Psyllid ID: psy2401

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360---
Protein Sequence
MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFLFNI
Secondary Structure (PSIPRED)
ccccccEEccccccHHHHHHHHHcccHHHccccccccccccEEEccccHHHHHHHHHcccccEEccEEEEEEEccccccccccccccHHHHHcccccccEEEEEcccccccEEEEccccccccHHHHHHHHHHHHcHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHccccccccEEEEEccccccccccHHHHHHHHHHHHccccEEEEEHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHcccccccccccccccEEEEcccccccccHHHHccccccccccHHHEEccHHHHHHHccHHHHHHHccccccccccEEccccEEEEEccc
Secondary Structure Prediction (SSPRO)
cccEEEEEccccccHHHHHHHHHcccEEHccccccEEcccccEEEcccHHHHHHHHHHccccEEEEEEEEEEHHHHHccccccccccHHHHHHHHHHcEEEEEEEEcccccEEEEccccccHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHccccEEEEcccHHHHHHHHHHccHccccEEEEEEcccccccccHHHHHHHHHHHHccccEEEEHHHHHHHHHHccHHHHHHHHHHHccccccHHHHHHHHHHHHccHHEEEccccEEEEEEEccccccccccEEEEccccccEEEEEEEEHHHHHHcccHHHHHHcccEEEcccEEEEEcccEEEEEEcc
Coil and Loop (DISEMBL)
mnlkcgliglpnvgksTLFNALTKLKIsaenypfctiepnigiievpdKRLKHLNNIVKTKKIFPAIIKLVDIAglvsgaskgeglgNKFLAHIRETNIVIHVIRCfkddkithisgeinpihdaevIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKengfknnlLLDQLKIYAHNQNIPIIIICAKLEEEISdlnnidkkffldnlglketklNDLIRASFSLLDLRTYFTVGKKEirawtipngttaeqAAGIIHTDIKRGFIRALTISYKDFllykgeqgcknagKIRSEGkkylvedgdilNFLFNI
Flexible Loop (DISEMBL)
mnlkcgliglpnvgKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKkeirawtipngttaeqaAGIIHTDIKRGFIRALTISYKDFLLYkgeqgcknagkirsegkkylvedgdilnflfni
Low Complexity Region (SEG)
MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFLFNI
Disordered region (IsUnstruct)
***KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFLF**
Disordered Region (DISOPRED)
MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKY*****************LLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFLFNI
Disordered Region (DISEMBL)
MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFLFNI
Disordered Region (DISPRO)
*NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFLFNI
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFLFNI
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	363	2.2.26 [Sep-21-2011]
P0ABU4	363	GTP-dependent nucleic aci	yes	N/A	1.0	1.0	0.526	1e-115
P0ABU2	363	GTP-dependent nucleic aci	N/A	N/A	1.0	1.0	0.526	1e-115
P0ABU3	363	GTP-dependent nucleic aci	N/A	N/A	1.0	1.0	0.526	1e-115
Q9CP90	363	GTP-dependent nucleic aci	yes	N/A	1.0	1.0	0.515	1e-111
P44681	363	GTP-dependent nucleic aci	yes	N/A	1.0	1.0	0.509	1e-110
Q7VMI2	363	GTP-dependent nucleic aci	yes	N/A	1.0	1.0	0.506	1e-108
P37518	366	GTP-dependent nucleic aci	yes	N/A	1.0	0.991	0.480	1e-104
Q8K9V2	362	GTP-dependent nucleic aci	yes	N/A	0.997	1.0	0.471	2e-92
P57288	362	GTP-dependent nucleic aci	yes	N/A	0.997	1.0	0.482	7e-90
Q89AR6	363	GTP-dependent nucleic aci	yes	N/A	0.986	0.986	0.445	3e-86

>sp|P0ABU4|ENGD_SHIFL GTP-dependent nucleic acid-binding protein EngD OS=Shigella flexneri GN=engD PE=3 SV=2

 Score =  415 bits (1066), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 191/363 (52%), Positives = 267/363 (73%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M  KCG++GLPNVGKSTLFNALTK  I A N+PFCTIEPN G++ +PD RL  L  IVK 
Sbjct: 1   MGFKCGIVGLPNVGKSTLFNALTKAGIEAANFPFCTIEPNTGVVPMPDPRLDQLAEIVKP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           ++  P  ++ VDIAGLV GASKGEGLGN+FL +IRET  + HV+RCF++D I H+SG++N
Sbjct: 61  QRTLPTTMEFVDIAGLVKGASKGEGLGNQFLTNIRETEAIGHVVRCFENDNIIHVSGKVN 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           P  D EVI TEL L+DL   E+ I +  KK    ++ +   L +L++ +  L  +  +R 
Sbjct: 121 PADDIEVINTELALADLDTCERAIHRVQKKAKGGDKDAKAELAVLEKCLPQLENAGMLRA 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           + L+ EE  +I++L+ LT+KP +++ANV E+GF+NN  LDQ++  A  +   ++ +CA +
Sbjct: 181 LDLSAEEKAAIRYLSFLTLKPTMYIANVNEDGFENNPYLDQVREIAAKEGSVVVPVCAAV 240

Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
           E +I++L++ ++  F+  LGL+E  LN +IRA + LL+L+TYFT G KE+RAWTIP G T
Sbjct: 241 EADIAELDDEERDEFMQELGLEEPGLNRVIRAGYKLLNLQTYFTAGVKEVRAWTIPVGAT 300

Query: 301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
           A QAAG IHTD ++GFIRA TIS++DF+ YKGEQG K AGK+R+EGK Y+V+DGD++NFL
Sbjct: 301 APQAAGKIHTDFEKGFIRAQTISFEDFITYKGEQGAKEAGKMRAEGKDYIVKDGDVMNFL 360

Query: 361 FNI 363
           FN+
Sbjct: 361 FNV 363

GTP-dependent nucleic acid-binding protein which may act as a translation factor.
Shigella flexneri (taxid: 623)

>sp|P0ABU2|ENGD_ECOLI GTP-dependent nucleic acid-binding protein EngD OS=Escherichia coli (strain K12) GN=engD PE=1 SV=2

 Score =  415 bits (1066), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 191/363 (52%), Positives = 267/363 (73%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M  KCG++GLPNVGKSTLFNALTK  I A N+PFCTIEPN G++ +PD RL  L  IVK 
Sbjct: 1   MGFKCGIVGLPNVGKSTLFNALTKAGIEAANFPFCTIEPNTGVVPMPDPRLDQLAEIVKP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           ++  P  ++ VDIAGLV GASKGEGLGN+FL +IRET  + HV+RCF++D I H+SG++N
Sbjct: 61  QRTLPTTMEFVDIAGLVKGASKGEGLGNQFLTNIRETEAIGHVVRCFENDNIIHVSGKVN 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           P  D EVI TEL L+DL   E+ I +  KK    ++ +   L +L++ +  L  +  +R 
Sbjct: 121 PADDIEVINTELALADLDTCERAIHRVQKKAKGGDKDAKAELAVLEKCLPQLENAGMLRA 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           + L+ EE  +I++L+ LT+KP +++ANV E+GF+NN  LDQ++  A  +   ++ +CA +
Sbjct: 181 LDLSAEEKAAIRYLSFLTLKPTMYIANVNEDGFENNPYLDQVREIAAKEGSVVVPVCAAV 240

Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
           E +I++L++ ++  F+  LGL+E  LN +IRA + LL+L+TYFT G KE+RAWTIP G T
Sbjct: 241 EADIAELDDEERDEFMQELGLEEPGLNRVIRAGYKLLNLQTYFTAGVKEVRAWTIPVGAT 300

Query: 301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
           A QAAG IHTD ++GFIRA TIS++DF+ YKGEQG K AGK+R+EGK Y+V+DGD++NFL
Sbjct: 301 APQAAGKIHTDFEKGFIRAQTISFEDFITYKGEQGAKEAGKMRAEGKDYIVKDGDVMNFL 360

Query: 361 FNI 363
           FN+
Sbjct: 361 FNV 363

GTP-dependent nucleic acid-binding protein which may act as a translation factor.

