHHHHHHHH
T ss_pred             EEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHcCCceeeeccccCCCccc--hHHHHHHHH
Confidence            47799999910  0000 1123579999999999874 22211    1111333 45777999999976  333322   


Q ss_pred             -HHHHHhhC-CCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          143 -ERDALRMR-DGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       143 -~~~l~~~~-p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                       ...++..+ ...|++++||++|.|+++|++.|..+.|
T Consensus       165 ~~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~ip  202 (205)
T d2qn6a3         165 IKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYIK  202 (205)
T ss_dssp             HHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             HHHHhccccCCCCeEEEEeCCCCCChHHHHHHHHhhCC
Confidence             22232222 3579999999999999999999998876

>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=98.83  E-value=6.9e-10  Score=83.07  Aligned_cols=103  Identities=17%  Similarity=0.185  Sum_probs=66.2

Q ss_pred             CcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCCCcc--C---CCCCCCce-eEEEEecCCCCCcccccHH----
Q 029893           74 ADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDKIPR--K---GGPGITQA-DLLVINKTDLASAIGADLA----  140 (186)
Q Consensus        74 ~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~~~~--~---~~~~~~~a-diivlNK~Dl~~~~~~~~~----  140 (186)
                      +-+.||+|+|-. ....  .....+|.+++|+|+.++...+.  .   ....+..+ -++++||+|+.++  ....    
T Consensus        78 ~~~~~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~~~~iiv~inK~D~~d~--~~~~~~~~  155 (195)
T d1kk1a3          78 RRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIELVDK--EKALENYR  155 (195)
T ss_dssp             EEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGSCH--HHHHHHHH
T ss_pred             eeEeeeccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHhcCccceeeeecccchhh--HHHHHHHH
Confidence            458899999910 0000  01235799999999998743221  1   11112233 4778999999976  3322    


Q ss_pred             HHHHHHHhhC-CCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          141 VMERDALRMR-DGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       141 ~~~~~l~~~~-p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .+.+.+...+ ..+|++++||++|+|+++|++.+.+++|
T Consensus       156 ~~~~~~~~~~~~~~~iIpiSA~~G~ni~~Ll~~I~~~iP  194 (195)
T d1kk1a3         156 QIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFIP  194 (195)
T ss_dssp             HHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             HHHHHhccccCCCCeEEEEECCCCCCHHHHHHHHHHHCc
Confidence            2333333332 3579999999999999999999988765

>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=98.83  E-value=1e-08  Score=75.23  Aligned_cols=107  Identities=14%  Similarity=0.216  Sum_probs=69.1

Q ss_pred             cCCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+..+.+.++.|..-..   ...+..++.+++|+|.++......         .....-..+.++|.||+|+.+.  ...
T Consensus        59 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~--~~~  136 (182)
T d1moza_          59 KNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA--LSA  136 (182)
T ss_dssp             TTEEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTC--CCH
T ss_pred             CCEEEEEEecccccccchhHHhhhccceeEEEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeeccccc--cCH
Confidence            46778899999931111   112235689999999987643211         1111223588999999999865  344


Q ss_pred             HHHHHHHH--hhC-CCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          140 AVMERDAL--RMR-DGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       140 ~~~~~~l~--~~~-p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      .++.+.+.  ... ...+++++||++|+|+++++++|.+.+.+.
T Consensus       137 ~~i~~~~~~~~~~~~~~~~~e~SA~~g~gv~e~~~~l~~~i~~~  180 (182)
T d1moza_         137 SEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEE  180 (182)
T ss_dssp             HHHHHHTTTTTCCSSCEEEEEEBGGGTBTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhCCCEEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            45544432  112 235799999999999999999999887653

>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=98.79  E-value=4.2e-09  Score=76.64  Aligned_cols=109  Identities=13%  Similarity=0.113  Sum_probs=68.7

Q ss_pred             cCCcEEEEecCCCeeEEe---eeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAAN---FSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~---~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ..+.+.+.++.|..--..   ..+..+|.+++|+|+++......         .....-..|.++|.||+|+.+...-..
T Consensus        46 ~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~  125 (168)
T d2gjsa1          46 EEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSV  125 (168)
T ss_dssp             EEEEEEEEECC-------CHHHHHTSCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCGGGCCSCH
T ss_pred             cccceeeeecccccccceecccchhhhhhhceeccccccccccccccccchhhcccccccceEEEeecccchhhhcchhH
Confidence            467888999999211011   12345899999999987532110         111122347899999999976532223


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      .+..+..+..  ..+++++||++|.|++++|+.+.+.+...+.
T Consensus       126 ~~~~~~~~~~--~~~~~e~Sak~~~~v~~~f~~l~~~i~~~~~  166 (168)
T d2gjsa1         126 DEGRACAVVF--DCKFIETSAALHHNVQALFEGVVRQIRLRRD  166 (168)
T ss_dssp             HHHHHHHHHH--TSEEEECBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhc--CCEEEEEeCCCCcCHHHHHHHHHHHHHHHhh
Confidence            3444444444  3689999999999999999999876655443

>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=98.76  E-value=1.4e-09  Score=79.23  Aligned_cols=106  Identities=15%  Similarity=0.201  Sum_probs=69.7

Q ss_pred             hcCCcEEEEecCCCeeEE-----e------e-eeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCCCc
Q 029893           71 LFKADLLLCESGGDNLAA-----N------F-SRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASA  134 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l~~-----~------~-~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~~~  134 (186)
                      .....+.+.++.|+....     .      . ....+|++++++|+.++......    .......+.++|+||+|+.++
T Consensus        45 ~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~ad~i~~~~~~~~~~~~~~~~~~~~l~~~~~pviiv~NK~Dl~~~  124 (171)
T d1mkya1          45 WYGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFLRKSTVDTILVANKAENLRE  124 (171)
T ss_dssp             ETTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEEEETTTCCCHHHHHHHHHHHHHTCCEEEEEESCCSHHH
T ss_pred             ccccccccccccceeeeeccccccccccccccccccCcEEEEeecccccccccccccccccccccccccccchhhhhhhh
Confidence            345678888999942110     0      0 12357899999998776432211    111124578999999999865


Q ss_pred             ccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          135 IGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       135 ~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                        .+ .+....+.+. +..+++++||++|.|+++|+++|.+.+++.
T Consensus       125 --~~-~~~~~~~~~~-~~~~~i~iSAk~g~gid~L~~~i~~~l~e~  166 (171)
T d1mkya1         125 --FE-REVKPELYSL-GFGEPIPVSAEHNINLDTMLETIIKKLEEK  166 (171)
T ss_dssp             --HH-HHTHHHHGGG-SSCSCEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             --hh-hHHHHHHHhc-CCCCeEEEecCCCCCHHHHHHHHHHhCCCC
Confidence              22 2233333333 345789999999999999999999988864

>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=98.72  E-value=1.2e-08  Score=73.47  Aligned_cols=106  Identities=14%  Similarity=0.096  Sum_probs=69.3

Q ss_pred             hcCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCccccc
Q 029893           71 LFKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      ..++.+.+.+++|..-.   .......++.+++++|+++......         .....-..+.++|.||+|+.+.  ..
T Consensus        43 ~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~--~~  120 (165)
T d1ksha_          43 HRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGA--LS  120 (165)
T ss_dssp             ETTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CC
T ss_pred             ccccceeeeecCcchhhhhHHHhhhhhhhcceeeeecccchhHHHHHHhhhhhhhhcccCCCceEEEEeccccccc--cC
Confidence            45788999999993210   1112345789999999877432110         0111123578999999999876  44


Q ss_pred             HHHHHHHHHh--h-CCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          139 LAVMERDALR--M-RDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       139 ~~~~~~~l~~--~-~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ..+....+..  . ....+++++||++|+|+++++++|.+.+.
T Consensus       121 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~i~  163 (165)
T d1ksha_         121 CNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDIS  163 (165)
T ss_dssp             HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhhcCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4444444321  1 23457999999999999999999887653

>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=98.71  E-value=1.4e-08  Score=73.93  Aligned_cols=103  Identities=19%  Similarity=0.157  Sum_probs=67.9

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .++.+.+.++.|....   ....+..+|.+++++|+++......         .....-..|.++|+||+|+.++  ...
T Consensus        58 ~~~~~~i~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~--~~~  135 (176)
T d1fzqa_          58 QGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTA--APA  135 (176)
T ss_dssp             TTEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTC--CCH
T ss_pred             CCeeEeEeeccccccchhHHHHHhhccceeEEeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEecccccc--ccH
Confidence            4677888888883110   1122345799999999987532210         1111123478999999999876  455


Q ss_pred             HHHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          140 AVMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       140 ~~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      ..+.+.+...   ....+++++||++|+|++++++|+.+.
T Consensus       136 ~~~~~~~~~~~~~~~~~~~~~~SA~tg~gv~e~~~~l~~~  175 (176)
T d1fzqa_         136 SEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKN  175 (176)
T ss_dssp             HHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHHHHHHhc
Confidence            5555444321   124579999999999999999998763

>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=98.70  E-value=1.2e-08  Score=72.96  Aligned_cols=99  Identities=16%  Similarity=0.223  Sum_probs=68.6

Q ss_pred             cCCcEEEEecCCCeeE-----Eee-------eeecCceEEEEEeCCCCCCCccC--CCCCCCceeEEEEecCCCCCcccc
Q 029893           72 FKADLLLCESGGDNLA-----ANF-------SRELADYIIYIIDVSGGDKIPRK--GGPGITQADLLVINKTDLASAIGA  137 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~-----~~~-------~~~~ad~~v~VvDa~~~~~~~~~--~~~~~~~adiivlNK~Dl~~~~~~  137 (186)
                      .+..+.+++|.|+...     ...       .+..+|++++|+|++++......  +......+.++++||+|+.+.  .
T Consensus        46 ~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~ii~v~d~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~~--~  123 (160)
T d1xzpa2          46 RGILFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRKILERIKNKRYLVVINKVDVVEK--I  123 (160)
T ss_dssp             TTEEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEEEEEEETTSCCCHHHHHHHHHHTTSSEEEEEEECSSCCC--C
T ss_pred             CCeeEEeccccccccCCccHHHHHHHHHHHHHHHhCCEEEEEEeCCCCcchhhhhhhhhcccccceeeeeeccccch--h
Confidence            4677889999994211     111       12347999999999886542211  111134468899999999987  5


Q ss_pred             cHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHH
Q 029893          138 DLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQ  175 (186)
Q Consensus       138 ~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~  175 (186)
                      ..+++..   ...+..+++++||++|.|+++|+++|.+
T Consensus       124 ~~~~~~~---~~~~~~~~~~vSA~~g~gi~~L~~~I~k  158 (160)
T d1xzpa2         124 NEEEIKN---KLGTDRHMVKISALKGEGLEKLEESIYR  158 (160)
T ss_dssp             CHHHHHH---HHTCSTTEEEEEGGGTCCHHHHHHHHHH
T ss_pred             hhHHHHH---HhCCCCcEEEEECCCCCCHHHHHHHHHh
Confidence            5554443   3456679999999999999999998865

>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=98.69  E-value=4.2e-08  Score=71.25  Aligned_cols=104  Identities=14%  Similarity=0.127  Sum_probs=63.8

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc--cC----------CCCCCCceeEEEEecCCCCCccc-
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP--RK----------GGPGITQADLLVINKTDLASAIG-  136 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~--~~----------~~~~~~~adiivlNK~Dl~~~~~-  136 (186)
                      ...+.+.+|+|..-.   .......++.+++++|.+......  ..          ....-..|.++|+||+|+.+... 
T Consensus        51 ~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~  130 (175)
T d1ky3a_          51 VATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKI  130 (175)
T ss_dssp             CEEEEEECCC----------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCC
T ss_pred             cccceeeccCCchhhhhHHHHHhhccceEEEEeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcc
Confidence            455678889993110   112234579999999997753211  00          01112347899999999986521 


Q ss_pred             ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          137 ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       137 ~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ...+...+..+ ..+..+++++||++|.|++++|+++.+..
T Consensus       131 v~~~~~~~~~~-~~~~~~~~e~SA~~g~gv~e~f~~l~~~~  170 (175)
T d1ky3a_         131 VSEKSAQELAK-SLGDIPLFLTSAKNAINVDTAFEEIARSA  170 (175)
T ss_dssp             SCHHHHHHHHH-HTTSCCEEEEBTTTTBSHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHH-HcCCCeEEEEeCCCCcCHHHHHHHHHHHH
Confidence            11233333333 34557899999999999999999987644

>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=98.69  E-value=1.2e-08  Score=74.26  Aligned_cols=104  Identities=16%  Similarity=0.193  Sum_probs=68.8

Q ss_pred             cCCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ....+.+.+++|..-..   ...+..++.+++|+|++.......         .....-..+.+++.||+|+.+.  ...
T Consensus        54 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~--~~~  131 (173)
T d1e0sa_          54 KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDA--MKP  131 (173)
T ss_dssp             TTEEEEEEEESCCGGGHHHHGGGTTTCCEEEEEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC--CCH
T ss_pred             cceeeEEecCCCcchhhhHHHhhhcccceEEEEEecccchhHHHHHHHHHHHhhhcccccceeeeeeeccccccc--ccH
Confidence            46788899999932111   112345799999999987543210         0111234588999999999875  344


Q ss_pred             HHHHHHH--HhhC-CCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          140 AVMERDA--LRMR-DGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       140 ~~~~~~l--~~~~-p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      .++...+  .... ...+++++||++|+|+++++++|.+.+
T Consensus       132 ~~i~~~~~~~~~~~~~~~~~e~SA~tg~gv~e~~~~l~~~~  172 (173)
T d1e0sa_         132 HEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNY  172 (173)
T ss_dssp             HHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhCCCEEEEeeCCCCcCHHHHHHHHHHhc
Confidence            4444443  2222 234789999999999999999998753

>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=98.65  E-value=2.8e-08  Score=73.05  Aligned_cols=104  Identities=13%  Similarity=0.118  Sum_probs=66.0

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc--cCC----------CCCCCceeEEEEecCCCCCcccc
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP--RKG----------GPGITQADLLVINKTDLASAIGA  137 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~--~~~----------~~~~~~adiivlNK~Dl~~~~~~  137 (186)
                      .+.+.+.+|+|..-   ..+.....+|.+++++|........  ..+          ...-..|.++|.||+|+.+.. .
T Consensus        50 ~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~~~-~  128 (184)
T d1vg8a_          50 LVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQ-V  128 (184)
T ss_dssp             EEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCC-S
T ss_pred             eEEEEeeecCCcccccccccccccCccEEEEeecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeecccccc-h
Confidence            56778889999311   0122234579999999997643211  000          011134789999999997652 2


Q ss_pred             cHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          138 DLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       138 ~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ..+.......+ ....+++++||++|.|++++++++.+..-
T Consensus       129 ~~~~~~~~~~~-~~~~~~~e~Sak~~~gI~e~f~~l~~~i~  168 (184)
T d1vg8a_         129 ATKRAQAWCYS-KNNIPYFETSAKEAINVEQAFQTIARNAL  168 (184)
T ss_dssp             CHHHHHHHHHH-TTSCCEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHH-hcCCeEEEEcCCCCcCHHHHHHHHHHHHH
Confidence            23333333333 34679999999999999999998876543

>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=98.64  E-value=1.3e-08  Score=73.72  Aligned_cols=105  Identities=17%  Similarity=0.186  Sum_probs=69.5

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--CC------CCCCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--KG------GPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~~------~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ....+-+.++.|..-.   .+..+..+|.+++|+|.++......  .+      ......+.++|.||+|+.++..-..+
T Consensus        50 ~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~v~~~  129 (167)
T d1z08a1          50 KRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQ  129 (167)
T ss_dssp             CEEEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHH
T ss_pred             ccceeeeeccCCcceecccchhhccCCceeEEEEeCCchhHHHhhhhhhhhcccccccccceeeeccccccccccccchH
Confidence            3577888999993211   1223345799999999987543210  00      01123467888999999765323345


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      +..+..++.  ..+++++||++|.|++++|+++.+.+-
T Consensus       130 e~~~~a~~~--~~~~~e~Sak~~~~v~e~F~~l~~~i~  165 (167)
T d1z08a1         130 EAESYAESV--GAKHYHTSAKQNKGIEELFLDLCKRMI  165 (167)
T ss_dssp             HHHHHHHHT--TCEEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHc--CCeEEEEecCCCcCHHHHHHHHHHHHh
Confidence            555555554  368999999999999999999887654

>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=98.63  E-value=3.2e-08  Score=72.14  Aligned_cols=107  Identities=15%  Similarity=0.150  Sum_probs=67.8

Q ss_pred             cCCcEEEEecCCCe-e---EEeeeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCccccc
Q 029893           72 FKADLLLCESGGDN-L---AANFSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l---~~~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      ......+.+..|.. .   ..+..+..+|.+++|+|.++.....         ......-..+.++|.||+|+.+...-.
T Consensus        51 ~~~~~~~~d~~~~~g~e~~~~~~~~~~~~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~  130 (172)
T d2g3ya1          51 ESATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVS  130 (172)
T ss_dssp             EEEEEEEECCTTTTHHHHHHHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSC
T ss_pred             ceeeeeeeccccccccccccccccccccceeeeeecccccchhhhhhhhhhhhhhccccCCceEEEEecccccccccccc
Confidence            35566777765410 1   0122345689999999998753211         011111235789999999997653223