Escherichia coli (strain K12) (taxid: 83333)

>sp|P0ABU3|ENGD_ECO57 GTP-dependent nucleic acid-binding protein EngD OS=Escherichia coli O157:H7 GN=engD PE=3 SV=2

 Score =  415 bits (1066), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 191/363 (52%), Positives = 267/363 (73%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M  KCG++GLPNVGKSTLFNALTK  I A N+PFCTIEPN G++ +PD RL  L  IVK 
Sbjct: 1   MGFKCGIVGLPNVGKSTLFNALTKAGIEAANFPFCTIEPNTGVVPMPDPRLDQLAEIVKP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           ++  P  ++ VDIAGLV GASKGEGLGN+FL +IRET  + HV+RCF++D I H+SG++N
Sbjct: 61  QRTLPTTMEFVDIAGLVKGASKGEGLGNQFLTNIRETEAIGHVVRCFENDNIIHVSGKVN 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           P  D EVI TEL L+DL   E+ I +  KK    ++ +   L +L++ +  L  +  +R 
Sbjct: 121 PADDIEVINTELALADLDTCERAIHRVQKKAKGGDKDAKAELAVLEKCLPQLENAGMLRA 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           + L+ EE  +I++L+ LT+KP +++ANV E+GF+NN  LDQ++  A  +   ++ +CA +
Sbjct: 181 LDLSAEEKAAIRYLSFLTLKPTMYIANVNEDGFENNPYLDQVREIAAKEGSVVVPVCAAV 240

Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
           E +I++L++ ++  F+  LGL+E  LN +IRA + LL+L+TYFT G KE+RAWTIP G T
Sbjct: 241 EADIAELDDEERDEFMQELGLEEPGLNRVIRAGYKLLNLQTYFTAGVKEVRAWTIPVGAT 300

Query: 301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
           A QAAG IHTD ++GFIRA TIS++DF+ YKGEQG K AGK+R+EGK Y+V+DGD++NFL
Sbjct: 301 APQAAGKIHTDFEKGFIRAQTISFEDFITYKGEQGAKEAGKMRAEGKDYIVKDGDVMNFL 360

Query: 361 FNI 363
           FN+
Sbjct: 361 FNV 363

GTP-dependent nucleic acid-binding protein which may act as a translation factor.

Escherichia coli O157:H7 (taxid: 83334)

>sp|Q9CP90|ENGD_PASMU GTP-dependent nucleic acid-binding protein EngD OS=Pasteurella multocida (strain Pm70) GN=engD PE=3 SV=3

 Score =  401 bits (1031), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 187/363 (51%), Positives = 265/363 (73%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M  KCG++GLPNVGKSTLFNALTK  I A NYPFCTIEPN G++ +PD RL  L  IVK 
Sbjct: 1   MGFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           +++ P  ++ VDIAGLV+GASKGEGLGNKFLA+IRET+ + HV+RCF++D I H++G+IN
Sbjct: 61  ERVLPTTMEFVDIAGLVAGASKGEGLGNKFLANIRETDAIGHVVRCFENDDIVHVAGQIN 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           P  D + I TEL L+DL   E+ I +  K+    ++ +   L ++++I+  L  +  IR 
Sbjct: 121 PAEDIDTINTELALADLDSCERAIQRLQKRAKGGDKDAKFELSIMEKILPVLENAGMIRS 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           + L+ +EL +IK  N LT+KP +++ANV E+GF+NN  LD+++  A  +   ++ +CA +
Sbjct: 181 IDLDKDELQAIKGYNFLTLKPTMYIANVNEDGFENNPYLDRVREIAEKEGAVVVPVCAAI 240

Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
           E EI++L++ +K  FL +LG++E  LN +IRA + LL+L+TYFT G KE+RAWTIP G T
Sbjct: 241 ESEIAELDDDEKIEFLQDLGIEEPGLNRVIRAGYKLLNLQTYFTAGVKEVRAWTIPIGAT 300

Query: 301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
           A ++A +IHTD ++GFIRA  I+Y DF+ YKGE G K AGK R EGK Y+V+DGD+++F 
Sbjct: 301 APKSAAVIHTDFEKGFIRAEVIAYDDFIQYKGEAGAKEAGKWRLEGKDYIVQDGDVMHFR 360

Query: 361 FNI 363
           FN+
Sbjct: 361 FNV 363

GTP-dependent nucleic acid-binding protein which may act as a translation factor.

Pasteurella multocida (strain Pm70) (taxid: 272843)

>sp|P44681|ENGD_HAEIN GTP-dependent nucleic acid-binding protein EngD OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=engD PE=1 SV=2

 Score =  397 bits (1020), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 185/363 (50%), Positives = 266/363 (73%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M  KCG++GLPNVGKSTLFNALTK  I A NYPFCTIEPN G++ +PD RL  L  IVK 
Sbjct: 1   MGFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           ++I P  ++ VDIAGLV+GASKGEGLGNKFLA+IRET+ + HV+RCF++D I H++G+I+
Sbjct: 61  ERILPTTMEFVDIAGLVAGASKGEGLGNKFLANIRETDAIGHVVRCFENDDIVHVAGKID 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           P+ D + I TEL L+DL   E+ I +  K+    ++ +   L ++++I+  L  +  IR 
Sbjct: 121 PLDDIDTINTELALADLDSCERAIQRLQKRAKGGDKEAKFELSVMEKILPVLENAGMIRS 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           + L+ EEL +IK  N LT+KP +++ANV E+GF+NN  LD+++  A  +   ++ +CA +
Sbjct: 181 VGLDKEELQAIKSYNFLTLKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAAI 240

Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
           E EI++L++ +K  FL +LG++E  LN +IRA ++LL+L+TYFT G KE+RAWT+  G T
Sbjct: 241 ESEIAELDDEEKVEFLQDLGIEEPGLNRVIRAGYALLNLQTYFTAGVKEVRAWTVSVGAT 300

Query: 301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
           A +AA +IHTD ++GFIRA  I+Y+DF+ + GE G K AGK R EGK Y+V+DGD+++F 
Sbjct: 301 APKAAAVIHTDFEKGFIRAEVIAYEDFIQFNGENGAKEAGKWRLEGKDYIVQDGDVMHFR 360

Query: 361 FNI 363
           FN+
Sbjct: 361 FNV 363

GTP-dependent nucleic acid-binding protein which may act as a translation factor.

Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) (taxid: 71421)

>sp|Q7VMI2|ENGD_HAEDU GTP-dependent nucleic acid-binding protein EngD OS=Haemophilus ducreyi (strain 35000HP / ATCC 700724) GN=engD PE=3 SV=3

 Score =  393 bits (1010), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 184/363 (50%), Positives = 262/363 (72%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M  KCG++GLPNVGKSTLFNALTK  I A NYPFCTIEPN G++ +PD RL  L  IV  
Sbjct: 1   MGFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVNP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           +++ P  ++ VDIAGLV+GASKGEGLGNKFLA+IRET+ + HV+RCF++D I H++G+I+
Sbjct: 61  ERVLPTTMEFVDIAGLVAGASKGEGLGNKFLANIRETDAIGHVVRCFENDDIVHVAGKID 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           P  D E I TEL L+DL   E+ I +  K+    ++ +   L +L++I+  L  +  IR 
Sbjct: 121 PADDIETINTELALADLDSCERAIQRLQKRAKSGDKDAKFELSILEKILPVLENAGMIRS 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           ++L+ +EL +IK  N LT+KP +++ANV E+ F+NN  LD+++  A  +   ++ +CA +
Sbjct: 181 VALDKDELHAIKGYNFLTLKPTMYIANVNEDSFENNPYLDRVRQLAEQEGAVVVPVCAAI 240

Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
           E EI++L + +K  FL +LG++E  LN +IRA + LL+L+TYFT G KE+RAWT+  G T
Sbjct: 241 EAEIAELEDEEKVDFLQDLGIEEPGLNRVIRAGYRLLNLQTYFTAGVKEVRAWTVAVGAT 300

Query: 301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
           A +AA +IHTD ++GFIRA  I+Y DF+ +KGE G K AGK R EGK Y+V+DGD+++F 
Sbjct: 301 APKAAAVIHTDFEKGFIRAEVIAYDDFIQFKGENGAKEAGKWRLEGKDYIVQDGDVMHFR 360

Query: 361 FNI 363
           FN+
Sbjct: 361 FNV 363

GTP-dependent nucleic acid-binding protein which may act as a translation factor.