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      .++..+..+..  ..+++++||++|.|++++++.+.+.+...
T Consensus       131 ~~~~~~~a~~~--~~~~~e~Sak~g~~i~~~f~~l~~~i~~r  170 (172)
T d2g3ya1         131 VSEGRACAVVF--DCKFIETSAAVQHNVKELFEGIVRQVRLR  170 (172)
T ss_dssp             HHHHHHHHHHH--TCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHc--CCeEEEEeCCCCcCHHHHHHHHHHHHHHc
Confidence            34444444444  36899999999999999999988876543

>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=98.60  E-value=5.4e-09  Score=75.62  Aligned_cols=104  Identities=18%  Similarity=0.140  Sum_probs=68.0

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--CCCCC-----CCceeEEEEecCCCCCcccccHHH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--KGGPG-----ITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~~~~~-----~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ..+.+.+.+|+|..-.   .+..+..++.+++|+|.++......  .+..+     -..+-++|.||+|+.++.....++
T Consensus        49 ~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~iilVgnK~Dl~~~~~v~~~~  128 (164)
T d1z2aa1          49 EDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPTALVQNKIDLLDDSCIKNEE  128 (164)
T ss_dssp             EEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCCEEEEEECGGGGGGCSSCHHH
T ss_pred             ceeeeeeeccCCccchhhhhhhhhccCceEEEEEeccchhhhhhcccccccccccCCCceEEEeeccCCcccceeeeehh
Confidence            3577888899993110   1122346899999999987543211  11000     134678899999997653223344


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ..+..++.+  .+++++||++|.|++++|+++.+.+
T Consensus       129 ~~~~~~~~~--~~~~e~Sak~g~~v~e~f~~l~~~~  162 (164)
T d1z2aa1         129 AEGLAKRLK--LRFYRTSVKEDLNVSEVFKYLAEKH  162 (164)
T ss_dssp             HHHHHHHHT--CEEEECBTTTTBSSHHHHHHHHHHH
T ss_pred             hHHHHHHcC--CEEEEeccCCCcCHHHHHHHHHHHH
Confidence            555555543  5899999999999999999887643

>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=98.60  E-value=2.8e-08  Score=72.19  Aligned_cols=107  Identities=16%  Similarity=0.098  Sum_probs=68.2

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc--CC------CCCCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR--KG------GPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~--~~------~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ..+.+.+.||+|-..   ..+..+..++.+++|+|.++......  .+      ...-..+.++|.||+|+.+......+
T Consensus        52 ~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~~v~~~  131 (171)
T d2ew1a1          52 EKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQ  131 (171)
T ss_dssp             EEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHH
T ss_pred             EEEEEEEEECCCchhhHHHHHHHHhccceEEEeeecccchhhhhhhhhhhhhcccccccccEEEEEeecccccccchhhh
Confidence            356788899999310   01223456899999999877532110  00      01123477889999998765323344


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHH-HHHHHh
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHIL-QAWEAS  180 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~-~~~~~~  180 (186)
                      +..+..+..  ..+++++||++|.|++++|.++. +.+.++
T Consensus       132 ~~~~~~~~~--~~~~~~~SAktg~gV~e~f~~l~~~l~~~~  170 (171)
T d2ew1a1         132 RAEEFSEAQ--DMYYLETSAKESDNVEKLFLDLACRLISEA  170 (171)
T ss_dssp             HHHHHHHHH--TCCEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhC--CCEEEEEccCCCCCHHHHHHHHHHHHHHhc
Confidence            444444444  35899999999999999988765 445443

>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=98.59  E-value=1.7e-08  Score=73.01  Aligned_cols=106  Identities=16%  Similarity=0.096  Sum_probs=69.3

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ....+-+.++.|-...   .+..+..+|.+++|+|.++.....         ......-..|.++|.||+|+.+......
T Consensus        49 ~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~  128 (167)
T d1kaoa_          49 SPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSS  128 (167)
T ss_dssp             EEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCH
T ss_pred             ceEeeccccCCCccccccchHHHhhcccceeeeeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhcccchH
Confidence            3566778888883111   111234589999999998743211         0011112347899999999976532333


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ++.....++.+  .+++++||++|.|++++|+.+.+.+..
T Consensus       129 ~~~~~~~~~~~--~~~~e~Sak~g~~i~e~f~~i~~~i~~  166 (167)
T d1kaoa_         129 SEGRALAEEWG--CPFMETSAKSKTMVDELFAEIVRQMNY  166 (167)
T ss_dssp             HHHHHHHHHHT--SCEEEECTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcC--CeEEEECCCCCcCHHHHHHHHHHHHcc
Confidence            44444445543  689999999999999999999887654

>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=98.57  E-value=4.7e-09  Score=76.84  Aligned_cols=86  Identities=15%  Similarity=0.159  Sum_probs=55.1

Q ss_pred             cCceEEEEEeCCCCCCC-----------cc----CCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhh--CCCCCEE
Q 029893           94 LADYIIYIIDVSGGDKI-----------PR----KGGPGITQADLLVINKTDLASAIGADLAVMERDALRM--RDGGPFI  156 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~-----------~~----~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~--~p~a~i~  156 (186)
                      .+|++++|+|+......           ..    .+......+.++|+||+|+++........+...+...  .+..+++
T Consensus        81 ~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~~~~p~iiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (184)
T d2cxxa1          81 NIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNVQEVINFLAEKFEVPLSEIDKVFI  160 (184)
T ss_dssp             GCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCHHHHHHHHHHHHTCCGGGHHHHEE
T ss_pred             ccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHHcCCCEEEEEeeeehhhhHHHHHHHHHHHhcccccccCCeEE
Confidence            46899999998653210           00    0111235678999999999865211222222222211  1234689


Q ss_pred             EEeccCCCCHHHHHHHHHHHHHH
Q 029893          157 FAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       157 ~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      ++||++|.|+++|+++|.+.+|+
T Consensus       161 ~vSA~~g~gi~~L~~~i~~~l~e  183 (184)
T d2cxxa1         161 PISAKFGDNIERLKNRIFEVIRE  183 (184)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHccC
Confidence            99999999999999999998885

>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=98.56  E-value=1.9e-08  Score=72.44  Aligned_cols=104  Identities=22%  Similarity=0.221  Sum_probs=69.2

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--CC------CCCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--KG------GPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~~------~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+-+.++.|....   .+..+..++.+++|+|..+......  .+      ...-..+.++|.||+|+.+......++
T Consensus        48 ~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~  127 (164)
T d1yzqa1          48 TIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEE  127 (164)
T ss_dssp             EEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHH
T ss_pred             ceeeeecccCCcchhccchHHHhhccceEEEeeccccccchhhhHhhHHHHHHhcCCCceEEEEecccchhhhhhhhHHH
Confidence            456668888883110   1112345799999999987543211  00      001235788999999997653344455


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ..+..++.  .++++++||++|.|+++++++|.+.+|
T Consensus       128 ~~~~~~~~--~~~~~e~SAk~g~~v~e~f~~i~~~l~  162 (164)
T d1yzqa1         128 GERKAKEL--NVMFIETSAKAGYNVKQLFRRVAAALP  162 (164)
T ss_dssp             HHHHHHHT--TCEEEECCTTTCTTHHHHHHHHHHHSC
T ss_pred             HHHHHHHc--CCEEEEecCCCCcCHHHHHHHHHHhhC
Confidence            55555554  368999999999999999999988765

>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=98.56  E-value=1.7e-07  Score=68.67  Aligned_cols=104  Identities=18%  Similarity=0.170  Sum_probs=66.0

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ...+-+.+|+|..-   ..+..+..+|.+++|+|.+......         ......-..+.++|.||+|+........+
T Consensus        63 ~~~~~i~dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~~  142 (186)
T d2f7sa1          63 KVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNER  142 (186)
T ss_dssp             EEEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHH
T ss_pred             eEEeccccCCcchhhHHHHHHHHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhhhcchHH
Confidence            34566777777210   0011234579999999987743211         11111123467899999999765322334


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      +..+..++.  ..+++++||++|.|++++++++.+...
T Consensus       143 e~~~~~~~~--~~~~~e~Sak~~~~i~e~f~~l~~~i~  178 (186)
T d2f7sa1         143 QARELADKY--GIPYFETSAATGQNVEKAVETLLDLIM  178 (186)
T ss_dssp             HHHHHHHHT--TCCEEEEBTTTTBTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            444455554  368999999999999999999887654

>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=98.56  E-value=3.9e-08  Score=71.31  Aligned_cols=104  Identities=16%  Similarity=0.124  Sum_probs=67.5

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc--C------CCCCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR--K------GGPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~--~------~~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ...+-|.+|+|..- .  .+..+..+|.+|+|+|..+......  .      ....-..+.+++.||+|+.+......++
T Consensus        53 ~~~l~~wDt~G~e~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~v~~~~  132 (169)
T d3raba_          53 RIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSER  132 (169)
T ss_dssp             EEEEEEEEECCSGGGHHHHHTTTTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGCCSCHHH
T ss_pred             eEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeecccccccccchhh
Confidence            45677899999310 0  1112345799999999987533211  0      0111234678888999987653222344


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ..+..++.  ..+++++||++|.|++++|+++.+...
T Consensus       133 ~~~~~~~~--~~~~~e~Sak~g~gv~e~f~~l~~~i~  167 (169)
T d3raba_         133 GRQLADHL--GFEFFEASAKDNINVKQTFERLVDVIC  167 (169)
T ss_dssp             HHHHHHHH--TCEEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             hHHHHHHc--CCEEEEecCCCCcCHHHHHHHHHHHHh
Confidence            44444444  368999999999999999999987653

>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=98.55  E-value=5.7e-08  Score=70.45  Aligned_cols=105  Identities=13%  Similarity=0.130  Sum_probs=67.9

Q ss_pred             CCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCc--cC-------CCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIP--RK-------GGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~--~~-------~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      .+.+-+.++.|..-..   +.....+|.+++|+|.+......  ..       ....-..+.++|.||+|+........+
T Consensus        52 ~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~v~~~  131 (171)
T d2erya1          52 AARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQE  131 (171)
T ss_dssp             EEEEEEEECC----CCHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTSCSSCHH
T ss_pred             ccccccccccccccccccccccccccceEEEeeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhhccchHH
Confidence            4667788888821100   11223579999999988753211  00       111123578899999999765323344


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEA  179 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~  179 (186)
                      +..+..++.+  .+++++||++|.|++++|..+.+.+..
T Consensus       132 ~~~~~~~~~~--~~~~e~Sak~~~~i~e~f~~l~~~i~k  168 (171)
T d2erya1         132 EGQQLARQLK--VTYMEASAKIRMNVDQAFHELVRVIRK  168 (171)
T ss_dssp             HHHHHHHHTT--CEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcC--CEEEEEcCCCCcCHHHHHHHHHHHHHH
Confidence            5555555543  589999999999999999999887753

>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=98.55  E-value=1.2e-07  Score=68.57  Aligned_cols=105  Identities=12%  Similarity=0.140  Sum_probs=67.6

Q ss_pred             cCCcEEEEecCCCeeEEee---eeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~~---~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      .+..+.+.++.|.......   ....++.+++++|.++......         ........+.++|+||+|+...  ...
T Consensus        57 ~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~--~~~  134 (177)
T d1zj6a1          57 NNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC--MTV  134 (177)
T ss_dssp             TTEEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC--CCH
T ss_pred             cceEEEEeccccccccccchhhhhccceeeeeecccccccchhhhhhhhhhhhhcccccceEEEEEEEccccccc--CcH
Confidence            3567777777772111111   1224688999999876543211         1122235589999999999766  444


Q ss_pred             HHHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          140 AVMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       140 ~~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .+........   ....+++++||++|+|+++++++|.+.++
T Consensus       135 ~~i~~~~~~~~~~~~~~~~~~~Sa~tg~Gi~e~~~~L~~~lk  176 (177)
T d1zj6a1         135 AEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRLK  176 (177)
T ss_dssp             HHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhhHhcCCEEEEEeCCCCCCHHHHHHHHHHHhC
Confidence            4454444321   23468999999999999999999988753

>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=98.55  E-value=3.8e-08  Score=71.69  Aligned_cols=108  Identities=16%  Similarity=0.090  Sum_probs=71.0

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc--cCC-------CCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP--RKG-------GPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~--~~~-------~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ..+.+-+.++.|..-.   .+..+..+|.+++|+|.+......  ..+       ...-..+.++|.||+|+.+......
T Consensus        52 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~~~~  131 (173)
T d2fn4a1          52 IPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPR  131 (173)
T ss_dssp             EEEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCH
T ss_pred             eeeeeeccccccccccccccchhhccceeeeeecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechhhccccch
Confidence            3567778899993110   111234579999999998753211  011       1112347899999999976532333


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      ++.....++.  ..+++++||++|.|++++|+.+.+.+...+
T Consensus       132 ~~~~~~~~~~--~~~~~e~Sak~g~gv~e~f~~l~~~i~k~~  171 (173)
T d2fn4a1         132 SEASAFGASH--HVAYFEASAKLRLNVDEAFEQLVRAVRKYQ  171 (173)
T ss_dssp             HHHHHHHHHT--TCEEEECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             hhhhHHHHhc--CCEEEEEeCCCCcCHHHHHHHHHHHHHHHh
Confidence            4444444443  468999999999999999999998876544

>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=98.53  E-value=5.3e-08  Score=70.51  Aligned_cols=103  Identities=17%  Similarity=0.169  Sum_probs=66.4

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--C--------CCCCCCceeEEEEecCCCCCccccc
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--K--------GGPGITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~--------~~~~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      ..+.+-+.++.|...-   .+..+..+|++++|+|+++.+....  .        ....-..|.++|.||+|+.++....
T Consensus        48 ~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~v~  127 (171)
T d2erxa1          48 SICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQ  127 (171)
T ss_dssp             EEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSC
T ss_pred             ccceeccccccccccccccccccccceeEEEEEeecccccchhcccchhhhhhhhhccCCCCcEEEEeeccccccccccc
Confidence            3567788899993110   1112345899999999987432110  0        0111234779999999997653223


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      .++..+..++.+  .+++++||++|.|++++|+.+.+.
T Consensus       128 ~~e~~~~~~~~~--~~~~e~Sak~~~~v~e~f~~l~~~  163 (171)
T d2erxa1         128 SSEAEALARTWK--CAFMETSAKLNHNVKELFQELLNL  163 (171)
T ss_dssp             HHHHHHHHHHHT--CEEEECBTTTTBSHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcC--CeEEEEcCCCCcCHHHHHHHHHHH
Confidence            344555455543  689999999999999999988764

>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=98.53  E-value=2.8e-08  Score=71.90  Aligned_cols=104  Identities=13%  Similarity=0.093  Sum_probs=67.0

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--C------CCCCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--K------GGPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~------~~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ...+.+.+++|..-.   ....+..++.+++++|.+.......  .      ....-..+.++|.||+|+.+......++
T Consensus        52 ~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~  131 (167)
T d1z0ja1          52 LHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERD  131 (167)
T ss_dssp             EEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHH
T ss_pred             ccceeeeecCCchhhhHHHHHHHhhccceEEEeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhccccchhHHH
Confidence            445567788882100   1112345799999999876432110  0      0111345788999999997653233344


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ..+..++.  ..+++++||++|.|++++|.++.+.+|
T Consensus       132 ~~~~~~~~--~~~~~e~SAk~~~nV~e~f~~l~~~i~  166 (167)
T d1z0ja1         132 AKDYADSI--HAIFVETSAKNAININELFIEISRRIP  166 (167)
T ss_dssp             HHHHHHHT--TCEEEECBTTTTBSHHHHHHHHHHHCC
T ss_pred             HHHHHHHc--CCEEEEEecCCCCCHHHHHHHHHHhCC
Confidence            44444444  468999999999999999999987654

>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=98.52  E-value=2.4e-08  Score=73.34  Aligned_cols=105  Identities=20%  Similarity=0.225  Sum_probs=67.2

Q ss_pred             CCcEEEEecCCCeeEE--------ee--eeecCceEEEEEeCCCCCCCcc-------------CCCCCCCceeEEEEecC
Q 029893           73 KADLLLCESGGDNLAA--------NF--SRELADYIIYIIDVSGGDKIPR-------------KGGPGITQADLLVINKT  129 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~--------~~--~~~~ad~~v~VvDa~~~~~~~~-------------~~~~~~~~adiivlNK~  129 (186)
                      +..+.+++|+|..-..        .+  ....++.++++++....+....             ........+.++|+||+
T Consensus        48 ~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~  127 (185)
T d1lnza2          48 GRSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKM  127 (185)
T ss_dssp             SCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECT
T ss_pred             CcEEEEecCCCcccCchHHHHHHHHHHHHHHHhhhhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhcccc
Confidence            4578899999931000        00  1123577777777654332110             01122456789999999


Q ss_pred             CCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          130 DLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       130 Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      |+.+.  .  +......+......|++++||++|.|+++|++++.+.+++..
T Consensus       128 Dl~~~--~--~~~~~~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~L~~~p  175 (185)
T d1lnza2         128 DMPEA--A--ENLEAFKEKLTDDYPVFPISAVTREGLRELLFEVANQLENTP  175 (185)
T ss_dssp             TSTTH--H--HHHHHHHHHCCSCCCBCCCSSCCSSTTHHHHHHHHHHHTSCC
T ss_pred             chHhH--H--HHHHHHHHHhccCCcEEEEECCCCCCHHHHHHHHHHhhhhCC
Confidence            99865  2  222223334555679999999999999999999999886543

>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=98.51  E-value=1.1e-08  Score=76.91  Aligned_cols=107  Identities=11%  Similarity=0.095  Sum_probs=68.3

Q ss_pred             hcCCcEEEEecCCCe--eEEe-eeeecCceEEEEEeCCCCCCCccC----CCCCCCc-eeEEEEecCCCCCcccccHHHH
Q 029893           71 LFKADLLLCESGGDN--LAAN-FSRELADYIIYIIDVSGGDKIPRK----GGPGITQ-ADLLVINKTDLASAIGADLAVM  142 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~--l~~~-~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~-adiivlNK~Dl~~~~~~~~~~~  142 (186)
                      ..+..+-+++|+|-.  +... .....+|++++|+|+.+|...+..    +...+.. +.++++||+|++++. ...+.+
T Consensus        63 ~~~~~~~~iDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~QT~~~~~~a~~~~~~~iIv~iNK~D~~~~~-~~~~~i  141 (196)
T d1d2ea3          63 TAARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQIGVEHVVVYVNKADAVQDS-EMVELV  141 (196)
T ss_dssp             CSSCEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCCEEEEEECGGGCSCH-HHHHHH
T ss_pred             eceeeEEeecCcchHHHHHHHHHHHhhcCeEEEEEEcCCCCchhHHHHHHHHHHhcCCcEEEEEecccccccH-HHHHHH
Confidence            346788999999920  0000 112357999999999998654321    1112333 456779999998652 223333


Q ss_pred             HH----HHHhhC---CCCCEEEEeccCC----------CCHHHHHHHHHHHHH
Q 029893          143 ER----DALRMR---DGGPFIFAQVKHG----------LGVEEIVNHILQAWE  178 (186)
Q Consensus       143 ~~----~l~~~~---p~a~i~~~Sa~~g----------~gi~~l~~~i~~~~~  178 (186)
                      ..    .+....   ..+|++++||++|          .|+.+|++.+.++.|
T Consensus       142 ~~~i~~~l~~~~~~~~~~pii~iSa~~g~~~~~~~~~~~~~~~Lldai~~~iP  194 (196)
T d1d2ea3         142 ELEIRELLTEFGYKGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYIP  194 (196)
T ss_dssp             HHHHHHHHHHTTSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHhCCCcccCEEEEEEccccccccCcccccCCHHHHHHHHHhhCC
Confidence            33    333332   2478999999998          599999999887765

>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=98.50  E-value=6.9e-08  Score=70.20  Aligned_cols=107  Identities=16%  Similarity=0.170  Sum_probs=63.4

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--------CCCCCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--------KGGPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--------~~~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ...+-|.+|+|...-   .+..+..+|.+++|+|.++......        ........+-++|.||.|+........++
T Consensus        54 ~~~l~i~D~~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~~~~~~~  133 (173)
T d2fu5c1          54 RIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKER  133 (173)
T ss_dssp             EEEEEEEEC---------CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHH
T ss_pred             EEEEEEEECCCchhhHHHHHHhccCCCEEEEEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccchhhcccHHHH
Confidence            456778999993110   1222345799999999987532110        00112345789999999998753333344


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      .....+..  ..+++++||++|+|++++|+++.+.+..-+
T Consensus       134 ~~~~~~~~--~~~~~e~Sa~~g~gv~e~f~~l~~~i~~k~  171 (173)
T d2fu5c1         134 GEKLALDY--GIKFMETSAKANINVENAFFTLARDIKAKM  171 (173)
T ss_dssp             HHHHHHHH--TCEEEECCC---CCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhc--CCEEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            44444443  479999999999999999999998876544

>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=98.50  E-value=5.2e-08  Score=70.68  Aligned_cols=104  Identities=12%  Similarity=0.108  Sum_probs=68.3

Q ss_pred             cCCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc--CC-------CCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR--KG-------GPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~--~~-------~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ..+.+.+.++.|..-..   +..+..+|.+++|+|..+......  .+       ...-..+.++|.||+|+.+...-..
T Consensus        50 ~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~~~~~v~~  129 (168)
T d1u8za_          50 EEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSV  129 (168)
T ss_dssp             EEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCH
T ss_pred             ccccccccccccccchhhhhhhcccccceeEEEeeccchhhhhhHHHHHHHHHHhhCCCCCcEEEEeccccccccccccH
Confidence            45778889999921100   112345799999999987533210  11       1112347889999999976432234


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ++..+..++.+  .+++++||++|.|++++|+++.+.+
T Consensus       130 ~~~~~~~~~~~--~~~~e~Sak~g~gv~e~f~~l~~~i  165 (168)
T d1u8za_         130 EEAKNRADQWN--VNYVETSAKTRANVDKVFFDLMREI  165 (168)
T ss_dssp             HHHHHHHHHHT--CEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcC--CeEEEEcCCCCcCHHHHHHHHHHHH
Confidence            55555556554  6899999999999999999887665

>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=98.47  E-value=4.7e-08  Score=70.58  Aligned_cols=104  Identities=14%  Similarity=0.047  Sum_probs=67.9

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ..+.+-+.+|.|..--   ....+..+|.+++|+|.++......         .....-..+.++|.||+|+.++..-..
T Consensus        50 ~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~r~v~~  129 (167)
T d1xtqa1          50 QEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISY  129 (167)
T ss_dssp             EEEEEEEEECCCCCTTCCCCGGGTSSCCEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCGGGCCSCH
T ss_pred             EEEEeeecccccccccccccchhhhhhhhhhhhcccchhhhhhhhhhhhhhhhhcccccccceeeeccccccccccchhH
Confidence            3567778899993210   1122345799999999987643211         111122357899999999976532233


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ++..+..++.+  .+++++||++|.|++++|+.+.+..
T Consensus       130 ~~~~~~a~~~~--~~~~e~Sak~~~~v~~~f~~li~~~  165 (167)
T d1xtqa1         130 EEGKALAESWN--AAFLESSAKENQTAVDVFRRIILEA  165 (167)
T ss_dssp             HHHHHHHHHHT--CEEEECCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcC--CEEEEEecCCCCCHHHHHHHHHHHh
Confidence            44555555553  6899999999999999999876543

>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=98.47  E-value=3.1e-08  Score=71.97  Aligned_cols=108  Identities=13%  Similarity=0.050  Sum_probs=71.2

Q ss_pred             cCCcEEEEecCCCeeEE----------e--eeeecCceEEEEEeCCCCCCCccCC---CCCCCceeEEEEecCCCCCccc
Q 029893           72 FKADLLLCESGGDNLAA----------N--FSRELADYIIYIIDVSGGDKIPRKG---GPGITQADLLVINKTDLASAIG  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~----------~--~~~~~ad~~v~VvDa~~~~~~~~~~---~~~~~~adiivlNK~Dl~~~~~  136 (186)
                      ....++.+.+.|.....          .  .....+++++++.|+.+.......+   ...-..+.++|+||+|..... 
T Consensus        51 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~~~~~~~~~~~~l~~~~~~~i~v~~k~d~~~~~-  129 (179)
T d1egaa1          51 GAYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTRWTPDDEMVLNKLREGKAPVILAVNKVDNVQEK-  129 (179)
T ss_dssp             TTEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEEEEEEEETTCCCHHHHHHHHHHHSSSSCEEEEEESTTTCCCH-
T ss_pred             CCceeEeecCCCceecchhhhhhhhhhccccchhhcceeEEEEecCccchhHHHHHHHhhhccCceeeeeeeeeccchh-
Confidence            46677888888842110          0  0112357778888877643321111   111234679999999988763 


Q ss_pred             ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          137 ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       137 ~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      ..+....+.+....+..+++++||++|+|+++|+++|.+++|++
T Consensus       130 ~~~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~lpe~  173 (179)
T d1egaa1         130 ADLLPHLQFLASQMNFLDIVPISAETGLNVDTIAAIVRKHLPEA  173 (179)
T ss_dssp             HHHHHHHHHHHTTSCCSEEEECCTTTTTTHHHHHHHHHTTCCBC
T ss_pred             hhhhhHhhhhhhhcCCCCEEEEeCcCCCCHHHHHHHHHHhCCCC
Confidence            33444455556656778999999999999999999999988764

>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=98.46  E-value=1.2e-07  Score=70.28  Aligned_cols=108  Identities=19%  Similarity=0.153  Sum_probs=71.3

Q ss_pred             cCCcEEEEecCCCe-eE--EeeeeecCceEEEEEeCCCCCCCcc--------CCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDN-LA--ANFSRELADYIIYIIDVSGGDKIPR--------KGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~--~~~~~~~ad~~v~VvDa~~~~~~~~--------~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ..+.+-|.+|+|-. ..  .+..+..++.+++|+|++.......        .....-..+.++|.||.|+.+......+
T Consensus        53 ~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~  132 (194)
T d2bcgy1          53 KTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYD  132 (194)
T ss_dssp             EEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHH
T ss_pred             EEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEeccccccccchhHH
Confidence            45778889999931 00  1223356799999999986432110        0011123478999999999876433444


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      ......+..  ..+++++||++|.|++++|+++.+.+....
T Consensus       133 ~~~~~~~~~--~~~~~e~SAk~g~gi~e~f~~l~~~i~~~~  171 (194)
T d2bcgy1         133 VAKEFADAN--KMPFLETSALDSTNVEDAFLTMARQIKESM  171 (194)
T ss_dssp             HHHHHHHHT--TCCEEECCTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             HHhhhhhcc--CcceEEEecCcCccHHHHHHHHHHHHHHHh
Confidence            444444433  468999999999999999999987766543

>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=98.46  E-value=1.9e-07  Score=67.62  Aligned_cols=105  Identities=15%  Similarity=0.108  Sum_probs=70.1

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ....+-+.++.|....   .+..+..+|.+++|+|.++......         +.......+-+++.||+|+.....-..
T Consensus        50 ~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~llv~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~v~~  129 (169)
T d1x1ra1          50 QWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTR  129 (169)
T ss_dssp             EEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCH
T ss_pred             ccccccccccccccccccchhhhhhhccEEEEecccccchhhhccchhhHHHHhhccccCccEEEEecccchhhhceeeh
Confidence            3567778899993110   1112345899999999987532110         111123457789999999987632334


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCC-CHHHHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGL-GVEEIVNHILQAWE  178 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~-gi~~l~~~i~~~~~  178 (186)
                      ++..+..++.+  ++++++||++|. |++++|..+.+.+.
T Consensus       130 e~~~~~~~~~~--~~~~e~Sak~~~~nV~~~F~~l~~~i~  167 (169)
T d1x1ra1         130 DQGKEMATKYN--IPYIETSAKDPPLNVDKTFHDLVRVIR  167 (169)
T ss_dssp             HHHHHHHHHHT--CCEEEEBCSSSCBSHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHcC--CEEEEEcCCCCCcCHHHHHHHHHHHHH
Confidence            55666666664  689999999986 99999998887553

>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=98.45  E-value=3e-07  Score=66.40  Aligned_cols=103  Identities=20%  Similarity=0.165  Sum_probs=68.4

Q ss_pred             CCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc--C------CCCCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR--K------GGPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~--~------~~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+-|.+|+|..- .  .+.....+|.+++|+|.++......  .      .......+.++|.||+|+.+......++
T Consensus        55 ~~~l~i~Dt~G~e~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~~v~~~~  134 (170)
T d2g6ba1          55 KVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKRED  134 (170)
T ss_dssp             EEEEEEEECCCC--------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHH
T ss_pred             EEEEEEEECCCchhhHHHHHHhhcCCceeEEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechhhcccccHHH
Confidence            46677899999311 0  1222345799999999987542110  0      0111345789999999998763333444


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      .....+..+  ++++++||++|.|++++++++.+.+
T Consensus       135 ~~~~~~~~~--~~~~e~Sak~g~gi~e~f~~l~~~i  168 (170)
T d2g6ba1         135 GEKLAKEYG--LPFMETSAKTGLNVDLAFTAIAKEL  168 (170)
T ss_dssp             HHHHHHHHT--CCEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHcC--CEEEEEeCCCCcCHHHHHHHHHHHc
Confidence            555555543  6999999999999999999998765

>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=98.45  E-value=1.3e-07  Score=68.23  Aligned_cols=105  Identities=13%  Similarity=0.090  Sum_probs=67.6

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--C-------CCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--K-------GGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~-------~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ....+-+.++.|...-   .+..+..+|.+++|+|.++......  .       ....-..+.++|.||+|+........
T Consensus        49 ~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~~~~  128 (167)
T d1c1ya_          49 QQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGK  128 (167)
T ss_dssp             CEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCH
T ss_pred             eEEEeccccccCcccccccccccccccceeEEeeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcccccccch
Confidence            3566777888882110   1122345899999999987532111  0       01112347899999999976532333


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      +......++ ....+++++||++|+|++++|+++.+.+
T Consensus       129 ~~~~~~~~~-~~~~~~~e~Sak~g~gv~e~F~~l~~~i  165 (167)
T d1c1ya_         129 EQGQNLARQ-WCNCAFLESSAKSKINVNEIFYDLVRQI  165 (167)
T ss_dssp             HHHHHHHHH-TTSCEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             hHHHHHHHH-hCCCEEEEEcCCCCcCHHHHHHHHHHHh
Confidence            444444444 3457999999999999999999887654

>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=98.45  E-value=3.8e-08  Score=71.60  Aligned_cols=104  Identities=12%  Similarity=-0.052  Sum_probs=68.6

Q ss_pred             hcCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--CCCC-----CCCceeEEEEecCCCCCcccccHH
Q 029893           71 LFKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--KGGP-----GITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~~~~-----~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ...+.+.+.+|+|...-   .+..+..++.+++|+|.++......  .+..     .-..+.++|.||+|+....  ..+
T Consensus        49 ~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~--~~~  126 (170)
T d1i2ma_          49 RGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRK--VKA  126 (170)
T ss_dssp             TCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEEEEETTSGGGGTTHHHHHHHHHHHHCSCCEEEEEECCCCSCSC--CTT
T ss_pred             cccccccccccccccccceecchhcccccchhhccccccccccchhHHHHHHHhhccCCCceeeecchhhhhhhh--hhh
Confidence            34678899999992110   1122345799999999988643211  0000     0135789999999998652  222


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      +.....+.  ...+++++||++|.|+++++++|.+.+.
T Consensus       127 ~~~~~~~~--~~~~~~e~Sak~~~~v~e~f~~l~~~l~  162 (170)
T d1i2ma_         127 KSIVFHRK--KNLQYYDISAKSNYNFEKPFLWLARKLI  162 (170)
T ss_dssp             TSHHHHSS--CSSEEEEEBTTTTBTTTHHHHHHHHHHH
T ss_pred             HHHHHHHH--cCCEEEEEeCCCCCCHHHHHHHHHHHHc
Confidence            22223332  3568999999999999999999987664

>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=98.43  E-value=1.7e-07  Score=67.39  Aligned_cols=103  Identities=17%  Similarity=0.080  Sum_probs=67.5

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ....+.+.|+.|-..-   .+..+..++.+++|+|+........         .....-..|.++|.||.|+.+.  ...
T Consensus        45 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~--~~~  122 (164)
T d1zd9a1          45 GNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGA--LDE  122 (164)
T ss_dssp             TTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTC--CCH
T ss_pred             eeEEEEEeeccccccccccccccccccchhhcccccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccchh--hhH
Confidence            4567888999992110   1112345799999999976533110         0111123578999999999865  445


Q ss_pred             HHHHHHHHhh---CCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          140 AVMERDALRM---RDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       140 ~~~~~~l~~~---~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      .++.+.+...   ....+++++||++|+|+++++++|.++
T Consensus       123 ~~i~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~~~~l~~~  162 (164)
T d1zd9a1         123 KELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQH  162 (164)
T ss_dssp             HHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhCCCEEEEEeCcCCcCHHHHHHHHHHc
Confidence            5555444321   235689999999999999999999875

>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=98.42  E-value=2.6e-08  Score=71.29  Aligned_cols=97  Identities=21%  Similarity=0.249  Sum_probs=64.5

Q ss_pred             hcCCcEEEEecCCCeeEEe-----------eeeecCceEEEEEeCCCCCCCcc--CC---C--CCCCceeEEEEecCCCC
Q 029893           71 LFKADLLLCESGGDNLAAN-----------FSRELADYIIYIIDVSGGDKIPR--KG---G--PGITQADLLVINKTDLA  132 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l~~~-----------~~~~~ad~~v~VvDa~~~~~~~~--~~---~--~~~~~adiivlNK~Dl~  132 (186)
                      ..+..+.+++++|..-...           .....+|++++++|+........  .+   .  ..-..+.++|+||+||.
T Consensus        46 ~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~iilv~NK~Dl~  125 (161)
T d2gj8a1          46 IDGMPLHIIDTAGLREASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKADIT  125 (161)
T ss_dssp             ETTEEEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSEEEEEEETTTCCCCSHHHHCHHHHHHSCTTCCEEEEEECHHHH
T ss_pred             ccCceeeeccccccccccccchhHHHHHHHHHHHhccccceeeccccccchhhhhhhhhhhhhcccccceeeccchhhhh
Confidence            3466788899999421100           11235799999999987643211  01   0  01245789999999997


Q ss_pred             CcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          133 SAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       133 ~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      ++. ..+       ++ .+..+++++||++|.|+++|+++|.+.
T Consensus       126 ~~~-~~~-------~~-~~~~~~~~iSAk~~~gi~~L~~~l~~~  160 (161)
T d2gj8a1         126 GET-LGM-------SE-VNGHALIRLSARTGEGVDVLRNHLKQS  160 (161)
T ss_dssp             CCC-CEE-------EE-ETTEEEEECCTTTCTTHHHHHHHHHHH
T ss_pred             hhH-HHH-------HH-hCCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            652 111       11 245699999999999999999999874

>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=98.42  E-value=1.5e-07  Score=67.88  Aligned_cols=103  Identities=17%  Similarity=0.126  Sum_probs=67.7