Haemophilus ducreyi (strain 35000HP / ATCC 700724) (taxid: 233412)

>sp|P37518|ENGD_BACSU GTP-dependent nucleic acid-binding protein EngD OS=Bacillus subtilis (strain 168) GN=engD PE=3 SV=1

 Score =  377 bits (968), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 176/366 (48%), Positives = 255/366 (69%), Gaps = 3/366 (0%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M L  G++GLPNVGKSTLFNA+T+    + NYPFCTI+PN+GI+EVPD RL+ L  +V  
Sbjct: 1   MALTAGIVGLPNVGKSTLFNAITQAGAESANYPFCTIDPNVGIVEVPDDRLQKLTELVNP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           KK  P   +  DIAG+V GASKGEGLGNKFL+HIR+ + + HV+R F DD ITH+SG+++
Sbjct: 61  KKTVPTAFEFTDIAGIVKGASKGEGLGNKFLSHIRQVDAICHVVRAFSDDNITHVSGKVD 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           PI D E I  ELIL+D+  +EK I + +K    K++ ++   ++L ++        P R 
Sbjct: 121 PIDDIETINLELILADMETVEKRITRVSKLAKQKDKDAVFEFEILSKLKEAFESEKPARS 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKN---NLLLDQLKIYAHNQNIPIIIIC 237
           +    E+   +K L+LLT KPI++VANV E+   +   N  + +++ YA  +N  +I++C
Sbjct: 181 VEFTEEQQKLVKQLHLLTSKPILYVANVSEDEVADPSGNENVAKIREYAAGENAEVIVVC 240

Query: 238 AKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPN 297
           AK+E EI++L   +K+ FL+ LG++E+ L+ LI+AS+SLL L TYFT G++E+RAWT   
Sbjct: 241 AKIESEIAELEGEEKQMFLEELGIQESGLDQLIKASYSLLGLATYFTAGEQEVRAWTFKK 300

Query: 298 GTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDIL 357
           G  A + AGIIH+D +RGFIRA T++Y+D L   G  G K AGK+R EGK+Y+V+DGD++
Sbjct: 301 GMKAPECAGIIHSDFERGFIRAETVAYEDLLAGGGMAGAKEAGKVRLEGKEYVVQDGDVI 360

Query: 358 NFLFNI 363
           +F FN+
Sbjct: 361 HFRFNV 366

GTP-dependent nucleic acid-binding protein which may act as a translation factor.

Bacillus subtilis (strain 168) (taxid: 224308)

>sp|Q8K9V2|ENGD_BUCAP GTP-dependent nucleic acid-binding protein EngD OS=Buchnera aphidicola subsp. Schizaphis graminum (strain Sg) GN=engD PE=3 SV=3

 Score =  339 bits (869), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 171/363 (47%), Positives = 248/363 (68%), Gaps = 1/363 (0%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M  KCG+IGLPNVGKSTLFN LTK   +  N+PFCTI+PNIGI+ VPD R+ +L+ I+  
Sbjct: 1   MGFKCGIIGLPNVGKSTLFNVLTKGNSAVANFPFCTIKPNIGIVSVPDNRINNLSKIILP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           KKI  A I+ VDIAGLV GASKGEGLGN+FL++IR+T+ + HV+RCFKDD ++HI  ++ 
Sbjct: 61  KKITNAFIEFVDIAGLVKGASKGEGLGNQFLSNIRDTHAIAHVVRCFKDDNVSHIYNQLQ 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           P  D ++I +ELIL+D    EK I K  KK     +   E L +L + + +L K + ++ 
Sbjct: 121 PKIDVDIINSELILADFETCEKSILKLQKKLNFNKKEIEEKLVVLSKCLDHLKKFLMLKT 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           + L+  E   I +L  LT+KP +++AN+ E   ++   L++L+  A  +   +I I + L
Sbjct: 181 LELDENEKKIISYLRFLTLKPTMYIANINEQK-ESCFFLNELEKMAKKEGSSVIPINSNL 239

Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
           E ++  +N  ++K+F+ +  +    LN++I++ + +L+L T+FT G KE+RAW IPNG+T
Sbjct: 240 ELDLIKMNEDEQKYFMKSFNITNLGLNNIIKSGYKILNLITFFTAGIKEVRAWAIPNGST 299

Query: 301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
           + QAA  IH+D +RGFIRA  I+Y DF+ YK E   K AGK RSEGK Y ++DGDI+NFL
Sbjct: 300 SLQAADKIHSDFRRGFIRAQIINYLDFIKYKSETKVKEAGKYRSEGKFYQIQDGDIINFL 359

Query: 361 FNI 363
           FN+
Sbjct: 360 FNV 362

GTP-dependent nucleic acid-binding protein which may act as a translation factor.

Buchnera aphidicola subsp. Schizaphis graminum (strain Sg) (taxid: 198804)

>sp|P57288|ENGD_BUCAI GTP-dependent nucleic acid-binding protein EngD OS=Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) GN=engD PE=3 SV=3

 Score =  330 bits (847), Expect = 7e-90,   Method: Compositional matrix adjust.
 Identities = 175/363 (48%), Positives = 247/363 (68%), Gaps = 1/363 (0%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M  KCG+IGLPNVGKSTLFN LTK   +  N+PFCTI+PNIGI+ V D+R+ +LN IV  
Sbjct: 1   MGFKCGIIGLPNVGKSTLFNLLTKGNSAVANFPFCTIKPNIGIVPVIDERINNLNQIVSP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           +K   A I+ +DIAGLV GAS+GEGLGN+FL +IR+ + + HV+RCFKDD ITHI  ++ 
Sbjct: 61  QKTVNAFIEFIDIAGLVKGASQGEGLGNQFLGNIRDVHAIAHVVRCFKDDNITHIYNQVQ 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           PI D ++I +ELILSD  + EK I K  KK  LKN+ + E +  LK+ + +L +   ++ 
Sbjct: 121 PIKDIDIINSELILSDFDLCEKTILKLQKKTLLKNKETQEKINTLKKCLNHLKQFFMLKT 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           ++LN  E   I +L  LT+KP +++AN+ E   ++   LD+L   A  +   +I I A L
Sbjct: 181 LNLNKTEKQLISYLRFLTLKPTMYIANINEEK-ESYYFLDKLNEIAKKEGSIVIPIHANL 239

Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
           E ++  +++ +KK F+    +K   LN +I + + LL+L T+FTVG KEIRAW IPNG+T
Sbjct: 240 ELDLVKMSDEEKKSFMKLFNIKTLGLNSIISSGYHLLNLITFFTVGDKEIRAWAIPNGST 299

Query: 301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
           + +AA  IH+D  +GFIRA  I Y DF+ YK E   K  GK R+EGK+Y ++DGDI++FL
Sbjct: 300 SIEAAHKIHSDFSKGFIRAQIIKYVDFITYKSEAKIKEMGKFRTEGKQYYIQDGDIIHFL 359

Query: 361 FNI 363
           FN+
Sbjct: 360 FNV 362

GTP-dependent nucleic acid-binding protein which may act as a translation factor.

Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) (taxid: 107806)

>sp|Q89AR6|ENGD_BUCBP GTP-dependent nucleic acid-binding protein EngD OS=Buchnera aphidicola subsp. Baizongia pistaciae (strain Bp) GN=engD PE=3 SV=3

 Score =  318 bits (816), Expect = 3e-86,   Method: Compositional matrix adjust.
 Identities = 164/368 (44%), Positives = 240/368 (65%), Gaps = 10/368 (2%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M  KCG +GLPNVGKSTLFN LTKL I A+NYPFCTI+ N+GI+ V D RL  +  +V +
Sbjct: 1   MGFKCGFVGLPNVGKSTLFNYLTKLNIPADNYPFCTIKSNVGIVPVLDNRLNKIAQVVCS 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
            KI PA I+LVDIAGLV GA KGEGLGN+FL HIR+TN+++H++RCF++  +THI G ++
Sbjct: 61  NKIIPATIELVDIAGLVKGAYKGEGLGNQFLDHIRDTNVIMHIVRCFENRYVTHIYGSVD 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           P+ D ++I  ELILSD+ + +  + K        N+   + L +LK+ +++L KS  +R 
Sbjct: 121 PVRDVQIINLELILSDIEVCKNRMCKLEINKLSHNKQVNKELLILKKCVYHLEKSKSLRS 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           ++L  EE+  I +L L+T+KP++++ N+  +  +N    +   I  +  N   + +C  L
Sbjct: 181 LNLTEEEIFVINYLRLITLKPVVYIFNISIDQSRNLYKREIFDIIKNEHNAKTVNVCLDL 240

Query: 241 EEEISDLNNIDKKFFLDNLGLKETK-----LNDLIRASFSLLDLRTYFTVGKKEIRAWTI 295
            +  S  N++      D+L LK  +     L ++I A F+ L+L T+FT GKKE+ AWT 
Sbjct: 241 MQ--SSKNDVSA---YDHLSLKYKQLFNKMLKNVIWAGFNALNLITFFTAGKKEVHAWTT 295

Query: 296 PNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGD 355
            N     Q+   IHTD+ +GFIRA  ISY DF+ YKGE+  K  GKIR EGK+Y++ DGD
Sbjct: 296 TNNLFIFQSVKCIHTDLSKGFIRAQVISYDDFIKYKGEKRSKELGKIRIEGKRYVICDGD 355

Query: 356 ILNFLFNI 363
           I++ L+N+
Sbjct: 356 IIHVLYNV 363

GTP-dependent nucleic acid-binding protein which may act as a translation factor.