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--C------CCCCCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--K------GGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~------~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ..+.+.+.+++|...-   .......+|.+++|+|.++......  .      ....-..+.+++.||+|+.+......+
T Consensus        51 ~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~  130 (166)
T d1z0fa1          51 QKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYE  130 (166)
T ss_dssp             EEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHH
T ss_pred             EEEEEEEeccCCchhHHHHHHHHhcCCcEEEEEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccchhhcccHHH
Confidence            3567888999992110   0112345799999999987532110  0      011223478889999998765333344


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      +..+..++.  ..+++++||++|.|++++|+.+.+.
T Consensus       131 ~~~~~~~~~--~~~~~e~Saktg~~v~e~f~~i~~~  164 (166)
T d1z0fa1         131 EAKQFAEEN--GLLFLEASAKTGENVEDAFLEAAKK  164 (166)
T ss_dssp             HHHHHHHHT--TCEEEECCTTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHHH
Confidence            555555554  4699999999999999999988764

>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=98.41  E-value=2.1e-07  Score=66.99  Aligned_cols=103  Identities=17%  Similarity=0.170  Sum_probs=65.9

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc--cCC-------CCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP--RKG-------GPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~--~~~-------~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ...+-+.++.|...-   .+..+..++.+++|+|.++.....  ..+       ...-..+.++|.||+|+.+.. ...+
T Consensus        50 ~~~l~~~d~~~~~~~~~~~~~~~~~~~~~iiv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~-~~~~  128 (166)
T d1ctqa_          50 TCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAART-VESR  128 (166)
T ss_dssp             EEEEEEEEECCCGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCSCCC-SCHH
T ss_pred             eeeeeeeeccCccccccchhhhhhcccccceeecccccccHHHHHHHHHHHHHhcCCCCCeEEEEeccccccccc-ccHH
Confidence            455667778882110   111233578999999998753211  011       111234789999999997642 2344


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ...+..+..  ..+++++||++|+|++++|.++.+.+.
T Consensus       129 ~~~~~~~~~--~~~~~e~Sak~g~gi~e~f~~i~~~i~  164 (166)
T d1ctqa_         129 QAQDLARSY--GIPYIETSAKTRQGVEDAFYTLVREIR  164 (166)
T ss_dssp             HHHHHHHHH--TCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHh--CCeEEEEcCCCCcCHHHHHHHHHHHHH
Confidence            444444554  358999999999999999999987654

>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=98.40  E-value=2.6e-07  Score=67.14  Aligned_cols=108  Identities=16%  Similarity=0.038  Sum_probs=67.2

Q ss_pred             cCCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc--CCC------CCCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR--KGG------PGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~--~~~------~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ..+.+-+.++.|..- .  ....+..++.+++|+|.++......  .+.      ..-..+.++|.||+|+.+......+
T Consensus        51 ~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i~v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~~~~~~~~~  130 (175)
T d2f9la1          51 KTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTD  130 (175)
T ss_dssp             EEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHH
T ss_pred             EEEEEEecccCCcHHHHHHHHHHhhccCeEEEEEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEeeecccccccchHH
Confidence            356778889999210 0  0111235799999999987532110  000      0113478999999999865322333


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~  181 (186)
                      ......+..  ..+++++||++|.|++++++.+.+....-.
T Consensus       131 ~~~~~~~~~--~~~~~e~Sa~~g~~i~e~f~~l~~~i~~~~  169 (175)
T d2f9la1         131 EARAFAEKN--NLSFIETSALDSTNVEEAFKNILTEIYRIV  169 (175)
T ss_dssp             HHHHHHHHT--TCEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhccc--CceEEEEecCCCcCHHHHHHHHHHHHHHHh
Confidence            333333333  469999999999999999998877654333

>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=98.39  E-value=3.8e-07  Score=66.39  Aligned_cols=106  Identities=21%  Similarity=0.111  Sum_probs=70.1

Q ss_pred             cCCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccH
Q 029893           72 FKADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      ..+.+.|.+|+|..--.   +.....+|.+++|+|.++.....         ..+......+.+++.||.|..... ...
T Consensus        54 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~~~~-v~~  132 (177)
T d1x3sa1          54 NKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENRE-VDR  132 (177)
T ss_dssp             EEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSCC-SCH
T ss_pred             cccEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCccccccchhhhhhhcccccccceeeEEEeecccccccc-ccH
Confidence            45678889999931101   11223579999999987643211         112223456789999999987542 334


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHh
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEAS  180 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~  180 (186)
                      ++..+..+..+  .+++++||++|+|++++|+++.+.+-+.
T Consensus       133 ~~~~~~~~~~~--~~~~e~Sa~tg~gv~e~f~~l~~~l~~~  171 (177)
T d1x3sa1         133 NEGLKFARKHS--MLFIEASAKTCDGVQCAFEELVEKIIQT  171 (177)
T ss_dssp             HHHHHHHHHTT--CEEEECCTTTCTTHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHCC--CEEEEEeCCCCCCHHHHHHHHHHHHccC
Confidence            44555555543  6899999999999999999887765543

>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=98.37  E-value=1.9e-07  Score=67.47  Aligned_cols=104  Identities=14%  Similarity=0.140  Sum_probs=68.5

Q ss_pred             CCcEEEEecCCCeeEE--eeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNLAA--NFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~--~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+-+.|++|..-..  +..+..++.+++|+|.++......         .....-..+.++|.||+|+.++..-..++
T Consensus        49 ~~~l~i~D~~g~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~r~V~~~e  128 (168)
T d2atva1          49 VVSMEILDTAGQEDTIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEE  128 (168)
T ss_dssp             EEEEEEEECCCCCCCHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHH
T ss_pred             ceEEEEeecccccccccchhhhcccccceeecccCCccchhhhhhhcccccccccccCcceeeeccchhhhhhccCcHHH
Confidence            5678889999931100  112335899999999987533110         00111235889999999997643223444


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCC-HHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLG-VEEIVNHILQAWE  178 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~g-i~~l~~~i~~~~~  178 (186)
                      ..+..++.+  .+++++||++|.| ++++|..+.+.+.
T Consensus       129 ~~~~a~~~~--~~~~e~Saktg~gnV~e~F~~l~~~i~  164 (168)
T d2atva1         129 GEKLATELA--CAFYECSACTGEGNITEIFYELCREVR  164 (168)
T ss_dssp             HHHHHHHHT--SEEEECCTTTCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhC--CeEEEEccccCCcCHHHHHHHHHHHHH
Confidence            555555553  5899999999995 9999998887654

>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=98.36  E-value=3.3e-07  Score=66.43  Aligned_cols=104  Identities=17%  Similarity=0.104  Sum_probs=67.0

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--CC------CCCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--KG------GPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~~------~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ...+.+.++.|...-   .+.....+|.+++|+|..+......  .+      ...-..+.++|.||+|+........+.
T Consensus        51 ~~~~~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~~~~~~~~~~  130 (173)
T d2a5ja1          51 QIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREE  130 (173)
T ss_dssp             EEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHH
T ss_pred             EEEEEeecccCccchhhHHHHHhhccCEEEEEEeecChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchhhhhhhHHHH
Confidence            567788888882100   1112335799999999877532110  00      011234789999999986543233344


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      .....++.  ..+++++||++|.|+++++.++.+.+.
T Consensus       131 ~~~~a~~~--~~~~~e~Sa~tg~~V~e~f~~i~~~i~  165 (173)
T d2a5ja1         131 GEAFAREH--GLIFMETSAKTACNVEEAFINTAKEIY  165 (173)
T ss_dssp             HHHHHHHH--TCEEEEECTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHc--CCEEEEecCCCCCCHHHHHHHHHHHHH
Confidence            44444444  368999999999999999998887544

>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=98.35  E-value=5.7e-07  Score=65.15  Aligned_cols=103  Identities=9%  Similarity=0.043  Sum_probs=66.0

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc--cC----------CCCCCCceeEEEEecCCCCCcccc
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP--RK----------GGPGITQADLLVINKTDLASAIGA  137 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~--~~----------~~~~~~~adiivlNK~Dl~~~~~~  137 (186)
                      .+.+-+.++.|..-.   .+.....++.+++++|.+......  ..          ....-..+.++|.||+|+.+.. -
T Consensus        54 ~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~~~-v  132 (174)
T d1wmsa_          54 FVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISERQ-V  132 (174)
T ss_dssp             EEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSSCS-S
T ss_pred             eeeEeeecccCcceehhhhhhhhhccceEEEEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchhhcc-C
Confidence            456677888883110   112223579999999987643211  00          1111235789999999997531 2


Q ss_pred             cHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          138 DLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       138 ~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ..++..+..++. ...+++++||++|.|++++|+++.+.+
T Consensus       133 ~~~~~~~~~~~~-~~~~~~e~Sak~~~gI~e~f~~l~~~i  171 (174)
T d1wmsa_         133 STEEAQAWCRDN-GDYPYFETSAKDATNVAAAFEEAVRRV  171 (174)
T ss_dssp             CHHHHHHHHHHT-TCCCEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHc-CCCeEEEEcCCCCcCHHHHHHHHHHHH
Confidence            344555555543 346899999999999999999887654

>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=98.32  E-value=2.8e-07  Score=67.70  Aligned_cols=104  Identities=13%  Similarity=0.067  Sum_probs=65.0

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc---CCC-----CCCCceeEEEEecCCCCCccc----
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR---KGG-----PGITQADLLVINKTDLASAIG----  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~---~~~-----~~~~~adiivlNK~Dl~~~~~----  136 (186)
                      ..+.+-+.+++|-..   .....+..+|.+++|+|+++.+....   .+.     ..-..+-++|.||+|+.+...    
T Consensus        55 ~~~~l~i~D~~g~e~~~~~~~~~~~~a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~~~~~  134 (185)
T d2atxa1          55 KQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLAR  134 (185)
T ss_dssp             CEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHHHHHH
T ss_pred             ceEEeecccccccchhhhhhhhcccccceeeeccccchHHHHHHHHHHHHHHHHhcCCCCCeeEeeeccccccchhhhhh
Confidence            346677899999311   01223445899999999987543210   010     011346799999999976410    


Q ss_pred             --------ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          137 --------ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       137 --------~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                              -..++..+..++.+ ..+++++||++|.|++++|+.+.+.
T Consensus       135 ~~~~~~r~v~~~~~~~~a~~~~-~~~~~E~SAk~~~gv~e~F~~li~~  181 (185)
T d2atxa1         135 LNDMKEKPICVEQGQKLAKEIG-ACCYVECSALTQKGLKTVFDEAIIA  181 (185)
T ss_dssp             HTTTTCCCCCHHHHHHHHHHHT-CSCEEECCTTTCTTHHHHHHHHHHH
T ss_pred             hhhcccccccHHHHHHHHHHcC-CCEEEEecCCCCcCHHHHHHHHHHH
Confidence                    11223333334443 4588999999999999999987654

>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=98.31  E-value=2.6e-07  Score=66.19  Aligned_cols=100  Identities=18%  Similarity=0.172  Sum_probs=64.7

Q ss_pred             cCCcEEEEecCCCee----EEeeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCccccc
Q 029893           72 FKADLLLCESGGDNL----AANFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l----~~~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      ..+.+.+.+++|...    ..+..+..+|.+++|+|.++......         .+...-..+-++|.||+|+.++....
T Consensus        49 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~v~  128 (165)
T d1z06a1          49 ERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVP  128 (165)
T ss_dssp             EEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSC
T ss_pred             cceEEEEEeccCchhhccccceeeecCCCceEEEEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhccchh
Confidence            456778888888311    01122346899999999987532110         11111234789999999997653233


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccC---CCCHHHHHHHH
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKH---GLGVEEIVNHI  173 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~---g~gi~~l~~~i  173 (186)
                      .++..+..++.+  .+++++||++   +.|++++|++|
T Consensus       129 ~~~~~~~~~~~~--~~~~e~SAkt~~~~~~V~e~F~~l  164 (165)
T d1z06a1         129 TDLAQKFADTHS--MPLFETSAKNPNDNDHVEAIFMTL  164 (165)
T ss_dssp             HHHHHHHHHHTT--CCEEECCSSSGGGGSCHHHHHHHH
T ss_pred             HHHHHHHHHHCC--CEEEEEecccCCcCcCHHHHHHHh
Confidence            445555555543  6899999997   45999999876

>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=98.30  E-value=2.4e-07  Score=66.96  Aligned_cols=103  Identities=19%  Similarity=0.167  Sum_probs=66.9

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc--CC------CCCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR--KG------GPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~--~~------~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      .+.+.+.++.|-.-   ..+..+..++.+++++|.++.+....  .+      ...-..+-++|.||+|+..+.....+.
T Consensus        54 ~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~e~  133 (170)
T d1r2qa_          54 TVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQE  133 (170)
T ss_dssp             EEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHH
T ss_pred             EEEEEeccCCCchhhhhhHHHHhhCcceEEEEeccchhhHHHHHHHHhhhhhhccCCCceEEeecccccccccccccHHH
Confidence            56788889999210   01112346899999999887543110  00      011234788999999997653233444


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ..+..+..  ..+++++||++|.|++++|+.|.+.+
T Consensus       134 ~~~~~~~~--~~~~~e~SAk~g~~V~e~f~~l~~~i  167 (170)
T d1r2qa_         134 AQSYADDN--SLLFMETSAKTSMNVNEIFMAIAKKL  167 (170)
T ss_dssp             HHHHHHHT--TCEEEECCTTTCTTHHHHHHHHHHTS
T ss_pred             HHHHHHhc--CCEEEEeeCCCCCCHHHHHHHHHHHH
Confidence            44444443  36899999999999999999987643

>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=98.30  E-value=3.8e-07  Score=65.95  Aligned_cols=58  Identities=12%  Similarity=0.122  Sum_probs=45.0

Q ss_pred             CCceeEEEEecCCCCCcccccH----HHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          118 ITQADLLVINKTDLASAIGADL----AVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       118 ~~~adiivlNK~Dl~~~~~~~~----~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ...+.++++||+|+++.  ...    +.+.+.+....+..+++++||++|.|+++|++.|.+++
T Consensus       126 ~~~~~~~v~~k~D~~~~--~~~~~~~~~~~~~l~~~~~~~~~i~vSA~~g~Gid~L~~~i~~~~  187 (188)
T d1puia_         126 SNIAVLVLLTKADKLAS--GARKAQLNMVREAVLAFNGDVQVETFSSLKKQGVDKLRQKLDTWF  187 (188)
T ss_dssp             TTCCEEEEEECGGGSCH--HHHHHHHHHHHHHHGGGCSCEEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             ccccccchhhhhhccCH--HHHHHHHHHHHHHHHhhCCCCcEEEEeCCCCCCHHHHHHHHHHHh
Confidence            34578999999999876  333    33444555556677999999999999999999998765

>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=98.28  E-value=7.2e-07  Score=62.72  Aligned_cols=102  Identities=14%  Similarity=0.057  Sum_probs=64.2

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCc---------cCCCCCCCceeEEEEecCCCCCcccccHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~---------~~~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ..-..+..+.|..-.   .+.....++..++++|..+.....         .........+.+++.||.|+...  ....
T Consensus        43 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~--~~~~  120 (166)
T d2qtvb1          43 NIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNA--VSEA  120 (166)
T ss_dssp             TCCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSC--CCHH
T ss_pred             CeeEEEEeeccchhhhhhHhhhhhheeeeeeeccccchhhhhhhhHHHHhhhhhhccCCceEEEEecccccccc--CCHH
Confidence            455667777772110   111223468889999987754311         11233345678999999999765  3444


Q ss_pred             HHHHHHHhh----------CCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          141 VMERDALRM----------RDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       141 ~~~~~l~~~----------~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      ++.+.++..          ....+++++||++|+|++++|+||.+|
T Consensus       121 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~Gv~e~~~~l~~~  166 (166)
T d2qtvb1         121 ELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQY  166 (166)
T ss_dssp             HHHHHHTCSSCCC---CCSSCCEEEEEEBTTTTBSHHHHHHHHTTC
T ss_pred             HHHHHhhhhhhhHHHhhcccCCCEEEEeeCCCCCCHHHHHHHHhCC
Confidence            444443211          123478999999999999999999763

>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=98.28  E-value=2.5e-07  Score=67.30  Aligned_cols=104  Identities=21%  Similarity=0.171  Sum_probs=65.1

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc---cCCCC-----CCCceeEEEEecCCCCCccc----
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP---RKGGP-----GITQADLLVINKTDLASAIG----  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~---~~~~~-----~~~~adiivlNK~Dl~~~~~----  136 (186)
                      ..+.+-|.+++|...   ..+..+..+|.+++|+|.++.....   ..+..     .-..|.++|.||+|+.+...    
T Consensus        48 ~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~  127 (177)
T d1kmqa_          48 KQVELALWDTAGLEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRE  127 (177)
T ss_dssp             EEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCHHHHHH
T ss_pred             cceeeeccccCccchhcccchhhcccchhhhhhcccchhHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchhhHHHH
Confidence            356788899999311   0122345689999999998754211   01100     01347889999999976421    


Q ss_pred             --------ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          137 --------ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       137 --------~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                              -..++..+..++. ...+++++||++|.|++++|+.+.+.
T Consensus       128 ~~~~~~~~v~~~e~~~~a~~~-~~~~~~E~SAkt~~gi~e~F~~i~~~  174 (177)
T d1kmqa_         128 LAKMKQEPVKPEEGRDMANRI-GAFGYMECSAKTKDGVREVFEMATRA  174 (177)
T ss_dssp             HHHTTCCCCCHHHHHHHHHHT-TCSEEEECCTTTCTTHHHHHHHHHHH
T ss_pred             HHHhhcccccHHHHHHHHHHc-CCcEEEEecCCCCcCHHHHHHHHHHH
Confidence                    0112222333332 34589999999999999999988764

>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=98.26  E-value=1.7e-06  Score=61.21  Aligned_cols=83  Identities=17%  Similarity=0.218  Sum_probs=56.4

Q ss_pred             cCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHh---hCCCCCEEEEecc
Q 029893           94 LADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLAVMERDALR---MRDGGPFIFAQVK  161 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~---~~p~a~i~~~Sa~  161 (186)
                      ..+..++++|.........         .....-..+-+++.||+|+...  ....++...+..   .....+++++||+
T Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~SA~  149 (169)
T d1upta_          72 NTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQA--MTSSEMANSLGLPALKDRKWQIFKTSAT  149 (169)
T ss_dssp             TCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCHHHHHHHHTGGGCTTSCEEEEECCTT
T ss_pred             hhhhhhhhhhhhhcchhhhccchhhhhhhhhccccceEEEEEeecccccc--ccHHHHHHHHHHHHHhcCCCEEEEEeCC
Confidence            3578889999876443211         0111123467899999999876  444455544422   2245699999999


Q ss_pred             CCCCHHHHHHHHHHHHH
Q 029893          162 HGLGVEEIVNHILQAWE  178 (186)
Q Consensus       162 ~g~gi~~l~~~i~~~~~  178 (186)
                      +|+|+++++++|.+.+.
T Consensus       150 ~g~gv~e~~~~l~~~l~  166 (169)
T d1upta_         150 KGTGLDEAMEWLVETLK  166 (169)
T ss_dssp             TCTTHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHH
Confidence            99999999999988663

>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=98.24  E-value=7.1e-07  Score=64.53  Aligned_cols=104  Identities=15%  Similarity=0.056  Sum_probs=66.7

Q ss_pred             CCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--CC------CCCCCceeEEEEecCCCCCcccccHHH
Q 029893           73 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--KG------GPGITQADLLVINKTDLASAIGADLAV  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~~------~~~~~~adiivlNK~Dl~~~~~~~~~~  141 (186)
                      ...+.+.+|+|...-   .......++.+++|+|.++......  .+      ...-..+.++|.||+|+.+........
T Consensus        53 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~~~~~~~~  132 (174)
T d2bmea1          53 YVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLE  132 (174)
T ss_dssp             EEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHH
T ss_pred             ceeEEEEECCCchhhhhhHHHHhhhCCEEEEEEecccchhHHHHhhhhcccccccCCceEEEEEEecccccchhchhhhH
Confidence            467788999992110   0112235799999999987532110  00      011245889999999987653223333


Q ss_pred             HHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          142 MERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       142 ~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ..+..+..  ..+++++||++|.|++++|+++.+.+-
T Consensus       133 ~~~~~~~~--~~~~~e~Sak~~~gi~e~f~~l~~~i~  167 (174)
T d2bmea1         133 ASRFAQEN--ELMFLETSALTGENVEEAFVQCARKIL  167 (174)
T ss_dssp             HHHHHHHT--TCEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhC--CCEEEEeeCCCCcCHHHHHHHHHHHHH
Confidence            33333333  468999999999999999998876544

>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=98.24  E-value=2.7e-07  Score=68.10  Aligned_cols=106  Identities=16%  Similarity=0.105  Sum_probs=66.2

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc---cCCCC-----CCCceeEEEEecCCCCCccc----
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP---RKGGP-----GITQADLLVINKTDLASAIG----  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~---~~~~~-----~~~~adiivlNK~Dl~~~~~----  136 (186)
                      ..+.+-|.+++|..-   ..+..+..+|.+++|+|.++.+...   ..+..     .-..+.++|.||+|+.+...    
T Consensus        49 ~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~~~~~~~~  128 (191)
T d2ngra_          49 EPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEK  128 (191)
T ss_dssp             EEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGGCHHHHHH
T ss_pred             ceeeeeccccccchhhhhhhhhcccccceeecccccchHHHHHHHHHHHHHHHhhcCCCCceEEEeccccccccchhhhh
Confidence            356778889999310   0122344689999999998764321   00100     12347789999999865410    


Q ss_pred             --------ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          137 --------ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       137 --------~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                              -..++..+..++. ...+++++||++|.|++++|+.+.+..-
T Consensus       129 ~~~~~~~~v~~~~~~~~~~~~-~~~~~~e~SAk~~~~V~e~f~~l~~~~~  177 (191)
T d2ngra_         129 LAKNKQKPITPETAEKLARDL-KAVKYVECSALTQKGLKNVFDEAILAAL  177 (191)
T ss_dssp             HHTTTCCCCCHHHHHHHHHHT-TCSCEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             hhhcccccccHHHHHHHHHHc-CCCeEEEEeCCCCcCHHHHHHHHHHHHh
Confidence                    1122233333443 3468999999999999999998776443

>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=98.22  E-value=9.7e-08  Score=71.91  Aligned_cols=91  Identities=13%  Similarity=0.091  Sum_probs=54.8

Q ss_pred             hcCCcEEEEecCCCe-eEE-e-eeeecCceEEEEEeCCCCCCCccC----CCCCCCcee-EEEEecCCCCCcccccHHHH
Q 029893           71 LFKADLLLCESGGDN-LAA-N-FSRELADYIIYIIDVSGGDKIPRK----GGPGITQAD-LLVINKTDLASAIGADLAVM  142 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~-l~~-~-~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~ad-iivlNK~Dl~~~~~~~~~~~  142 (186)
                      ..+..+.||+|+|-. ... . .....+|.+|+|+|+.+|...+..    +......+. ++++||+|+++.. +..+++
T Consensus        64 ~~~~~i~iiDtPGh~df~~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~~~~~~~gi~~iiv~iNK~D~~~~~-~~~~~~  142 (204)
T d2c78a3          64 TAKRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNKVDMVDDP-ELLDLV  142 (204)
T ss_dssp             CSSCEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHHTTCCCEEEEEECGGGCCCH-HHHHHH
T ss_pred             eCCeEEEEEeCCCchhhHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEEecccCCCH-HHHHHH
Confidence            457789999999921 000 0 012347999999999998664321    122344454 5669999998752 233444


Q ss_pred             HHHHHh----h-CC--CCCEEEEeccC
Q 029893          143 ERDALR----M-RD--GGPFIFAQVKH  162 (186)
Q Consensus       143 ~~~l~~----~-~p--~a~i~~~Sa~~  162 (186)
                      .+.++.    . +|  ..++++.||..
T Consensus       143 ~~~i~~~l~~~~~~~~~i~~i~~sa~~  169 (204)
T d2c78a3         143 EMEVRDLLNQYEFPGDEVPVIRGSALL  169 (204)
T ss_dssp             HHHHHHHHHHTTSCTTTSCEEECCHHH
T ss_pred             HHHHHHHHHhcCCCcccceeeeeechh
Confidence            444433    2 12  36889999864

>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=98.22  E-value=1.1e-06  Score=61.75  Aligned_cols=104  Identities=13%  Similarity=0.133  Sum_probs=66.8

Q ss_pred             hcCCcEEEEecCCCeeEE---eeeeecCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCccccc
Q 029893           71 LFKADLLLCESGGDNLAA---NFSRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l~~---~~~~~~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~  138 (186)
                      .....+.+.++.|.....   ......++.+++++|.........         .....-..+.+++.||.|+.+.  ..
T Consensus        41 ~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~--~~  118 (160)
T d1r8sa_          41 YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA--MN  118 (160)
T ss_dssp             CSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CC
T ss_pred             eeeEEEEEecCCCcccchhhhhhhhccceeEEEEEEecChHHHHHHHHHHHHHHHhhcccCceEEEEeeccccccc--cc
Confidence            346788899999932110   112235788999999876433111         0111123478899999999876  34


Q ss_pred             HHHHHHHHHh-h--CCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          139 LAVMERDALR-M--RDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       139 ~~~~~~~l~~-~--~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      ..++...... .  ....+++++||+||+|+++++++|.+.
T Consensus       119 ~~~i~~~~~~~~~~~~~~~~~~~SAktg~gi~e~~~~l~~~  159 (160)
T d1r8sa_         119 AAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQ  159 (160)
T ss_dssp             HHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCCCEEEEeECCCCCCHHHHHHHHHhc
Confidence            4444333221 1  234689999999999999999999764

>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=98.21  E-value=5.2e-07  Score=64.80  Aligned_cols=104  Identities=22%  Similarity=0.213  Sum_probs=68.4

Q ss_pred             cCCcEEEEecCCCee-E--EeeeeecCceEEEEEeCCCCCCCcc--C------CCCCCCceeEEEEecCCCCCcccccHH
Q 029893           72 FKADLLLCESGGDNL-A--ANFSRELADYIIYIIDVSGGDKIPR--K------GGPGITQADLLVINKTDLASAIGADLA  140 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l-~--~~~~~~~ad~~v~VvDa~~~~~~~~--~------~~~~~~~adiivlNK~Dl~~~~~~~~~  140 (186)
                      ..+.+.|.+|+|... .  .+..++.++.+++|+|..+......  .      ....-..+.+++.||.|+.+.. ...+
T Consensus        49 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~~~-~~~~  127 (166)
T d1g16a_          49 KKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRV-VTAD  127 (166)
T ss_dssp             CEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTCC-SCHH
T ss_pred             EEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhhhhh-hhHH
Confidence            356677899999311 0  1122345799999999988542111  0      0112334788999999987652 2334


Q ss_pred             HHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          141 VMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       141 ~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      ...+..++.  ..+++++||++|+|++++|+++.+.+.
T Consensus       128 ~~~~~~~~~--~~~~~~~Sa~~~~~v~e~f~~l~~~i~  163 (166)
T d1g16a_         128 QGEALAKEL--GIPFIESSAKNDDNVNEIFFTLAKLIQ  163 (166)
T ss_dssp             HHHHHHHHH--TCCEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhc--CCeEEEECCCCCCCHHHHHHHHHHHHH
Confidence            444444443  379999999999999999999987764

>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=98.20  E-value=6.8e-07  Score=68.22  Aligned_cols=79  Identities=23%  Similarity=0.255  Sum_probs=55.4

Q ss_pred             cCceEEEEEeCCCCCCCc---cCC---CCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHH
Q 029893           94 LADYIIYIIDVSGGDKIP---RKG---GPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVE  167 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~~---~~~---~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~  167 (186)
                      ..|.+++|+.+.+++-..   +.+   ......+.+||+||+||.++  ++.+.+........+..+++.+|++++.|++
T Consensus        10 NiD~vliV~s~~~P~~~~~~ldR~Lv~a~~~~i~pvIvlnK~DL~~~--~~~~~~~~~~~~~~~~~~v~~vSa~~~~g~~   87 (225)
T d1u0la2          10 NVDQVILVVTVKMPETSTYIIDKFLVLAEKNELETVMVINKMDLYDE--DDLRKVRELEEIYSGLYPIVKTSAKTGMGIE   87 (225)
T ss_dssp             SCCEEEEEECSSTTCCCHHHHHHHHHHHHHTTCEEEEEECCGGGCCH--HHHHHHHHHHHHHTTTSCEEECCTTTCTTHH
T ss_pred             cCCEEEEEEeCCCCCCCHHHHHHHHHHHHHcCCCEEEEEeCcccCCH--HHHHHHHHhhcccccceeEEEeccccchhHh
Confidence            347788888776643211   111   11234578999999999987  5566665555555556799999999999999


Q ss_pred             HHHHHHH
Q 029893          168 EIVNHIL  174 (186)
Q Consensus       168 ~l~~~i~  174 (186)
                      +|.+++.
T Consensus        88 ~L~~~l~   94 (225)
T d1u0la2          88 ELKEYLK   94 (225)
T ss_dssp             HHHHHHS
T ss_pred             hHHHHhc
Confidence            9988763

>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=98.18  E-value=3.1e-07  Score=70.04  Aligned_cols=95  Identities=17%  Similarity=0.168  Sum_probs=56.9

Q ss_pred             CCcEEEEecCCCe-eEEee--eeecCceEEEEEeCCCCCCCccC----CCCCCCc-eeEEEEecCCCCCcccccHHH---
Q 029893           73 KADLLLCESGGDN-LAANF--SRELADYIIYIIDVSGGDKIPRK----GGPGITQ-ADLLVINKTDLASAIGADLAV---  141 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~~~--~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~-adiivlNK~Dl~~~~~~~~~~---  141 (186)
                      +..+-||+|+|=. .....  ....+|.+++|+|+.+|...+..    ....+.. ..++++||+|+.+......+.   
T Consensus        88 ~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e~~~~~~~~gv~~iiv~vNK~D~~~~~~~~~~~~~~  167 (222)
T d1zunb3          88 KRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHSYIASLLGIKHIVVAINKMDLNGFDERVFESIKA  167 (222)
T ss_dssp             SEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEEEEEEECTTTTTSCHHHHHHHHH
T ss_pred             ceEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHHHHHHHHHcCCCEEEEEEEccccccccceehhhhHH
Confidence            3468899999910 00000  11247999999999998654321    1112332 468899999998753222222   


Q ss_pred             -HHHHHHhhC--C-CCCEEEEeccCCCCHH
Q 029893          142 -MERDALRMR--D-GGPFIFAQVKHGLGVE  167 (186)
Q Consensus       142 -~~~~l~~~~--p-~a~i~~~Sa~~g~gi~  167 (186)
                       +...+++..  + ..+++|+||++|.|+.
T Consensus       168 ~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~  197 (222)
T d1zunb3         168 DYLKFAEGIAFKPTTMAFVPMSALKGDNVV  197 (222)
T ss_dssp             HHHHHHHTTTCCCSEEEEEECCTTTCTTTS
T ss_pred             HHhhhhHhhccCCCceEEEEEEcccCccCC
Confidence             233333332  1 2477999999999984

>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=98.17  E-value=8.2e-07  Score=69.44  Aligned_cols=82  Identities=17%  Similarity=0.141  Sum_probs=60.4

Q ss_pred             ecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhCCCCCEEEEeccCCCCHHH
Q 029893           93 ELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVKHGLGVEE  168 (186)
Q Consensus        93 ~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~  168 (186)
                      ..+|+++.|+|+..+.....    .+..  .++-++|+||+||++.  ...+...+.++..  ..+.+++|++++.|...
T Consensus        14 ~~~DvIl~V~DaR~P~ss~~~~l~~~~~--~Kp~IlVlNK~DLv~~--~~~~~w~~~f~~~--~~~~i~isa~~~~~~~~   87 (273)
T d1puja_          14 KLIDIVYELVDARIPMSSRNPMIEDILK--NKPRIMLLNKADKADA--AVTQQWKEHFENQ--GIRSLSINSVNGQGLNQ   87 (273)
T ss_dssp             GGCSEEEEEEETTSTTTTSCHHHHHHCS--SSCEEEEEECGGGSCH--HHHHHHHHHHHTT--TCCEEECCTTTCTTGGG
T ss_pred             HhCCEEEEEEECCCCCCCCCHHHHHHHc--CCCeEEEEECccCCch--HHHHHHHHHHHhc--CCccceeecccCCCccc
Confidence            35799999999987654321    1222  4689999999999987  5555555555544  35789999999999999


Q ss_pred             HHHHHHHHHHHh
Q 029893          169 IVNHILQAWEAS  180 (186)
Q Consensus       169 l~~~i~~~~~~~  180 (186)
                      +.+.+.+.+++.
T Consensus        88 ~~~~~~~~l~~~   99 (273)
T d1puja_          88 IVPASKEILQEK   99 (273)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             cchhhhhhhhhh
Confidence            988887766654

>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=98.13  E-value=1.3e-06  Score=63.66  Aligned_cols=108  Identities=14%  Similarity=0.077  Sum_probs=67.4

Q ss_pred             cCCcEEEEecCCCeeEEeeeeecCceEEEEEeCCCCCCCcc--C-------CC--CCCCceeEEEEecCCCCCcccc--c
Q 029893           72 FKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPR--K-------GG--PGITQADLLVINKTDLASAIGA--D  138 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~~~~~~ad~~v~VvDa~~~~~~~~--~-------~~--~~~~~adiivlNK~Dl~~~~~~--~  138 (186)
                      ..+.+.|.+|.|. . ....++.+|.+|+|+|.++......  .       +.  ..-..+.++|+||.|+......  .
T Consensus        50 ~~~~l~i~Dt~g~-~-~~~~~~~ad~~ilVfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~  127 (175)
T d2bmja1          50 QTHLVLIREEAGA-P-DAKFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVG  127 (175)
T ss_dssp             EEEEEEEEECSSC-C-CHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSC
T ss_pred             eEEEEEEeecccc-c-ccccccccceeEEEeecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchh
Confidence            3567778899992 1 1112356899999999987532110  0       01  1122367899999887543111  1


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHHHHhhc
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAWEASTG  182 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~~~~~~  182 (186)
                      .++..+..++. ...+++++||++|.|++++|..+.+.+-..+.
T Consensus       128 ~~~~~~~~~~~-~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~~~  170 (175)
T d2bmja1         128 DARARALCADM-KRCSYYETCATYGLNVDRVFQEVAQKVVTLRK  170 (175)
T ss_dssp             HHHHHHHHHTS-TTEEEEEEBTTTTBTHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHh-CCCeEEEeCCCCCcCHHHHHHHHHHHHHHhhh
Confidence            22333333443 34689999999999999999988876655544

>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=98.12  E-value=2.8e-07  Score=66.54  Aligned_cols=104  Identities=16%  Similarity=0.065  Sum_probs=67.6