Buchnera aphidicola subsp. Baizongia pistaciae (strain Bp) (taxid: 224915)

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	363
152980990	363	hypothetical protein mma_3131 [Janthinob	1.0	1.0	0.600	1e-133
340785801	363	GTP-binding and nucleic acid-binding pro	1.0	1.0	0.597	1e-131
445494507	363	GTP-dependent nucleic acid-binding prote	1.0	1.0	0.584	1e-130
134096056	363	GTP-binding protein [Herminiimonas arsen	1.0	1.0	0.592	1e-130
329908412	363	GTP-binding and nucleic acid-binding pro	1.0	1.0	0.584	1e-130
427399525	363	GTP-binding protein YchF [Massilia timon	1.0	1.0	0.586	1e-130
395760761	363	GTP-binding protein YchF [Janthinobacter	1.0	1.0	0.586	1e-129
398835234	363	GTP-binding protein YchF [Herbaspirillum	1.0	1.0	0.573	1e-129
415909464	370	GTP-dependent nucleic acid-binding prote	1.0	0.981	0.578	1e-129
399019247	363	GTP-binding protein YchF [Herbaspirillum	1.0	1.0	0.573	1e-128

>gi|152980990|ref|YP_001354821.1| hypothetical protein mma_3131 [Janthinobacterium sp. Marseille] gi|151281067|gb|ABR89477.1| Uncharacterized conserved protein [Janthinobacterium sp. Marseille]

 Score =  481 bits (1237), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 218/363 (60%), Positives = 291/363 (80%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M+LKCG++GLPNVGKSTLFNALTK  I AENYPFCTIEPN+G++EVPD RL+ L  IVK 
Sbjct: 1   MSLKCGIVGLPNVGKSTLFNALTKAGIPAENYPFCTIEPNVGMVEVPDPRLQALAEIVKP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           ++I PA ++ VDIAGLV+GASKGEGLGN+FLAHIRET+ +++V+RCF+DD + H++G+IN
Sbjct: 61  ERILPATVEFVDIAGLVAGASKGEGLGNQFLAHIRETDAIVNVVRCFEDDNVIHVAGKIN 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           P+ D EVIQTEL L+D+  +EK I +ENKK    ++ + +L+ LL+RI+ +L+++ P+R 
Sbjct: 121 PLDDIEVIQTELALADMGTVEKAIHRENKKARSGDKDASKLVALLERIMPHLDEAKPVRA 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           M L+ EE+  IK L L+T KP ++V NV ++GF +N LLDQL  YA +QN P++ ICA +
Sbjct: 181 MGLDKEEMELIKPLCLITAKPAMYVGNVSDSGFTDNPLLDQLTAYAKSQNAPVVAICAAI 240

Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
           E EI+DL   DKK FL ++G++E  L+ LIRA F LL L++YFT G KE+RAWTIP G T
Sbjct: 241 ESEIADLEEADKKEFLADMGMEEPGLDRLIRAGFKLLGLQSYFTAGVKEVRAWTIPVGAT 300

Query: 301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
           A QAAG+IHTD +RGFIRA TISY+D++ YKGE G K AGK+R+EGK+Y+V+DGD+LNFL
Sbjct: 301 APQAAGVIHTDFERGFIRAQTISYEDYITYKGENGAKEAGKMRAEGKEYIVKDGDVLNFL 360

Query: 361 FNI 363
           FN+
Sbjct: 361 FNV 363

Source: Janthinobacterium sp. Marseille

Species: Janthinobacterium sp. Marseille

Genus: Janthinobacterium

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|340785801|ref|YP_004751266.1| GTP-binding and nucleic acid-binding protein [Collimonas fungivorans Ter331] gi|340551068|gb|AEK60443.1| GTP-binding and nucleic acid-binding protein [Collimonas fungivorans Ter331]

 Score =  473 bits (1218), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 217/363 (59%), Positives = 289/363 (79%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M+LKCG++GLPNVGKSTLFNALTK  I AENYPFCTIEPN+G++EVPD RLK L  IVK 
Sbjct: 1   MSLKCGIVGLPNVGKSTLFNALTKAGIPAENYPFCTIEPNVGMVEVPDPRLKALAEIVKP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           ++I PA ++ VDIAGLV+GASKGEGLGN+FLAHIRET+ +++V+RCF+DD + H++G+IN
Sbjct: 61  ERILPATVEFVDIAGLVAGASKGEGLGNQFLAHIRETDAIVNVVRCFEDDNVIHVAGKIN 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           P+ D +VIQTEL L+D+  +EK I +ENKK    ++ + +L+ LL+R++  L+++ P+R 
Sbjct: 121 PLDDIDVIQTELALADMGTVEKAIHRENKKARSGDKDAAKLVALLERLMPELDQAKPVRA 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
             L+ EE+  IK L L+T KP ++VANV ++GF NN LLDQL  YA +QN PI+ ICA +
Sbjct: 181 CGLDAEEMALIKPLCLITAKPAMYVANVSDHGFTNNPLLDQLTAYAASQNAPIVAICAAI 240

Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
           E EI+DL+  DK  FL ++G++E  L+ LIRA+F LL L+TYFT G KE+RAWTI  G T
Sbjct: 241 ESEIADLDEADKHEFLADMGMEEPGLDRLIRAAFKLLGLQTYFTAGVKEVRAWTIHVGDT 300

Query: 301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
             QAAG+IHTD +RGFIRA TI+Y DF+ +KGEQG K AGK+R+EGK+Y+V+DGD+LNFL
Sbjct: 301 GPQAAGVIHTDFERGFIRAQTIAYDDFISHKGEQGAKEAGKMRAEGKEYVVKDGDVLNFL 360

Query: 361 FNI 363
           FN+
Sbjct: 361 FNV 363

Source: Collimonas fungivorans Ter331

Species: Collimonas fungivorans

Genus: Collimonas

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|445494507|ref|ZP_21461551.1| GTP-dependent nucleic acid-binding protein EngD [Janthinobacterium sp. HH01] gi|444790668|gb|ELX12215.1| GTP-dependent nucleic acid-binding protein EngD [Janthinobacterium sp. HH01]

 Score =  471 bits (1213), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 212/363 (58%), Positives = 291/363 (80%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M+L+CG++GLPNVGKSTLFNALTK  I AENYPFCTIEPN+G++EVPD R+  L +IVK 
Sbjct: 1   MSLQCGIVGLPNVGKSTLFNALTKAGIPAENYPFCTIEPNVGVVEVPDPRMGALADIVKP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           +++  AI++ VDIAGLV+GAS+GEGLGN+FL+HIRET+ +++V+RCF+DD + H++G+++
Sbjct: 61  ERMVNAIVEFVDIAGLVAGASQGEGLGNQFLSHIRETDAIVNVVRCFEDDNVIHVAGKVS 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           P+ D EVIQTEL L+DL  +EK I +ENKK    ++ + +LL +++RI+ +LN++ P+R 
Sbjct: 121 PLDDIEVIQTELALADLGTVEKAIHRENKKARSGDKDAAKLLAIMERIVPHLNEAKPVRA 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           M L+ +E+  IK L L+T KP ++VANV + GFKNN LLDQL  YA  QN PI+ ICA +
Sbjct: 181 MGLDADEMALIKPLCLITAKPAMYVANVSDTGFKNNPLLDQLTAYAATQNAPIVAICASI 240

Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
           E EI+DL++ DK  FL ++G++E  L+ LIRA++ LL L+TYFT G KE+RAWTI  G T
Sbjct: 241 EAEIADLDDADKTAFLSDMGMEEPGLDRLIRAAYKLLGLQTYFTAGVKEVRAWTIHIGDT 300

Query: 301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
           A QAAG+IHTD +RGFIRA TI+Y D++ YKGE G K AGK+R+EGK+Y+V+DGD+LNFL
Sbjct: 301 APQAAGVIHTDFERGFIRAQTIAYDDYIQYKGEGGAKEAGKMRAEGKEYVVKDGDVLNFL 360

Query: 361 FNI 363
           FN+
Sbjct: 361 FNV 363

Source: Janthinobacterium sp. HH01

Species: Janthinobacterium sp. HH01

Genus: Janthinobacterium

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|134096056|ref|YP_001101131.1| GTP-binding protein [Herminiimonas arsenicoxydans] gi|133739959|emb|CAL63010.1| GTP-dependent nucleic acid-binding protein EngD [Herminiimonas arsenicoxydans]

 Score =  471 bits (1212), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 215/363 (59%), Positives = 291/363 (80%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M+LKCG++GLPNVGKSTLFNALTK  I AENYPFCTIEPN+G++EVPD RL+ L  IVK 
Sbjct: 1   MSLKCGIVGLPNVGKSTLFNALTKAGIPAENYPFCTIEPNVGMVEVPDPRLQALAEIVKP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           ++I PA ++ VDIAGLV+GASKGEGLGN+FLAHIRET+ +++V+RCF+DD + H++G+IN
Sbjct: 61  ERILPATVEFVDIAGLVAGASKGEGLGNQFLAHIRETDAIVNVVRCFEDDNVIHVAGKIN 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           P+ D EVIQTEL L+D+  +EK I +ENKK    ++ + +L+ LL+RI+ +L+++ P+R 
Sbjct: 121 PLDDIEVIQTELALADMGTVEKAIHRENKKARSGDKDAGKLVALLERIMPHLDEAKPVRA 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           M L+ EE+  IK L L+T KP ++V NV ++GF NN LLDQL  YA +QN P++ ICA +
Sbjct: 181 MGLDKEEMELIKPLCLITAKPAMYVGNVSDSGFTNNPLLDQLTEYAKSQNAPVVAICAAI 240

Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
           E EI++L+  DKK FL ++G++E  L+ LIRA F LL L++YFT G KE+RAWTI  G T
Sbjct: 241 ESEIAELDEADKKEFLADMGMEEPGLDRLIRAGFKLLGLQSYFTAGVKEVRAWTIHVGDT 300

Query: 301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
             QAAG+IHTD +RG+IRA TI+Y+DF+ +KGEQG K AGK+R+EGK+Y+V+DGD+LNFL
Sbjct: 301 GPQAAGVIHTDFERGYIRAQTIAYEDFIKFKGEQGAKEAGKMRAEGKEYIVKDGDVLNFL 360

Query: 361 FNI 363
           FN+
Sbjct: 361 FNV 363

Source: Herminiimonas arsenicoxydans

Species: Herminiimonas arsenicoxydans

Genus: Herminiimonas

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|329908412|ref|ZP_08274862.1| GTP-binding and nucleic acid-binding protein YchF [Oxalobacteraceae bacterium IMCC9480] gi|327546718|gb|EGF31666.1| GTP-binding and nucleic acid-binding protein YchF [Oxalobacteraceae bacterium IMCC9480]

 Score =  470 bits (1209), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 212/363 (58%), Positives = 287/363 (79%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M+LKCG++GLPNVGKSTLFNALTK  I AENYPFCTIEPN+G++EVPD R+  L+ IVK 
Sbjct: 1   MSLKCGIVGLPNVGKSTLFNALTKAGIPAENYPFCTIEPNVGMVEVPDPRMDALSEIVKP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           ++  P  ++ VDIAGLV+GASKGEGLGN+FLAHIRET+ +++V+RCF+DD + H++G IN
Sbjct: 61  QRAVPTTVEFVDIAGLVAGASKGEGLGNQFLAHIRETDAIVNVVRCFEDDNVIHVAGRIN 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           P+ D EVIQTEL L+D+A +EK I +E+KK    ++ + +L+ +L+RI+  L+ ++P+R 
Sbjct: 121 PLDDIEVIQTELALADMAAVEKAIHRESKKARSGDKDAAKLVVILERIMPQLDLALPVRA 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           M L+ EE+  IK L L+T KP ++V NV + GF NN LLDQL  YA  QN P++ ICA +
Sbjct: 181 MGLDAEEMALIKPLCLITAKPAMYVGNVSDTGFTNNPLLDQLTEYAKKQNAPVVAICAAI 240

Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
           E EISDL + DK  FL ++G+ E  L+ LIR++++LL L+TYFT G KE+RAWTI  G T
Sbjct: 241 ESEISDLEDADKAEFLADMGMTEPGLDRLIRSAYTLLGLQTYFTAGVKEVRAWTIHVGDT 300

Query: 301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
           A QAAG+IHTD +RGFIRA TI+Y+DF+ +KGE G K+AGK+R+EGK+Y+V+DGD+LNFL
Sbjct: 301 APQAAGVIHTDFERGFIRAQTIAYEDFITFKGEAGAKDAGKMRAEGKEYVVKDGDVLNFL 360

Query: 361 FNI 363
           FN+
Sbjct: 361 FNV 363

Source: Oxalobacteraceae bacterium IMCC9480

Species: Oxalobacteraceae bacterium IMCC9480

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|427399525|ref|ZP_18890763.1| GTP-binding protein YchF [Massilia timonae CCUG 45783] gi|425721287|gb|EKU84200.1| GTP-binding protein YchF [Massilia timonae CCUG 45783]

 Score =  469 bits (1208), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 213/363 (58%), Positives = 288/363 (79%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M LKCG++GLPNVGKSTLFNALTK  I AENYPFCTIEPN+G++EVPD R+  L+ IVK 
Sbjct: 1   MTLKCGIVGLPNVGKSTLFNALTKAGIPAENYPFCTIEPNVGVVEVPDPRIDALSAIVKP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           +++  AI++ VDIAGLV+GASKGEGLGN+FL+HIRET+ +++V+RCF+D  + H++G+++
Sbjct: 61  ERVVKAIVEFVDIAGLVAGASKGEGLGNQFLSHIRETDAIVNVVRCFEDPNVIHVAGKVS 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           PI D EVIQTEL L+D+  +EK I +E KK    ++ + +L+ LL+R++ +LN+  P+R 
Sbjct: 121 PIDDIEVIQTELALADMGTVEKAIHREQKKARSGDKDAAKLVALLERLMPHLNEGQPVRT 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           M L+ EE+  I  L+L+T KP +FVANV + GF NN LLDQL  +A+ QN PI+ ICA +
Sbjct: 181 MGLDKEEMAIIYPLHLITAKPAMFVANVSDTGFTNNPLLDQLTEFANKQNAPIVAICAAI 240

Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
           E EI+++++ DK  FL+++G+ E  L+ LIRA+F LL L+TYFT G KE+RAWT+P G T
Sbjct: 241 ESEIAEMDDADKVDFLNDMGMDEPGLDRLIRAAFKLLGLQTYFTAGVKEVRAWTVPIGAT 300

Query: 301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
           A QAAG+IHTD +RGFIRA TISY DFL YKGE G K AGK+R+EGK+Y+V+DGD+LNFL
Sbjct: 301 APQAAGVIHTDFERGFIRAQTISYDDFLTYKGESGAKEAGKMRAEGKEYIVKDGDVLNFL 360

Query: 361 FNI 363
           FN+
Sbjct: 361 FNV 363

Source: Massilia timonae CCUG 45783

Species: Massilia timonae

Genus: Massilia

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|395760761|ref|ZP_10441430.1| GTP-binding protein YchF [Janthinobacterium lividum PAMC 25724]

 Score =  469 bits (1206), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 213/363 (58%), Positives = 287/363 (79%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M+L+CG++GLPNVGKSTLFNALTK  I AENYPFCTIEPN+G++EVPD R+  L  IVK 
Sbjct: 1   MSLQCGIVGLPNVGKSTLFNALTKAGIPAENYPFCTIEPNVGVVEVPDPRMDALAVIVKP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           +++  AI++ VDIAGLV+GASKGEGLGN+FL+HIRET+ +++V+RCF+DD + H++G+IN
Sbjct: 61  ERMVNAIVEFVDIAGLVAGASKGEGLGNQFLSHIRETDAIVNVVRCFEDDNVIHVAGKIN 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           P+ D EVIQTEL L+D+  +EK I +ENKK    ++ + +LL +++R++  LN + P+R 
Sbjct: 121 PLDDIEVIQTELALADMGTVEKAIHRENKKARSGDKDAAKLLAIMERMMPYLNDAKPVRA 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           M L+ +E+  IK L L+T KP +FVANV + GF NN LLDQL  YA +QN PI+ ICA +
Sbjct: 181 MGLDADEMELIKPLCLITAKPAMFVANVSDTGFTNNPLLDQLTAYAQSQNAPIVAICASM 240

Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
           E EI+DL+  DK  FL ++G++E  L+ LIRA++ LL L+TYFT G KE+RAWTI  G T
Sbjct: 241 EAEIADLDAADKGAFLADMGMQEPGLDRLIRAAYKLLGLQTYFTAGVKEVRAWTIHVGDT 300

Query: 301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
           A QAAG+IHTD +RGFIRA TI+Y DF+ +KGE G K AGK+R+EGK+Y+V+DGD+LNFL
Sbjct: 301 APQAAGVIHTDFERGFIRAQTIAYDDFIAFKGEAGAKEAGKMRAEGKEYVVKDGDVLNFL 360

Query: 361 FNI 363
           FN+
Sbjct: 361 FNV 363

Source: Janthinobacterium lividum PAMC 25724

Species: Janthinobacterium lividum

Genus: Janthinobacterium

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|398835234|ref|ZP_10592599.1| GTP-binding protein YchF [Herbaspirillum sp. YR522] gi|398216809|gb|EJN03350.1| GTP-binding protein YchF [Herbaspirillum sp. YR522]

 Score =  468 bits (1205), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 208/363 (57%), Positives = 289/363 (79%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M+LKCG++GLPNVGKSTLFNALTK  I+AENYPFCTIEPN+G++EVPD RL  L  IVK 
Sbjct: 1   MSLKCGIVGLPNVGKSTLFNALTKAGIAAENYPFCTIEPNVGVVEVPDPRLTALAEIVKP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           ++I PA ++ VDIAGLV+GASKGEGLGN+FL+HIRET+ +++V+RCF+D  + H++G ++
Sbjct: 61  ERILPATVEFVDIAGLVAGASKGEGLGNQFLSHIRETDAIVNVVRCFEDPNVIHVAGRVS 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           P+ D  VIQTEL L+D+  +EK I +E KK    ++ + +L+ LL+RI+  L+++ P+R 
Sbjct: 121 PLDDIAVIQTELALADMGTVEKAIHREQKKARSGDKDAAKLVALLERIMPALDEAKPVRA 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           ++L+ EE++ IK L L+T KP ++VANV ++GF +N LLDQL  YA  QN PI+ ICA +
Sbjct: 181 LNLDAEEMLLIKPLCLITAKPAMYVANVSDSGFTDNPLLDQLTAYAKEQNAPIVAICAAI 240

Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
           E EI+DL++ DK  FL ++G++E  L+ LIRA+F LL L+TYFT G KE+RAWT+P G T
Sbjct: 241 EAEIADLDDADKIDFLADMGMQEPGLDRLIRAAFKLLGLQTYFTAGVKEVRAWTVPVGAT 300

Query: 301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
             QAAG+IHTD +RGFIRA TI+Y+D++ +KGE G K AGK+R+EGK+Y+V+DGD++NFL
Sbjct: 301 GPQAAGVIHTDFERGFIRAQTIAYEDYIAFKGETGAKEAGKMRAEGKEYVVKDGDVMNFL 360

Query: 361 FNI 363
           FN+
Sbjct: 361 FNV 363

Source: Herbaspirillum sp. YR522

Species: Herbaspirillum sp. YR522

Genus: Herbaspirillum

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|415909464|ref|ZP_11553139.1| GTP-dependent nucleic acid-binding protein [Herbaspirillum frisingense GSF30] gi|407762585|gb|EKF71407.1| GTP-dependent nucleic acid-binding protein [Herbaspirillum frisingense GSF30]

 Score =  468 bits (1203), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 210/363 (57%), Positives = 288/363 (79%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M+LKCG++GLPNVGKSTLFNALTK  I+AENYPFCTIEPN+GI+EVPD RLK L  IVK 
Sbjct: 8   MSLKCGIVGLPNVGKSTLFNALTKAGIAAENYPFCTIEPNVGIVEVPDPRLKALAEIVKP 67

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           ++I PA ++ VDIAGLV+GASKGEGLGN+FL+HIRET+ +++V+RCF+D  + H++G ++
Sbjct: 68  ERILPATVEFVDIAGLVAGASKGEGLGNQFLSHIRETDAIVNVVRCFEDPNVIHVAGRVS 127

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           P+ D  VIQTEL L+D+  +EK I +E KK    ++ + +L+ LL+RI+  L+++ P+R 
Sbjct: 128 PLDDIAVIQTELALADMGTVEKAIHREQKKARSGDKDAAKLVALLERIMPALDEAKPVRA 187

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           + L+ EE++ IK L L+T KP ++VANV ++GF NN LLDQL  YA  QN PI+ ICA +
Sbjct: 188 LGLDAEEMLLIKPLCLITAKPAMYVANVSDSGFTNNPLLDQLTGYAKEQNAPIVAICAAI 247

Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
           E EI+DL++ DK  FL ++G++E  L+ LIRA+F LL L+TYFT G KE+RAWT+P G T
Sbjct: 248 EAEIADLDDADKVDFLADMGMEEPGLDRLIRAAFKLLGLQTYFTAGVKEVRAWTVPVGAT 307

Query: 301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
             QAAG+IHTD +RGFIRA TI+++D++  KGE G K AGK+R+EGK+Y+V+DGD++NFL
Sbjct: 308 GPQAAGVIHTDFERGFIRAQTIAFEDYIACKGETGAKEAGKMRAEGKEYVVKDGDVMNFL 367

Query: 361 FNI 363
           FN+
Sbjct: 368 FNV 370

Source: Herbaspirillum frisingense GSF30

Species: Herbaspirillum frisingense

Genus: Herbaspirillum

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|399019247|ref|ZP_10721396.1| GTP-binding protein YchF [Herbaspirillum sp. CF444] gi|398098394|gb|EJL88681.1| GTP-binding protein YchF [Herbaspirillum sp. CF444]

 Score =  465 bits (1197), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 208/363 (57%), Positives = 283/363 (77%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M+LKCG++GLPNVGKSTLFNALTK  I AENYPFCTIEPN+G++EVPD RL+ L +IVK 
Sbjct: 1   MSLKCGIVGLPNVGKSTLFNALTKAGIPAENYPFCTIEPNVGMVEVPDPRLQALADIVKP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           ++I  A ++ VDIAGLV+GASKGEGLGN+FL+HIRET+ +++V+RCF+D  + H+SG+++
Sbjct: 61  ERILSATVEFVDIAGLVAGASKGEGLGNQFLSHIRETDAIVNVVRCFEDPNVIHVSGKVS 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           P+ D  VIQTEL L+D+  +EK I +E KK    ++ + +L+ LL+RI+  L+ + P+R 
Sbjct: 121 PLDDIAVIQTELALADMGTVEKAIHREQKKARSGDKDAAKLVALLERIMPALDDAKPVRA 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           + L+ EE+  IK L L+T KP ++VANV + GF  N LLDQL  YA  Q  PI+ ICA +
Sbjct: 181 LGLDAEEMALIKPLCLITAKPAMYVANVSDTGFTGNPLLDQLTAYAKEQGAPIVAICAAI 240

Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
           E EI+DL++ DK  FL ++G++E  L+ LIRA F LL L+TYFT G KE+RAWT+P G T
Sbjct: 241 ESEIADLDDADKAEFLADMGMEEPGLDRLIRAGFKLLGLQTYFTAGVKEVRAWTVPVGAT 300

Query: 301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
             QAAG+IHTD +RGFIRA TI+Y+D++ YKGE G K AGK+R+EGK+Y+V+DGD++NFL
Sbjct: 301 GPQAAGVIHTDFERGFIRAQTIAYEDYIAYKGEAGAKEAGKMRAEGKEYIVKDGDVMNFL 360

Query: 361 FNI 363
           FN+
Sbjct: 361 FNV 363

Source: Herbaspirillum sp. CF444

Species: Herbaspirillum sp. CF444

Genus: Herbaspirillum

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

---

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	363
UNIPROTKB|Q606I4	363	MCA2032 "GTP-binding protein Y	1.0	1.0	0.526	1.8e-103
UNIPROTKB|P0ABU2	363	ychF "ribosome-binding ATPase,	1.0	1.0	0.526	1.6e-102
UNIPROTKB|Q9KQ20	383	VC_2185 "GTP-binding protein"	1.0	0.947	0.512	7.1e-100
TIGR_CMR|VC_2185	383	VC_2185 "GTP-binding protein"	1.0	0.947	0.512	7.1e-100
UNIPROTKB|Q8EHN4	363	ychF "GTP-binding and nucleic	1.0	1.0	0.504	1.2e-99
TIGR_CMR|SO_1185	363	SO_1185 "conserved hypothetica	1.0	1.0	0.504	1.2e-99
UNIPROTKB|Q83AN9	367	CBU_1842 "GTP-binding protein,	0.988	0.978	0.523	8.2e-99
TIGR_CMR|CBU_1842	367	CBU_1842 "GTP-binding protein	0.988	0.978	0.523	8.2e-99
UNIPROTKB|Q48MW2	366	ychF "GTP-binding protein YchF	1.0	0.991	0.505	9.4e-98
UNIPROTKB|Q888C9	366	ychF "GTP-binding protein YchF	1.0	0.991	0.502	3.2e-97

UNIPROTKB|Q606I4 MCA2032 "GTP-binding protein YchF" [Methylococcus capsulatus str. Bath (taxid:243233)]

 Score = 1025 (365.9 bits), Expect = 1.8e-103, P = 1.8e-103
 Identities = 191/363 (52%), Positives = 269/363 (74%)

Query:     1 MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
             M L  G++GLPNVGKSTLFNALTK  I+AENYPFCTI+PN+G++ VPD RL+ L  IVK 
Sbjct:     1 MALHVGIVGLPNVGKSTLFNALTKAAIAAENYPFCTIDPNVGVVPVPDPRLEVLAGIVKP 60

Query:    61 KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
             +++ P  I+ VDIAGLV+GASKGEGLGN+FLAHIRET+ + HV+RCF++D I H++G+++
Sbjct:    61 ERVVPTAIEFVDIAGLVAGASKGEGLGNQFLAHIRETDAIAHVVRCFENDDIVHVAGKVD 120

Query:   121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
             P+ D EVI  ELIL+D+A +EK + +  K     N+  IE +++L+ +   LN   P+R 
Sbjct:   121 PLSDIEVIGVELILADMATVEKALQRAQKAAKSGNKEEIERVRVLELVSKGLNSGTPVRA 180