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCcc--CC------CCCCCceeEEEEecCCCCCcc---cc
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPR--KG------GPGITQADLLVINKTDLASAI---GA  137 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~--~~------~~~~~~adiivlNK~Dl~~~~---~~  137 (186)
                      ..+.+-+.++.|...-   .+..+..+|.+++|+|.++......  .+      ...-..+.+++.||+|+.+..   .-
T Consensus        50 ~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~~~~v  129 (170)
T d1ek0a_          50 HTVKFEIWDTAGQERFASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKV  129 (170)
T ss_dssp             EEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCS
T ss_pred             ccccccccccCCchhHHHHHHHHHhccceEEEEEeCCcccchhhhhhhhhhhccccccccceeeeecccccccccchhhh
Confidence            3577888999993211   1122345799999999987532110  00      011245789999999986531   11


Q ss_pred             cHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          138 DLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       138 ~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      ..++..+..+..+  .+++++||++|.|++++|..|.+.+
T Consensus       130 ~~~~~~~~~~~~~--~~~~e~Sak~g~gV~e~F~~i~~~i  167 (170)
T d1ek0a_         130 AREEGEKLAEEKG--LLFFETSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             CHHHHHHHHHHHT--CEEEECCTTTCTTHHHHHHHHHTTS
T ss_pred             hHHHHHHHHHHcC--CEEEEecCCCCcCHHHHHHHHHHHh
Confidence            2244444555543  6999999999999999999987644

>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=98.06  E-value=7.6e-07  Score=65.06  Aligned_cols=103  Identities=14%  Similarity=0.082  Sum_probs=61.7

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCc---cCCC-----CCCCceeEEEEecCCCCCccc-----
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIP---RKGG-----PGITQADLLVINKTDLASAIG-----  136 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~---~~~~-----~~~~~adiivlNK~Dl~~~~~-----  136 (186)
                      .+.+-+-++.|-..   ..+..+..+|.+++|+|.++.+...   ..+.     ..-..+.++|.||+|+.++..     
T Consensus        52 ~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~sf~~i~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~  131 (183)
T d1mh1a_          52 PVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKL  131 (183)
T ss_dssp             EEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHTCHHHHHHH
T ss_pred             ceEEEeecccccccchhhhhhcccccceeeeeeccchHHHHHHHHHHHHHHHHHhCCCCcEEEEeecccchhhhhhhhhh
Confidence            44555667777210   0112334679999999998754211   0010     011347899999999875421     


Q ss_pred             -------ccHHHHHHHHHhhCCCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          137 -------ADLAVMERDALRMRDGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       137 -------~~~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                             ....+.....++. ...+++++||++|.|++++|+.+.+.
T Consensus       132 ~~~~~~~~~~~~~~~~a~~~-~~~~~~E~SAk~~~~V~e~F~~l~~~  177 (183)
T d1mh1a_         132 KEKKLTPITYPQGLAMAKEI-GAVKYLECSALTQRGLKTVFDEAIRA  177 (183)
T ss_dssp             HHTTCCCCCHHHHHHHHHHT-TCSEEEECCTTTCTTHHHHHHHHHHH
T ss_pred             hhccccchhhHHHHHHHHHc-CCceEEEcCCCCCcCHHHHHHHHHHH
Confidence                   0111222222332 34689999999999999999988764

>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=97.88  E-value=4e-06  Score=64.57  Aligned_cols=99  Identities=18%  Similarity=0.160  Sum_probs=56.8

Q ss_pred             CCcEEEEecCCCe-eEEe-e-eeecCceEEEEEeCCCCCCCc-cCCCC----------CCCce-eEEEEecCCCCCccc-
Q 029893           73 KADLLLCESGGDN-LAAN-F-SRELADYIIYIIDVSGGDKIP-RKGGP----------GITQA-DLLVINKTDLASAIG-  136 (186)
Q Consensus        73 ~~D~iiIEtsG~~-l~~~-~-~~~~ad~~v~VvDa~~~~~~~-~~~~~----------~~~~a-diivlNK~Dl~~~~~-  136 (186)
                      ...+.||+|+|-. .... . ....+|.+++|+|+.+|...+ .....          .+..+ -++++||+|+.+... 
T Consensus       101 ~~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~~i~~iiv~iNKmD~~~~~~~  180 (245)
T d1r5ba3         101 HRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPSVQWS  180 (245)
T ss_dssp             SEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTTCSSC
T ss_pred             cceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHHcCCCeEEEEEEcCCCCccchh
Confidence            5678999999920 1111 1 112479999999998874211 01111          12333 468899999975311 


Q ss_pred             -ccHHHH----HHHHHhh---CC--CCCEEEEeccCCCCHHHHHH
Q 029893          137 -ADLAVM----ERDALRM---RD--GGPFIFAQVKHGLGVEEIVN  171 (186)
Q Consensus       137 -~~~~~~----~~~l~~~---~p--~a~i~~~Sa~~g~gi~~l~~  171 (186)
                       ...+++    ...++++   ++  ..+++++||++|+|+.++++
T Consensus       181 e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~~  225 (245)
T d1r5ba3         181 EERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVD  225 (245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCC
T ss_pred             HHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccchh
Confidence             112222    3233333   22  24899999999999987654

>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=97.87  E-value=2.5e-06  Score=62.22  Aligned_cols=105  Identities=18%  Similarity=0.174  Sum_probs=65.7

Q ss_pred             cCCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCcc---CCCC-----CCCceeEEEEecCCCCCccc----
Q 029893           72 FKADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPR---KGGP-----GITQADLLVINKTDLASAIG----  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~---~~~~-----~~~~adiivlNK~Dl~~~~~----  136 (186)
                      ..+.+-+.+++|...   ..+..+..+|.+++|+|.++......   .+..     .-..+.++|.||+|+.+...    
T Consensus        48 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~  127 (179)
T d1m7ba_          48 QRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVE  127 (179)
T ss_dssp             CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHH
T ss_pred             eEEeeccccccccccccccccchhhhhhhhheeeecccCCCHHHHHHHHHHHHhccCCcceEEEEEecccccccchhhHH
Confidence            456777889999311   11223456899999999987543110   0100     01347899999999864310    


Q ss_pred             --------ccHHHHHHHHHhhCCCCCEEEEeccCCC-CHHHHHHHHHHHH
Q 029893          137 --------ADLAVMERDALRMRDGGPFIFAQVKHGL-GVEEIVNHILQAW  177 (186)
Q Consensus       137 --------~~~~~~~~~l~~~~p~a~i~~~Sa~~g~-gi~~l~~~i~~~~  177 (186)
                              -..++..+..++.+ ..+++++||++|. |++++|+.+.+..
T Consensus       128 ~~~~~~~~V~~~e~~~~a~~~~-~~~y~E~SAk~~~n~i~~~F~~~~~~~  176 (179)
T d1m7ba_         128 LSNHRQTPVSYDQGANMAKQIG-AATYIECSALQSENSVRDIFHVATLAC  176 (179)
T ss_dssp             HHTTTCCCCCHHHHHHHHHHHT-CSEEEECBTTTBHHHHHHHHHHHHHHH
T ss_pred             HhhhhcCcchHHHHHHHHHHhC-CCeEEEEeCCCCCcCHHHHHHHHHHHH
Confidence                    11233344444443 4689999999998 6999999877643

>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=97.86  E-value=6.4e-06  Score=58.96  Aligned_cols=81  Identities=14%  Similarity=0.073  Sum_probs=53.9

Q ss_pred             cCceEEEEEeCCCCCCCcc---------CCCCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhC--------------
Q 029893           94 LADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR--------------  150 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~~~---------~~~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~--------------  150 (186)
                      ..+.+++++|.+.......         ........+.+++.||.|+...  .....+.+.+....              
T Consensus        80 ~~~~~~~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~~~  157 (186)
T d1f6ba_          80 AINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEA--ISEERLREMFGLYGQTTGKGSVSLKELN  157 (186)
T ss_dssp             GCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTC--CCHHHHHHHHTCTTTCCCSSCCCTTTCC
T ss_pred             ccceeeeeeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCcccc--CCHHHHHHHHhhcccchhhhhhhHHHhh
Confidence            4578899999876432110         1111234589999999999876  44455544443211              


Q ss_pred             -CCCCEEEEeccCCCCHHHHHHHHHHH
Q 029893          151 -DGGPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       151 -p~a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                       ...+++++||++|+|++++++|+.++
T Consensus       158 ~~~~~~~~~SA~tg~Gi~e~~~~l~~~  184 (186)
T d1f6ba_         158 ARPLEVFMCSVLKRQGYGEGFRWMAQY  184 (186)
T ss_dssp             SCCEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             cCCCEEEEEeCCCCCCHHHHHHHHHHh
Confidence             12368999999999999999999865

>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=97.70  E-value=1.5e-05  Score=62.38  Aligned_cols=60  Identities=17%  Similarity=0.220  Sum_probs=42.1

Q ss_pred             hcCCcEEEEecCCCeeEEeee------eecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCCC
Q 029893           71 LFKADLLLCESGGDNLAANFS------RELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLAS  133 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l~~~~~------~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~~  133 (186)
                      ..+..+-||+|+|-   ..|.      ...+|..|+|+|+.+|-+.+.    ......+.|-++++||+|...
T Consensus        68 ~~~~~~n~iDtPG~---~dF~~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w~~a~~~~lP~i~fINKmDr~~  137 (276)
T d2bv3a2          68 WKDHRINIIDAPGH---VDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDKTG  137 (276)
T ss_dssp             ETTEEEEEECCCSS---SSCSTTHHHHHHHCCEEEEEEETTTSSCHHHHHHHHHHHTTTCCEEEEEECTTSTT
T ss_pred             cCCeEEEEecCCch---hhhHHHHHHHHHhhhheEEeccccCCcchhHHHHHHHHHHcCCCEEEEEecccccc
Confidence            45778899999992   1121      124699999999999876432    122335568999999999854

>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=97.65  E-value=3e-06  Score=64.79  Aligned_cols=78  Identities=13%  Similarity=0.063  Sum_probs=50.2

Q ss_pred             cCceEEEEEeCCCCCCCc---cCC---CCCCCceeEEEEecCCCCCcccccHHHHHHHHHhhC--CCCCEEEEeccCCCC
Q 029893           94 LADYIIYIIDVSGGDKIP---RKG---GPGITQADLLVINKTDLASAIGADLAVMERDALRMR--DGGPFIFAQVKHGLG  165 (186)
Q Consensus        94 ~ad~~v~VvDa~~~~~~~---~~~---~~~~~~adiivlNK~Dl~~~~~~~~~~~~~~l~~~~--p~a~i~~~Sa~~g~g  165 (186)
                      ..|.+++|+++.+++-..   +.+   .......-+||+||+||.++  .+.+...+.+.+.+  ...+++.+|++++.|
T Consensus        10 NiD~~~iV~s~~~P~~~~~~idR~Lv~a~~~~i~pvIvlnK~DL~~~--~~~~~~~~~~~~~y~~~g~~v~~~Sa~~~~g   87 (231)
T d1t9ha2          10 NVDQAVLVFSAVQPSFSTALLDRFLVLVEANDIQPIICITKMDLIED--QDTEDTIQAYAEDYRNIGYDVYLTSSKDQDS   87 (231)
T ss_dssp             CCCEEEEEEESTTTTCCHHHHHHHHHHHHTTTCEEEEEEECGGGCCC--HHHHHHHHHHHHHHHHHTCCEEECCHHHHTT
T ss_pred             ccCEEEEEEECCCCCCCHHHHHHHHHHHHHcCCCEEEEEeccccccc--HHHHHHHHHHHHHHhhccccceeeecCChhH
Confidence            347788888886653211   111   12234478999999999976  44333222222211  246999999999999


Q ss_pred             HHHHHHHH
Q 029893          166 VEEIVNHI  173 (186)
Q Consensus       166 i~~l~~~i  173 (186)
                      +++|.+++
T Consensus        88 l~~L~~~l   95 (231)
T d1t9ha2          88 LADIIPHF   95 (231)
T ss_dssp             CTTTGGGG
T ss_pred             HHHHHHhh
Confidence            99988765

>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=97.65  E-value=3.1e-06  Score=64.97  Aligned_cols=93  Identities=17%  Similarity=0.106  Sum_probs=55.9

Q ss_pred             CCcEEEEecCCCeeEEee------eeecCceEEEEEeCCCCCC-------Ccc----CCCCCCCce-eEEEEecCCCCCc
Q 029893           73 KADLLLCESGGDNLAANF------SRELADYIIYIIDVSGGDK-------IPR----KGGPGITQA-DLLVINKTDLASA  134 (186)
Q Consensus        73 ~~D~iiIEtsG~~l~~~~------~~~~ad~~v~VvDa~~~~~-------~~~----~~~~~~~~a-diivlNK~Dl~~~  134 (186)
                      +..+.||+|+| .  ..|      ....+|.+|+|+||..|..       .+.    .....+..+ -++++||+|+++.
T Consensus        83 ~~~i~iiDtPG-H--~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~~~~~~~gv~~iiv~iNKmD~~~~  159 (239)
T d1f60a3          83 KYQVTVIDAPG-H--RDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNKMDSVKW  159 (239)
T ss_dssp             SEEEEEEECCC-C--TTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTTCCEEEEEEECGGGGTT
T ss_pred             CEEEEEEECCC-c--HHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHHHHHHHcCCCeEEEEEECCCCCCC
Confidence            45689999999 1  111      1234699999999987621       111    011224445 4668999999875


Q ss_pred             ccccHHH----HHHHHHhhCC---CCCEEEEeccCCCCHHH
Q 029893          135 IGADLAV----MERDALRMRD---GGPFIFAQVKHGLGVEE  168 (186)
Q Consensus       135 ~~~~~~~----~~~~l~~~~p---~a~i~~~Sa~~g~gi~~  168 (186)
                      ..+..+.    +...+.....   ..+++++||.+|.|+-+
T Consensus       160 d~~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         160 DESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence            3222223    3333333322   36789999999998743

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.59  E-value=4.2e-05  Score=54.45  Aligned_cols=78  Identities=21%  Similarity=0.128  Sum_probs=43.1

Q ss_pred             CHHHHHHHhcC-CcEEEEEcccC-Cc------hhHHHHHhcCCCCcCceEeccCCC-cccCCcccccccCcchhHhhhhh
Q 029893            1 MLALCKFLRDK-YSLAAVTNDIF-TK------EDGEFLMRNGALPEERIRAVETGG-CPHAAIREDISINLGPLEELSNL   71 (186)
Q Consensus         1 ~~~~~~~l~~~-~~vaVi~nd~g-~~------iD~~~i~~~~~~~~~~~~~l~~Gc-cc~l~~r~d~~~~~~~l~~l~~~   71 (186)
                      +.+++++|+.+ .|+|+|.||.+ ..      -|..++.+.|.    ....+.++| ||..  ..+....+.....+...
T Consensus        18 i~~l~~~L~~~g~~v~vik~d~~~~~~~~~~~~ds~r~~~~g~----~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~   91 (165)
T d1xjca_          18 MEKWVAAAVREGWRVGTVKHHGHGGEPARPEGVDSVRHERAGA----VATAVEGDGLLQLH--LRRPLWRLDDVLALYAP   91 (165)
T ss_dssp             HHHHHHHHHHTTCCEEEEECCC--------------------C----SEEEEEETTEEEEE--ECCSCCCHHHHHHHHGG
T ss_pred             HHHHHHHHHhCCCeEEEEEeccCccccchhhccccHHHHhhcc----ccccccChHHHHHH--hhccccchhhHHHHHhh
Confidence            35788888865 99999999976 32      35555665554    456666777 5542  22222222333334445


Q ss_pred             cCCcEEEEecCCC
Q 029893           72 FKADLLLCESGGD   84 (186)
Q Consensus        72 ~~~D~iiIEtsG~   84 (186)
                      ..+|+|++|..+.
T Consensus        92 ~~~D~iivEg~~~  104 (165)
T d1xjca_          92 LRLDLVLVEGYKQ  104 (165)
T ss_dssp             GCCSEEEEECCTT
T ss_pred             cccCeEeeecccc
Confidence            6899999999993

>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=97.32  E-value=5e-05  Score=59.02  Aligned_cols=58  Identities=17%  Similarity=0.268  Sum_probs=39.8

Q ss_pred             cCCcEEEEecCCCeeEEee------eeecCceEEEEEeCCCCCCCcc----CCCCCCCceeEEEEecCCCC
Q 029893           72 FKADLLLCESGGDNLAANF------SRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLA  132 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~~~------~~~~ad~~v~VvDa~~~~~~~~----~~~~~~~~adiivlNK~Dl~  132 (186)
                      .+..+-||+|+|-   ..|      ....+|..|+|+|+.+|.+.+.    .+..+...+-++++||+|..
T Consensus        65 ~~~~~n~iDtPGh---~dF~~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~~~~~~~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          65 RGHRVFLLDAPGY---GDFVGEIRGALEAADAALVAVSAEAGVQVGTERAWTVAERLGLPRMVVVTKLDKG  132 (267)
T ss_dssp             TTEEEEEEECCCS---GGGHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEEEEEECGGGC
T ss_pred             cccceeEEccCch---hhhhhhhhhhhcccCceEEEeeccCCccchhHHHHHhhhhccccccccccccccc
Confidence            3556889999992   111      1234799999999999876432    12233456889999999974

>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=97.18  E-value=0.00011  Score=55.10  Aligned_cols=147  Identities=16%  Similarity=0.171  Sum_probs=79.9