Query:   181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
             + L  E+   ++ L+LLT KP +++ANV+E GF NN LL+Q++ +A N+   ++ +CA  
Sbjct:   181 IPLPPEDAALLRELHLLTAKPTMYIANVQEGGFDNNPLLEQVEAFARNEGAVVVPVCAAF 240

Query:   241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
             E E+S L + DK  FL  +G +E  LN ++RA++ LL+L TYFT G KE+RAWTIP G T
Sbjct:   241 EAELSQLEDEDKADFLAEIGFEEPGLNRVVRAAYRLLNLFTYFTAGVKEVRAWTIPAGAT 300

Query:   301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
             A QAAG+IH+D ++GFIRA  I+Y+DF+  +GEQG K+AGK R EGK Y++ DGDI++F 
Sbjct:   301 APQAAGVIHSDFEKGFIRAEVIAYEDFVACQGEQGAKDAGKWRLEGKDYVMRDGDIVHFR 360

Query:   361 FNI 363
             FN+
Sbjct:   361 FNV 363

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|P0ABU2 ychF "ribosome-binding ATPase, inhibitor of catalase activity" [Escherichia coli K-12 (taxid:83333)]

 Score = 1016 (362.7 bits), Expect = 1.6e-102, P = 1.6e-102
 Identities = 191/363 (52%), Positives = 267/363 (73%)

Query:     1 MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
             M  KCG++GLPNVGKSTLFNALTK  I A N+PFCTIEPN G++ +PD RL  L  IVK 
Sbjct:     1 MGFKCGIVGLPNVGKSTLFNALTKAGIEAANFPFCTIEPNTGVVPMPDPRLDQLAEIVKP 60

Query:    61 KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
             ++  P  ++ VDIAGLV GASKGEGLGN+FL +IRET  + HV+RCF++D I H+SG++N
Sbjct:    61 QRTLPTTMEFVDIAGLVKGASKGEGLGNQFLTNIRETEAIGHVVRCFENDNIIHVSGKVN 120

Query:   121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
             P  D EVI TEL L+DL   E+ I +  KK    ++ +   L +L++ +  L  +  +R 
Sbjct:   121 PADDIEVINTELALADLDTCERAIHRVQKKAKGGDKDAKAELAVLEKCLPQLENAGMLRA 180

Query:   181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
             + L+ EE  +I++L+ LT+KP +++ANV E+GF+NN  LDQ++  A  +   ++ +CA +
Sbjct:   181 LDLSAEEKAAIRYLSFLTLKPTMYIANVNEDGFENNPYLDQVREIAAKEGSVVVPVCAAV 240

Query:   241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
             E +I++L++ ++  F+  LGL+E  LN +IRA + LL+L+TYFT G KE+RAWTIP G T
Sbjct:   241 EADIAELDDEERDEFMQELGLEEPGLNRVIRAGYKLLNLQTYFTAGVKEVRAWTIPVGAT 300

Query:   301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
             A QAAG IHTD ++GFIRA TIS++DF+ YKGEQG K AGK+R+EGK Y+V+DGD++NFL
Sbjct:   301 APQAAGKIHTDFEKGFIRAQTISFEDFITYKGEQGAKEAGKMRAEGKDYIVKDGDVMNFL 360

Query:   361 FNI 363
             FN+
Sbjct:   361 FNV 363

GO:0005515 "protein binding" evidence=IPI

GO:0004857 "enzyme inhibitor activity" evidence=IMP

GO:0006979 "response to oxidative stress" evidence=IEP;IMP

GO:0006200 "ATP catabolic process" evidence=IDA

GO:0043022 "ribosome binding" evidence=IDA

GO:0043023 "ribosomal large subunit binding" evidence=IDA

GO:0016887 "ATPase activity" evidence=IDA

GO:0046872 "metal ion binding" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|Q9KQ20 VC_2185 "GTP-binding protein" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 991 (353.9 bits), Expect = 7.1e-100, P = 7.1e-100
 Identities = 186/363 (51%), Positives = 268/363 (73%)

Query:     1 MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
             M  KCG++GLPNVGKSTLFNALTK  I A N+PFCTIEPN G++ VPD RL  L  IVK 
Sbjct:    21 MGFKCGIVGLPNVGKSTLFNALTKAGIEAANFPFCTIEPNTGVVPVPDPRLDALAAIVKP 80

Query:    61 KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
             ++I P  ++ VDIAGLV+GASKGEGLGNKFLA+IRET+ + HV+RCF+++ I H++G+++
Sbjct:    81 ERILPTTMEFVDIAGLVAGASKGEGLGNKFLANIRETDAIGHVVRCFENENIIHVAGKVS 140

Query:   121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
             P+ D E+I  EL L+DL   E+ I +++K+    ++ +   L +L+++   L++    R 
Sbjct:   141 PLEDIEIINLELALADLDSCERAILRQSKRAKGGDKEAKFELAVLEKLQPVLSEGQSARS 200

Query:   181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
             ++L  EEL+++ +LNLLT+KP +++ANV ENGF+NN  LD +  +A  +N  ++ +CA +
Sbjct:   201 VNLTKEELLAVGYLNLLTLKPTMYIANVNENGFENNPYLDAVVEFAAKENASVVAVCAAI 260

Query:   241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
             E E+S+L   ++  FL +LG++E  LN +IR+ + LL+L+TYFT G KE+RAWTIP G T
Sbjct:   261 EAELSELEEEERDEFLADLGIEEPGLNRVIRSGYDLLNLQTYFTAGVKEVRAWTIPVGAT 320

Query:   301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
             A QAAG IHTD +RGFIRA  I Y D++ + GE G K+AGK R EGK+Y+V+DGD+++F 
Sbjct:   321 APQAAGKIHTDFERGFIRAEVIGYNDYIQFNGESGAKDAGKWRLEGKEYIVKDGDVIHFR 380

Query:   361 FNI 363
             FN+
Sbjct:   381 FNV 383

GO:0005525 "GTP binding" evidence=ISS

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|VC_2185 VC_2185 "GTP-binding protein" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 991 (353.9 bits), Expect = 7.1e-100, P = 7.1e-100
 Identities = 186/363 (51%), Positives = 268/363 (73%)

Query:     1 MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
             M  KCG++GLPNVGKSTLFNALTK  I A N+PFCTIEPN G++ VPD RL  L  IVK 
Sbjct:    21 MGFKCGIVGLPNVGKSTLFNALTKAGIEAANFPFCTIEPNTGVVPVPDPRLDALAAIVKP 80

Query:    61 KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
             ++I P  ++ VDIAGLV+GASKGEGLGNKFLA+IRET+ + HV+RCF+++ I H++G+++
Sbjct:    81 ERILPTTMEFVDIAGLVAGASKGEGLGNKFLANIRETDAIGHVVRCFENENIIHVAGKVS 140

Query:   121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
             P+ D E+I  EL L+DL   E+ I +++K+    ++ +   L +L+++   L++    R 
Sbjct:   141 PLEDIEIINLELALADLDSCERAILRQSKRAKGGDKEAKFELAVLEKLQPVLSEGQSARS 200

Query:   181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
             ++L  EEL+++ +LNLLT+KP +++ANV ENGF+NN  LD +  +A  +N  ++ +CA +
Sbjct:   201 VNLTKEELLAVGYLNLLTLKPTMYIANVNENGFENNPYLDAVVEFAAKENASVVAVCAAI 260

Query:   241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
             E E+S+L   ++  FL +LG++E  LN +IR+ + LL+L+TYFT G KE+RAWTIP G T
Sbjct:   261 EAELSELEEEERDEFLADLGIEEPGLNRVIRSGYDLLNLQTYFTAGVKEVRAWTIPVGAT 320

Query:   301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
             A QAAG IHTD +RGFIRA  I Y D++ + GE G K+AGK R EGK+Y+V+DGD+++F 
Sbjct:   321 APQAAGKIHTDFERGFIRAEVIGYNDYIQFNGESGAKDAGKWRLEGKEYIVKDGDVIHFR 380

Query:   361 FNI 363
             FN+
Sbjct:   381 FNV 383

GO:0005525 "GTP binding" evidence=ISS

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q8EHN4 ychF "GTP-binding and nucleic acid-binding protein YchF" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 989 (353.2 bits), Expect = 1.2e-99, P = 1.2e-99
 Identities = 183/363 (50%), Positives = 267/363 (73%)

Query:     1 MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
             M  KCG++GLPNVGKSTLFNALTK  I A N+PFCTIEPN G++ VPD RL  L  IV  
Sbjct:     1 MGFKCGIVGLPNVGKSTLFNALTKAGIEAANFPFCTIEPNTGVVPVPDPRLDALAAIVNP 60