Q ss_pred             HHHHHHHhcC-CcEEEEEcccC-C-chhHHHH--HhcCCCCcCceEeccCCCcccCCcccccccCc-chhHhhhhhcCCc
Q 029893            2 LALCKFLRDK-YSLAAVTNDIF-T-KEDGEFL--MRNGALPEERIRAVETGGCPHAAIREDISINL-GPLEELSNLFKAD   75 (186)
Q Consensus         2 ~~~~~~l~~~-~~vaVi~nd~g-~-~iD~~~i--~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~-~~l~~l~~~~~~D   75 (186)
                      -+|+.+++.+ +|+|+|..|.. . .++....  ...|+    ++....+..        |+...+ +++. .....++|
T Consensus        30 AKLA~~~~~~g~kV~lit~Dt~R~ga~eQL~~~a~~l~v----~~~~~~~~~--------~~~~~~~~a~~-~~~~~~~d   96 (211)
T d1j8yf2          30 GKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQIGV----PVYGEPGEK--------DVVGIAKRGVE-KFLSEKME   96 (211)
T ss_dssp             HHHHHHHHHTTCCEEEEECCCSSHHHHHHHHHHHHHHTC----CEECCTTCC--------CHHHHHHHHHH-HHHHTTCS
T ss_pred             HHHHHHHHHCCCceEEEEeeccccchhHHHHHhccccCc----ceeecccch--------hhhHHHHHHHH-HhhccCCc
Confidence            3567777764 99999999987 4 4443211  22233    233332222        222211 2332 22246899


Q ss_pred             EEEEecCCCe-eEE------ee-ee---ecCceEEEEEeCCCCCCCccCCCCC--CCceeEEEEecCCCCCcccccHHHH
Q 029893           76 LLLCESGGDN-LAA------NF-SR---ELADYIIYIIDVSGGDKIPRKGGPG--ITQADLLVINKTDLASAIGADLAVM  142 (186)
Q Consensus        76 ~iiIEtsG~~-l~~------~~-~~---~~ad~~v~VvDa~~~~~~~~~~~~~--~~~adiivlNK~Dl~~~~~~~~~~~  142 (186)
                      +|||+|+|.+ ...      .. .+   ...+-+++|+|++.+.+........  ....+-+++||.|....    .-.+
T Consensus        97 ~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~~~~~~~~~~lI~TKlDet~~----~G~~  172 (211)
T d1j8yf2          97 IIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQASKIGTIIITKMDGTAK----GGGA  172 (211)
T ss_dssp             EEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHHHHCTTEEEEEECTTSCSC----HHHH
T ss_pred             eEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhhhhcccCcceEEEecccCCCc----ccHH
Confidence            9999999931 100      00 00   0125678999998765422111000  11235688999997654    3444


Q ss_pred             HHHHHhhCCCCCEEEEeccCCCCHHHH
Q 029893          143 ERDALRMRDGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       143 ~~~l~~~~p~a~i~~~Sa~~g~gi~~l  169 (186)
                      .....+.  ..|+.++|  +|+++++|
T Consensus       173 l~~~~~~--~lPi~~it--~Gq~v~DL  195 (211)
T d1j8yf2         173 LSAVAAT--GATIKFIG--TGEKIDEL  195 (211)
T ss_dssp             HHHHHTT--TCCEEEEE--CSSSTTCE
T ss_pred             HHHHHHH--CcCEEEEe--CCCCcccC
Confidence            4444443  46888888  68888664

>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=97.06  E-value=0.0001  Score=55.37  Aligned_cols=97  Identities=13%  Similarity=0.145  Sum_probs=55.7

Q ss_pred             cCCcEEEEecCCCe-eEEe--eeeecCceEEEEEeCCCCCCC-------cc-CC---CCCCCc-eeEEEEecCCCCCccc
Q 029893           72 FKADLLLCESGGDN-LAAN--FSRELADYIIYIIDVSGGDKI-------PR-KG---GPGITQ-ADLLVINKTDLASAIG  136 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~~--~~~~~ad~~v~VvDa~~~~~~-------~~-~~---~~~~~~-adiivlNK~Dl~~~~~  136 (186)
                      .++.+-||+|+|=. ....  .....+|..|+|||+.+|...       +. .+   ...+.. .-++++||+|+..+..
T Consensus        79 ~~~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~~~~~iIv~iNK~D~~~~~~  158 (224)
T d1jnya3          79 KKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPPY  158 (224)
T ss_dssp             SSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSSTT
T ss_pred             CCceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHhCCCceEEEEEcccCCCccc
Confidence            46678899999910 0000  012347999999999987321       10 00   011222 3577899999985321


Q ss_pred             --ccHHHHHHHHHh----hC---CCCCEEEEeccCCCCHHH
Q 029893          137 --ADLAVMERDALR----MR---DGGPFIFAQVKHGLGVEE  168 (186)
Q Consensus       137 --~~~~~~~~~l~~----~~---p~a~i~~~Sa~~g~gi~~  168 (186)
                        ...+.+...++.    ..   ...+++++||.+|.|+.+
T Consensus       159 ~~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~~  199 (224)
T d1jnya3         159 DEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITH  199 (224)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTB
T ss_pred             cHHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCccc
Confidence              122333333332    21   346789999999999853

>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=96.62  E-value=0.00091  Score=49.73  Aligned_cols=147  Identities=14%  Similarity=0.135  Sum_probs=77.9

Q ss_pred             HHHHHHHhcC-CcEEEEEcccC-C-chhHHHH--HhcCCCCcCceEeccCCCcccCCcccccccCc-chhHhhhhhcCCc
Q 029893            2 LALCKFLRDK-YSLAAVTNDIF-T-KEDGEFL--MRNGALPEERIRAVETGGCPHAAIREDISINL-GPLEELSNLFKAD   75 (186)
Q Consensus         2 ~~~~~~l~~~-~~vaVi~nd~g-~-~iD~~~i--~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~-~~l~~l~~~~~~D   75 (186)
                      -+|+.++... +|+++|.-|.. . .++.-..  +..++    ++....++.        |+...+ +.+ ......++|
T Consensus        24 aKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~i----~~~~~~~~~--------d~~~~~~~~~-~~~~~~~~d   90 (207)
T d1okkd2          24 AKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSI----PVIQGPEGT--------DPAALAYDAV-QAMKARGYD   90 (207)
T ss_dssp             HHHHHHHHTTTCCEEEECCCCSSTTHHHHHHHHHHHHTC----CEECCCTTC--------CHHHHHHHHH-HHHHHHTCS
T ss_pred             HHHHHHHHHCCCcEEEEEeccccccchhhHhhcccccCc----eEEeccCCc--------cHHHHHHHHH-HHHHHCCCC
Confidence            3567777654 99999999976 4 5553321  22233    234332222        222111 111 122345899


Q ss_pred             EEEEecCCCeeEE-----ee-ee---------ecCceEEEEEeCCCCCCCccCCCCC--CCceeEEEEecCCCCCccccc
Q 029893           76 LLLCESGGDNLAA-----NF-SR---------ELADYIIYIIDVSGGDKIPRKGGPG--ITQADLLVINKTDLASAIGAD  138 (186)
Q Consensus        76 ~iiIEtsG~~l~~-----~~-~~---------~~ad~~v~VvDa~~~~~~~~~~~~~--~~~adiivlNK~Dl~~~~~~~  138 (186)
                      +|||+|+|.+-..     .. .+         ..-+-+++|+|++.+..........  .-..+-++++|.|-.....  
T Consensus        91 ~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~~~~~lI~TKlDet~~~G--  168 (207)
T d1okkd2          91 LLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAVGLTGVIVTKLDGTAKGG--  168 (207)
T ss_dssp             EEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHHHHHHHHCCSEEEEECTTSSCCCT--
T ss_pred             EEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchHHHHHHHhhhccCCceEEEeccCCCCCcc--
Confidence            9999999931100     00 00         0124578999998875422111111  1125788999999765422  


Q ss_pred             HHHHHHHHHhhCCCCCEEEEeccCCCCHHHH
Q 029893          139 LAVMERDALRMRDGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       139 ~~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l  169 (186)
                        .+.......  ..||.++|  +|++.++|
T Consensus       169 --~~l~~~~~~--~~Pi~~i~--~Gq~p~Dl  193 (207)
T d1okkd2         169 --VLIPIVRTL--KVPIKFVG--VGEGPDDL  193 (207)
T ss_dssp             --THHHHHHHH--CCCEEEEE--CSSSTTCE
T ss_pred             --HHHHHHHHH--CCCEEEEe--CCCChHhC
Confidence              223333333  35888888  57776654

>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=96.62  E-value=0.00047  Score=51.52  Aligned_cols=148  Identities=17%  Similarity=0.175  Sum_probs=79.6

Q ss_pred             HHHHHHHhcC-CcEEEEEcccC-C-chhHHHH--HhcCCCCcCceEeccCCCcccCCcccccccCcchhHhhhhhcCCcE
Q 029893            2 LALCKFLRDK-YSLAAVTNDIF-T-KEDGEFL--MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADL   76 (186)
Q Consensus         2 ~~~~~~l~~~-~~vaVi~nd~g-~-~iD~~~i--~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~~~l~~l~~~~~~D~   76 (186)
                      -+|+.++++. ++|++|.-|-. . .++....  +..++    ++....++        +|+...+....+.....++|+
T Consensus        27 AKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v----~~~~~~~~--------~d~~~~l~~~~~~a~~~~~d~   94 (211)
T d2qy9a2          27 GKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNI----PVIAQHTG--------ADSASVIFDAIQAAKARNIDV   94 (211)
T ss_dssp             HHHHHHHHTTTCCEEEECCCTTCHHHHHHHHHHHHHTTC----CEECCSTT--------CCHHHHHHHHHHHHHHTTCSE
T ss_pred             HHHHHHHHHCCCcEEEEecccccccchhhhhhhhhhcCC----cccccccC--------CCHHHHHHHHHHHHHHcCCCE
Confidence            3677777654 99999999987 4 4553321  22333    23333222        232222211111222468999


Q ss_pred             EEEecCCCee-----EEee----e-ee-----cCceEEEEEeCCCCCCCccCCCCC--CCceeEEEEecCCCCCcccccH
Q 029893           77 LLCESGGDNL-----AANF----S-RE-----LADYIIYIIDVSGGDKIPRKGGPG--ITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        77 iiIEtsG~~l-----~~~~----~-~~-----~ad~~v~VvDa~~~~~~~~~~~~~--~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      |||+|+|-.-     ....    . ..     .-+-+++|+|++.+..........  .-..+-++++|.|-....    
T Consensus        95 ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~~~~~lIlTKlDe~~~~----  170 (211)
T d2qy9a2          95 LIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTAKG----  170 (211)
T ss_dssp             EEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTHHHHHHHHHHHHHSCCCEEEEECCTTCTTT----
T ss_pred             EEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCcchHHHHhhhhhccCCceEEEeecCCCCCc----
Confidence            9999999310     0000    0 00     124578999998764321111000  112578999999976542    


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l  169 (186)
                      -.+.......  ..||.+++  +|+++++|
T Consensus       171 G~~l~~~~~~--~~Pi~~i~--~Gq~v~Dl  196 (211)
T d2qy9a2         171 GVIFSVADQF--GIPIRYIG--VGERIEDL  196 (211)
T ss_dssp             THHHHHHHHH--CCCEEEEE--CSSSGGGE
T ss_pred             cHHHHHHHHH--CCCEEEEe--CCCCcccC
Confidence            2233333333  36898888  78888664

>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=96.60  E-value=0.00069  Score=48.78  Aligned_cols=105  Identities=13%  Similarity=0.102  Sum_probs=60.8

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCccC-------------------CCCCCCceeEEEEecC
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPRK-------------------GGPGITQADLLVINKT  129 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~~-------------------~~~~~~~adiivlNK~  129 (186)
                      ....+-+.++.|...-   .+..++.++.+++++|.++.......                   ....-..+.++++||+
T Consensus        42 ~~~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~  121 (200)
T d1zcba2          42 KNVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKT  121 (200)
T ss_dssp             TTEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECH
T ss_pred             eeeeeeeecccceeeecccccccccccceeEEEEEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccc
Confidence            4567778888883211   11223456888999998876432110                   0111245899999999


Q ss_pred             CCCCcc----------------cccHHHHHHHHHh----hC---CC--CCEEEEeccCCCCHHHHHHHHHHH
Q 029893          130 DLASAI----------------GADLAVMERDALR----MR---DG--GPFIFAQVKHGLGVEEIVNHILQA  176 (186)
Q Consensus       130 Dl~~~~----------------~~~~~~~~~~l~~----~~---p~--a~i~~~Sa~~g~gi~~l~~~i~~~  176 (186)
                      |+.+..                ....+...+.+..    .+   +.  ...++|||++++|++++|+.+.+.
T Consensus       122 Dl~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~iy~~~TsA~d~~ni~~vf~~v~d~  193 (200)
T d1zcba2         122 DLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDT  193 (200)
T ss_dssp             HHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHH
T ss_pred             hhhhhhccccHHHHhCccccCCcchHHHHHHHHHHHHHHhccCCCCCceEEEEeeeeCcHHHHHHHHHHHHH
Confidence            985320                0122333333322    22   11  234579999999999999987764

>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=96.29  E-value=0.0014  Score=46.66  Aligned_cols=105  Identities=14%  Similarity=0.081  Sum_probs=60.0

Q ss_pred             CCcEEEEecCCCee---EEeeeeecCceEEEEEeCCCCCCCccC--C-----------------CCCCCceeEEEEecCC
Q 029893           73 KADLLLCESGGDNL---AANFSRELADYIIYIIDVSGGDKIPRK--G-----------------GPGITQADLLVINKTD  130 (186)
Q Consensus        73 ~~D~iiIEtsG~~l---~~~~~~~~ad~~v~VvDa~~~~~~~~~--~-----------------~~~~~~adiivlNK~D  130 (186)
                      ...+-+.+|+|-..   ..+..++.++.+++++|.+..+.....  .                 ...-..+.++++||+|
T Consensus        41 ~~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d  120 (195)
T d1svsa1          41 DLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKD  120 (195)
T ss_dssp             TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHH
T ss_pred             eeeeeeeccccccccccchhhcccCCceeeeEEeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccch
Confidence            45666778888210   012234567999999998765432110  0                 0012347899999999


Q ss_pred             CCCcc---------------cccHHHH----HHHHHhhC---C--CCCEEEEeccCCCCHHHHHHHHHHHH
Q 029893          131 LASAI---------------GADLAVM----ERDALRMR---D--GGPFIFAQVKHGLGVEEIVNHILQAW  177 (186)
Q Consensus       131 l~~~~---------------~~~~~~~----~~~l~~~~---p--~a~i~~~Sa~~g~gi~~l~~~i~~~~  177 (186)
                      +....               .......    .......+   +  ...+++|||++|+|++++|+.+.+..
T Consensus       121 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~tSA~~~~nv~~~F~~v~~~i  191 (195)
T d1svsa1         121 LFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVI  191 (195)
T ss_dssp             HHHHHTTTSCGGGTCTTCCSCSSHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHH
T ss_pred             hhhhhccchHHHHHhhhhcCcccHHHHHHHHHHHHHHHhcccCCCcceeEEEEeECCHhHHHHHHHHHHHH
Confidence            63210               0112222    22222222   1  12466899999999999999887643

>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=96.21  E-value=0.00099  Score=49.74  Aligned_cols=148  Identities=16%  Similarity=0.154  Sum_probs=77.8

Q ss_pred             HHHHHHHhc-CCcEEEEEcccC-C-chhHHHH--HhcCCCCcCceEeccCCCcccCCcccccccCcchhHhhhhhcCCcE
Q 029893            2 LALCKFLRD-KYSLAAVTNDIF-T-KEDGEFL--MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADL   76 (186)
Q Consensus         2 ~~~~~~l~~-~~~vaVi~nd~g-~-~iD~~~i--~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~~~l~~l~~~~~~D~   76 (186)
                      -+++.++.. ++||++|.-|.. . .++....  +..++    ++....++        +|+...+.....+....++|+
T Consensus        29 AKLAa~~~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~i----~~~~~~~~--------~d~~~~~~~~~~~~~~~~~d~   96 (213)
T d1vmaa2          29 GKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVGA----TVISHSEG--------ADPAAVAFDAVAHALARNKDV   96 (213)
T ss_dssp             HHHHHHHHHTTCCEEEEEECTTCHHHHHHHHHHHHHHTC----EEECCSTT--------CCHHHHHHHHHHHHHHTTCSE
T ss_pred             HHHHHHHHHCCCceEEEeecccccchhHHHHHHhhhcCc----cccccCCC--------CcHHHHHHHHHHHHHHcCCCE
Confidence            356666665 499999999976 4 3442211  22233    22322221        122221112222333468999


Q ss_pred             EEEecCCCeeE-----Ee---e-ee------ecCceEEEEEeCCCCCCCccCCCC--CCCceeEEEEecCCCCCcccccH
Q 029893           77 LLCESGGDNLA-----AN---F-SR------ELADYIIYIIDVSGGDKIPRKGGP--GITQADLLVINKTDLASAIGADL  139 (186)
Q Consensus        77 iiIEtsG~~l~-----~~---~-~~------~~ad~~v~VvDa~~~~~~~~~~~~--~~~~adiivlNK~Dl~~~~~~~~  139 (186)
                      |||+|+|.+-.     ..   + ..      ..-+-+++|+|+..+.........  +.-..+-++++|.|-....    
T Consensus        97 ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~~~~~lI~TKlDe~~~~----  172 (213)
T d1vmaa2          97 VIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQNGLVQAKIFKEAVNVTGIILTKLDGTAKG----  172 (213)
T ss_dssp             EEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHHHHHHHHHHHHHHSCCCEEEEECGGGCSCT----
T ss_pred             EEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccCcchhhhhhhhccccCCceEEEecccCCCcc----
Confidence            99999993110     00   0 00      012457899999765321110000  0113678999999976442    


Q ss_pred             HHHHHHHHhhCCCCCEEEEeccCCCCHHHH
Q 029893          140 AVMERDALRMRDGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       140 ~~~~~~l~~~~p~a~i~~~Sa~~g~gi~~l  169 (186)
                      -.+.......  ..||.+++  +|+++++|
T Consensus       173 G~~l~~~~~~--~~Pi~~i~--~Gq~v~Dl  198 (213)
T d1vmaa2         173 GITLAIAREL--GIPIKFIG--VGEKAEDL  198 (213)
T ss_dssp             THHHHHHHHH--CCCEEEEE--CSSSGGGE
T ss_pred             cHHHHHHHHH--CCCEEEEe--CCCCcccC
Confidence            2333333333  35888888  68888665

>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=96.11  E-value=0.0022  Score=44.53  Aligned_cols=77  Identities=14%  Similarity=-0.026  Sum_probs=38.2

Q ss_pred             HHHHHHHhcC-CcEEEEEcccC-CchhHHHHH-----hcCCCCcCceEeccCCCc-ccCCcccccccCcchhHhh--hhh
Q 029893            2 LALCKFLRDK-YSLAAVTNDIF-TKEDGEFLM-----RNGALPEERIRAVETGGC-PHAAIREDISINLGPLEEL--SNL   71 (186)
Q Consensus         2 ~~~~~~l~~~-~~vaVi~nd~g-~~iD~~~i~-----~~~~~~~~~~~~l~~Gcc-c~l~~r~d~~~~~~~l~~l--~~~   71 (186)
                      ++++++|..+ .|++++.||++ ...|.....     ..+.   +.+..++.++| |..  .......+.....+  ...
T Consensus        20 ~~L~~~l~~~g~~v~v~~~d~~~~~~~~~~~d~~~~~~~~~---~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~   94 (170)
T d1np6a_          20 KKLIPALCARGIRPGLIKHTHHDMDVDKPGKDSYELRKAGA---AQTIVASQQRWALMT--ETPDEEELDLQFLASRMDT   94 (170)
T ss_dssp             HHHHHHHHHTTCCEEEEEECCC------------CHHHHTC---SEEEEECSSEEEEEE--ECSSSCCCCHHHHHHHSCG
T ss_pred             HHHHHHHHHCCCeEEEecccccccccccccCccHHHHHhhh---hheeeecCcceEEEe--ecccccccchHHHHHHhcc
Confidence            5677777764 99999999999 555544332     2222   23444444443 332  11111111112211  123


Q ss_pred             cCCcEEEEecCC
Q 029893           72 FKADLLLCESGG   83 (186)
Q Consensus        72 ~~~D~iiIEtsG   83 (186)
                      ..+|++++|+.+
T Consensus        95 ~~~d~~~ve~~~  106 (170)
T d1np6a_          95 SKLDLILVEGFK  106 (170)
T ss_dssp             GGCSEEEEESCS
T ss_pred             cccCceeEeecc
Confidence            478999999998

>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=96.04  E-value=0.00078  Score=54.85  Aligned_cols=110  Identities=10%  Similarity=0.005  Sum_probs=63.8

Q ss_pred             cCCcEEEEecCCCeeEE-e-------eeeecCceEEEEEeCCCCCC--CccCCCCCCCceeEEEEecCCCCCcc------
Q 029893           72 FKADLLLCESGGDNLAA-N-------FSRELADYIIYIIDVSGGDK--IPRKGGPGITQADLLVINKTDLASAI------  135 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~-~-------~~~~~ad~~v~VvDa~~~~~--~~~~~~~~~~~adiivlNK~Dl~~~~------  135 (186)
                      ..+.++|++|+|+.... .       .....+|+++++.|..-...  ...+.......+.++|+||+|...+.      
T Consensus       105 ~~~~~~l~DtPG~~~~~~~~~~~~~~~~~~~~d~~l~~~~~~~~~~d~~l~~~l~~~~k~~~~V~nK~D~~~~~~~~~~~  184 (400)
T d1tq4a_         105 NIPNVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFIIISATRFKKNDIDIAKAISMMKKEFYFVRTKVDSDITNEADGEP  184 (400)
T ss_dssp             SCTTEEEEECCCGGGSSCCHHHHHHHTTGGGCSEEEEEESSCCCHHHHHHHHHHHHTTCEEEEEECCHHHHHHHHHTTCC
T ss_pred             CCCeEEEEeCCCcccccccHHHHHHHhhhhcceEEEEecCCCCCHHHHHHHHHHHHcCCCEEEEEeCcccccchhhhccc
Confidence            46789999999953110 0       11223577777776432110  00111223567899999999964210      


Q ss_pred             -----cccHHHHHH----HHHhh-CCCCCEEEEeccC--CCCHHHHHHHHHHHHHHhh
Q 029893          136 -----GADLAVMER----DALRM-RDGGPFIFAQVKH--GLGVEEIVNHILQAWEAST  181 (186)
Q Consensus       136 -----~~~~~~~~~----~l~~~-~p~a~i~~~Sa~~--g~gi~~l~~~i~~~~~~~~  181 (186)
                           ...++.+++    .++.. .+..+|+.+|...  ..|+++|.+.+.+.+|..+
T Consensus       185 ~~~~~e~~l~~ir~~~~~~l~~~~~~~~~vflvS~~~~~~~d~~~L~~~l~~~L~~~~  242 (400)
T d1tq4a_         185 QTFDKEKVLQDIRLNCVNTFRENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPIYK  242 (400)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHHTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCGGG
T ss_pred             ccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEecCCcccccCHHHHHHHHHHHhHHHH
Confidence                 011222322    23332 3566899999764  4599999999988887644

>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=95.54  E-value=0.0029  Score=46.85  Aligned_cols=148  Identities=19%  Similarity=0.161  Sum_probs=73.8

Q ss_pred             HHHHHHHhcC-CcEEEEEcccC-C-chhHHHH--HhcCCCCcCceEeccCCCcccCCcccccccCcchhHhhhhhcCCcE
Q 029893            2 LALCKFLRDK-YSLAAVTNDIF-T-KEDGEFL--MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADL   76 (186)
Q Consensus         2 ~~~~~~l~~~-~~vaVi~nd~g-~-~iD~~~i--~~~~~~~~~~~~~l~~Gccc~l~~r~d~~~~~~~l~~l~~~~~~D~   76 (186)
                      -+|+.+++++ +|+++|.-|.. . .++....  +..++    ++....++        +|+.........+....++|+
T Consensus        28 aKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v----~~~~~~~~--------~~~~~~~~~~~~~~~~~~~d~   95 (207)
T d1ls1a2          28 AKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGV----PVLEVMDG--------ESPESIRRRVEEKARLEARDL   95 (207)
T ss_dssp             HHHHHHHHHTTCCEEEEECCSSCHHHHHHHHHHHHHHTC----CEEECCTT--------CCHHHHHHHHHHHHHHHTCCE
T ss_pred             HHHHHHHHHCCCcEEEEecccccchHHHHHHHHHHhcCC----cccccccc--------chhhHHHHHHHHHHhhccCcc
Confidence            3566667665 99999999976 4 4443211  22233    23332211        122211111223444568999


Q ss_pred             EEEecCCCeeEE-----ee----eeecCceEEEEEeCCCCCCCccCCCC--CCCceeEEEEecCCCCCcccccHHHHHHH
Q 029893           77 LLCESGGDNLAA-----NF----SRELADYIIYIIDVSGGDKIPRKGGP--GITQADLLVINKTDLASAIGADLAVMERD  145 (186)
Q Consensus        77 iiIEtsG~~l~~-----~~----~~~~ad~~v~VvDa~~~~~~~~~~~~--~~~~adiivlNK~Dl~~~~~~~~~~~~~~  145 (186)
                      |||+|+|.+-..     .+    .....+-+++|+|+..+.+.......  ..-..+-++++|.|-...    .-.+...
T Consensus        96 vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~~~~~~f~~~~~~~~~I~TKlDe~~~----~G~~l~~  171 (207)
T d1ls1a2          96 ILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVGVTGLVLTKLDGDAR----GGAALSA  171 (207)
T ss_dssp             EEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHHHHHHHHHTCCCEEEEECGGGCSS----CHHHHHH
T ss_pred             eeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHHHHHHHHHhhCCCCeeEEeecCcccc----chHHHHH
Confidence            999999931100     00    01123678899999876532211000  001246799999996543    2333443


Q ss_pred             HHhhCCCCCEEEEeccCCCCHHHH
Q 029893          146 ALRMRDGGPFIFAQVKHGLGVEEI  169 (186)
Q Consensus       146 l~~~~p~a~i~~~Sa~~g~gi~~l  169 (186)
                      ....  ..||.+++  +|+..++|
T Consensus       172 ~~~~--~~Pi~~i~--~Gq~pedl  191 (207)
T d1ls1a2         172 RHVT--GKPIYFAG--VSEKPEGL  191 (207)
T ss_dssp             HHHH--CCCEEEEC--------CC
T ss_pred             HHHH--CCCEEEEe--CCCChhhc
Confidence            3333  35887776  46655544

>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=95.31  E-value=0.0058  Score=43.40  Aligned_cols=107  Identities=12%  Similarity=0.022  Sum_probs=60.7

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCccC-------------C------CCCCCceeEEEEecC
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPRK-------------G------GPGITQADLLVINKT  129 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~~-------------~------~~~~~~adiivlNK~  129 (186)
                      .....-+.++.|-..-   .+..+..++.+++++|.+........             +      ...-..+-+++.||.
T Consensus        43 ~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~  122 (200)
T d2bcjq2          43 QSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKK  122 (200)
T ss_dssp             SSCEEEEEECCCSTTGGGGGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECH
T ss_pred             cceeeeeccccccccccccccccccccceeeEeeeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchh
Confidence            3456667778772110   11123456888999998765432110             0      011245789999999


Q ss_pred             CCCCccc----------------ccHHHHHHHH----HhhCC----CCCEEEEeccCCCCHHHHHHHHHHHHH
Q 029893          130 DLASAIG----------------ADLAVMERDA----LRMRD----GGPFIFAQVKHGLGVEEIVNHILQAWE  178 (186)
Q Consensus       130 Dl~~~~~----------------~~~~~~~~~l----~~~~p----~a~i~~~Sa~~g~gi~~l~~~i~~~~~  178 (186)
                      |+.....                .........+    ...++    ...+++|||++|+|++++|+.+.+..-
T Consensus       123 Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~tSAk~~~ni~~vF~~i~~~I~  195 (200)
T d2bcjq2         123 DLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTIL  195 (200)
T ss_dssp             HHHHHHTTTSCHHHHSTTCCSCSSCHHHHHHHHHHHHHTTCSCTTSCEEEEECCTTCHHHHHHHHHHHHHHHH
T ss_pred             hhhhhcccchHHHHhcccccCCchhHHHHHHHHHHHHHHhcccCCCceEEEEeEEEcCHhHHHHHHHHHHHHH
Confidence            9843210                1112222222    22222    123678999999999999999876553

>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=95.27  E-value=0.017  Score=41.60  Aligned_cols=63  Identities=19%  Similarity=0.227  Sum_probs=36.7

Q ss_pred             cCCcEEEEecCCCe-eEEe---eeeecCceEEEEEeCCCCCCCcc-------C----C-CCCCCceeEEEEecCCCCCc
Q 029893           72 FKADLLLCESGGDN-LAAN---FSRELADYIIYIIDVSGGDKIPR-------K----G-GPGITQADLLVINKTDLASA  134 (186)
Q Consensus        72 ~~~D~iiIEtsG~~-l~~~---~~~~~ad~~v~VvDa~~~~~~~~-------~----~-~~~~~~adiivlNK~Dl~~~  134 (186)
                      .+..+-+.++.|.. ....   .....++.+++|+|++.......       .    . ...-..|.+||+||+|+.+.
T Consensus        45 ~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a  123 (207)
T d2fh5b1          45 RGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMA  123 (207)
T ss_dssp             TCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTC
T ss_pred             eeeeeeeeeccccccccchhhhhhhhhccccceEEEcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCC
Confidence            46677888898831 0001   11234688999999986432100       0    0 01112467888999999865

>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=93.14  E-value=0.0062  Score=48.39  Aligned_cols=56  Identities=23%  Similarity=0.312  Sum_probs=37.0

Q ss_pred             EEEEecCCCeeE--Ee--eeeecCceEEEEEeCCCCCCCccC----CCCCCCceeEEEEecCCCC
Q 029893           76 LLLCESGGDNLA--AN--FSRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLA  132 (186)
Q Consensus        76 ~iiIEtsG~~l~--~~--~~~~~ad~~v~VvDa~~~~~~~~~----~~~~~~~adiivlNK~Dl~  132 (186)
                      +=||+|+| ...  ..  ...+.+|.+++|||+.+|...+..    .....+.+-++++||+|..
T Consensus        98 inliDtPG-h~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~~~~~p~i~viNKiDr~  161 (341)
T d1n0ua2          98 INLIDSPG-HVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALGERIKPVVVINKVDRA  161 (341)
T ss_dssp             EEEECCCC-CCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHHTTCEEEEEEECHHHH
T ss_pred             EEEEcCCC-cHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHHHHHcCCCeEEEEECcccc
Confidence            44799999 210  00  122457999999999998764321    1222455889999999964

>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=91.74  E-value=0.033  Score=40.81  Aligned_cols=62  Identities=21%  Similarity=0.174  Sum_probs=36.7

Q ss_pred             cCCcEEEEecCCCeeE---EeeeeecCceEEEEEeCCCCCCCccC--C-----------------CCCCCceeEEEEecC
Q 029893           72 FKADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPRK--G-----------------GPGITQADLLVINKT  129 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~---~~~~~~~ad~~v~VvDa~~~~~~~~~--~-----------------~~~~~~adiivlNK~  129 (186)
                      .+..+-+.++.|-..-   ....++.++.+++++|.+..+.....  .                 ...-..+.+|++||+
T Consensus        45 ~~~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~  124 (221)
T d1azta2          45 DKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQ  124 (221)
T ss_dssp             TTEEEEEEECCCSTTTTTGGGGGCTTCSEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECH
T ss_pred             CcEEEEEEecCccceeccchhhhcccccceEEEEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechh
Confidence            3566778888882110   11123457889999998765432110  0                 001235889999999


Q ss_pred             CCCC
Q 029893          130 DLAS  133 (186)
Q Consensus       130 Dl~~  133 (186)
                      |+.+
T Consensus       125 Dl~~  128 (221)
T d1azta2         125 DLLA  128 (221)
T ss_dssp             HHHH
T ss_pred             hhhh
Confidence            9854

>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=82.38  E-value=1.1  Score=32.98  Aligned_cols=64  Identities=11%  Similarity=0.162  Sum_probs=36.7

Q ss_pred             hcCCcEEEEecCCCeeEEee------------eeecCceEEEEEeCCCCC--CCc--------cCCCCCCCceeEEEEec
Q 029893           71 LFKADLLLCESGGDNLAANF------------SRELADYIIYIIDVSGGD--KIP--------RKGGPGITQADLLVINK  128 (186)
Q Consensus        71 ~~~~D~iiIEtsG~~l~~~~------------~~~~ad~~v~VvDa~~~~--~~~--------~~~~~~~~~adiivlNK  128 (186)
                      ..+..++||+|+|+.-....            .....+.+++|++.....  ...        ..+...+-...++|+||
T Consensus        77 ~~g~~i~viDTPGl~~~~~~~~~~~~~i~~~~~~~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~~~~~~ivv~t~  156 (257)
T d1h65a_          77 RAGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTH  156 (257)
T ss_dssp             ETTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEEC
T ss_pred             eccEEEEEEeeecccCCcchHHHHHHHHHHHHhcCCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcchhhhhCEEEEEEC
Confidence            34678999999995210000            001236777887765431  100        01223344467999999


Q ss_pred             CCCCCc
Q 029893          129 TDLASA  134 (186)
Q Consensus       129 ~Dl~~~  134 (186)
                      +|..++
T Consensus       157 ~D~~~~  162 (257)
T d1h65a_         157 AQFSPP  162 (257)
T ss_dssp             CSCCCG
T ss_pred             cccCCc
Confidence            999875

>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=80.42  E-value=0.8  Score=31.84  Aligned_cols=63  Identities=16%  Similarity=0.145  Sum_probs=36.5

Q ss_pred             cCCcEEEEecCCCeeEE-----ee--eeecCceEEEEEeCCCCCCCcc-------------CCCCCCCceeEEEEecCCC
Q 029893           72 FKADLLLCESGGDNLAA-----NF--SRELADYIIYIIDVSGGDKIPR-------------KGGPGITQADLLVINKTDL  131 (186)
Q Consensus        72 ~~~D~iiIEtsG~~l~~-----~~--~~~~ad~~v~VvDa~~~~~~~~-------------~~~~~~~~adiivlNK~Dl  131 (186)
                      .+..+.++++.|..-..     .+  .....+.++.++|+........             .....-..|.++|+||+|+
T Consensus        44 ~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~  123 (209)
T d1nrjb_          44 DGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSEL  123 (209)
T ss_dssp             GGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTS
T ss_pred             CCeEEEEEecccccchhhHHHHHHHHHhhhccccceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeecc
Confidence            45667889999931000     00  1112467888999876432211             0111234578999999999


Q ss_pred             CCc
Q 029893          132 ASA  134 (186)
Q Consensus       132 ~~~  134 (186)
                      .+.
T Consensus       124 ~~~  126 (209)
T d1nrjb_         124 FTA  126 (209)
T ss_dssp             TTC
T ss_pred             ccc
Confidence            865