Query:    61 KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
             +++ P  ++ VDIAGLV+GASKGEGLGNKFLA+IRET+ + HV+RCF DD I H++ +++
Sbjct:    61 QRVLPTTMEFVDIAGLVAGASKGEGLGNKFLANIRETDAIGHVVRCFDDDNIVHVANKVD 120

Query:   121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
             P  D EVI TEL L+DL  LE+ + ++ K+    ++ +   +++L+++   L+++  +R 
Sbjct:   121 PARDIEVINTELALADLDSLERAVIRQQKRAKGGDKDAKFEVEVLEKMRPVLDEAKMLRS 180

Query:   181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
             M L+ EEL ++ +LN LT+KP +++ANV E+GF NN  LD ++  A  +N  ++ +CA +
Sbjct:   181 MDLSKEELEAVAYLNFLTLKPTMYIANVAEDGFDNNPHLDAVRAIAEKENAIVVSVCAAI 240

Query:   241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
             E E+++++  ++  F+ +LGL+E  L+ +IRA + LL L+TYFT G KE+RAWT+  G T
Sbjct:   241 ESELAEMDAEERDEFMADLGLEEPGLDRVIRAGYQLLSLQTYFTAGVKEVRAWTVSVGAT 300

Query:   301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
             A QAAG+IHTD +RGFIRA  +++ DF+ YKGE G K AGK+R EGK Y+V+DGD+++FL
Sbjct:   301 APQAAGVIHTDFERGFIRAQVVAFDDFIAYKGEAGAKEAGKLRVEGKTYIVQDGDVMHFL 360

Query:   361 FNI 363
             FN+
Sbjct:   361 FNV 363

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|SO_1185 SO_1185 "conserved hypothetical protein TIGR00092" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 989 (353.2 bits), Expect = 1.2e-99, P = 1.2e-99
 Identities = 183/363 (50%), Positives = 267/363 (73%)

Query:     1 MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
             M  KCG++GLPNVGKSTLFNALTK  I A N+PFCTIEPN G++ VPD RL  L  IV  
Sbjct:     1 MGFKCGIVGLPNVGKSTLFNALTKAGIEAANFPFCTIEPNTGVVPVPDPRLDALAAIVNP 60

Query:    61 KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
             +++ P  ++ VDIAGLV+GASKGEGLGNKFLA+IRET+ + HV+RCF DD I H++ +++
Sbjct:    61 QRVLPTTMEFVDIAGLVAGASKGEGLGNKFLANIRETDAIGHVVRCFDDDNIVHVANKVD 120

Query:   121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
             P  D EVI TEL L+DL  LE+ + ++ K+    ++ +   +++L+++   L+++  +R 
Sbjct:   121 PARDIEVINTELALADLDSLERAVIRQQKRAKGGDKDAKFEVEVLEKMRPVLDEAKMLRS 180

Query:   181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
             M L+ EEL ++ +LN LT+KP +++ANV E+GF NN  LD ++  A  +N  ++ +CA +
Sbjct:   181 MDLSKEELEAVAYLNFLTLKPTMYIANVAEDGFDNNPHLDAVRAIAEKENAIVVSVCAAI 240

Query:   241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
             E E+++++  ++  F+ +LGL+E  L+ +IRA + LL L+TYFT G KE+RAWT+  G T
Sbjct:   241 ESELAEMDAEERDEFMADLGLEEPGLDRVIRAGYQLLSLQTYFTAGVKEVRAWTVSVGAT 300

Query:   301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
             A QAAG+IHTD +RGFIRA  +++ DF+ YKGE G K AGK+R EGK Y+V+DGD+++FL
Sbjct:   301 APQAAGVIHTDFERGFIRAQVVAFDDFIAYKGEAGAKEAGKLRVEGKTYIVQDGDVMHFL 360

Query:   361 FNI 363
             FN+
Sbjct:   361 FNV 363

GO:0008150 "biological_process" evidence=ND

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

UNIPROTKB|Q83AN9 CBU_1842 "GTP-binding protein, probable translation factor" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 981 (350.4 bits), Expect = 8.2e-99, P = 8.2e-99
 Identities = 188/359 (52%), Positives = 258/359 (71%)

Query:     1 MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
             M  KCG++GLPNVGKSTLFNALTK  I A NYPFCTIEPN+G++ VPDKRL+ +  IV  
Sbjct:     5 MGFKCGIVGLPNVGKSTLFNALTKAGIEASNYPFCTIEPNVGVVSVPDKRLEKIAQIVNP 64

Query:    61 KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
             K+I P  +  VDIAGLV+GASKGEGLGN+FLA+IRET  + HV+RCF+D+ +TH++G IN
Sbjct:    65 KQIIPTTVNFVDIAGLVAGASKGEGLGNQFLANIRETQAIAHVVRCFQDENVTHVAGSIN 124

Query:   121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
             PI D EV+ TEL L+DL  L+K + K  K     ++ + +   LL++    L++  PIR 
Sbjct:   125 PIADIEVVNTELALADLETLDKILVKLAKDVKRGDKKARDTYALLEKFKKLLDEGTPIRS 184

Query:   181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
             ++L  EE + ++   LLT KP+++VANV E+GF +N  L Q+  +A  +   ++ +CA +
Sbjct:   185 VNLTEEEEILLRPYQLLTSKPVLYVANVAEDGFTDNSYLSQVYEFAAKEKAKVVPVCAAI 244

Query:   241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
             E EI+DL+  D++ FL +LGL+E  L+ +I+A + LL L T+FT G KE+RAWT P  +T
Sbjct:   245 ESEIADLSASDQQDFLQSLGLEEPGLHRVIQAGYQLLGLITFFTAGPKELRAWTCPKNST 304

Query:   301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNF 359
             A QAAG+IHTD ++ FIRA  ISY D+  + GEQG K+AGK R EGK+YLV+DGDI+ F
Sbjct:   305 APQAAGVIHTDFEKRFIRAEVISYNDYTQFGGEQGAKDAGKWRLEGKEYLVQDGDIMYF 363

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|CBU_1842 CBU_1842 "GTP-binding protein YchF" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 981 (350.4 bits), Expect = 8.2e-99, P = 8.2e-99
 Identities = 188/359 (52%), Positives = 258/359 (71%)

Query:     1 MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
             M  KCG++GLPNVGKSTLFNALTK  I A NYPFCTIEPN+G++ VPDKRL+ +  IV  
Sbjct:     5 MGFKCGIVGLPNVGKSTLFNALTKAGIEASNYPFCTIEPNVGVVSVPDKRLEKIAQIVNP 64

Query:    61 KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
             K+I P  +  VDIAGLV+GASKGEGLGN+FLA+IRET  + HV+RCF+D+ +TH++G IN
Sbjct:    65 KQIIPTTVNFVDIAGLVAGASKGEGLGNQFLANIRETQAIAHVVRCFQDENVTHVAGSIN 124

Query:   121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
             PI D EV+ TEL L+DL  L+K + K  K     ++ + +   LL++    L++  PIR 
Sbjct:   125 PIADIEVVNTELALADLETLDKILVKLAKDVKRGDKKARDTYALLEKFKKLLDEGTPIRS 184

Query:   181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
             ++L  EE + ++   LLT KP+++VANV E+GF +N  L Q+  +A  +   ++ +CA +
Sbjct:   185 VNLTEEEEILLRPYQLLTSKPVLYVANVAEDGFTDNSYLSQVYEFAAKEKAKVVPVCAAI 244

Query:   241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
             E EI+DL+  D++ FL +LGL+E  L+ +I+A + LL L T+FT G KE+RAWT P  +T
Sbjct:   245 ESEIADLSASDQQDFLQSLGLEEPGLHRVIQAGYQLLGLITFFTAGPKELRAWTCPKNST 304

Query:   301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNF 359
             A QAAG+IHTD ++ FIRA  ISY D+  + GEQG K+AGK R EGK+YLV+DGDI+ F
Sbjct:   305 APQAAGVIHTDFEKRFIRAEVISYNDYTQFGGEQGAKDAGKWRLEGKEYLVQDGDIMYF 363

GO:0008150 "biological_process" evidence=ND

GO:0005525 "GTP binding" evidence=ISS

UNIPROTKB|Q48MW2 ychF "GTP-binding protein YchF" [Pseudomonas syringae pv. phaseolicola 1448A (taxid:264730)]

 Score = 971 (346.9 bits), Expect = 9.4e-98, P = 9.4e-98
 Identities = 185/366 (50%), Positives = 267/366 (72%)

Query:     1 MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
             M   CG++GLPNVGKSTLFNALTK  I+AEN+PFCTIEPN GI+ +PD RL  L  IV  
Sbjct:     1 MGFNCGIVGLPNVGKSTLFNALTKSGIAAENFPFCTIEPNSGIVPMPDPRLAALAAIVNP 60

Query:    61 KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
             K+I P  ++ VDIAGLV+GASKGEGLGNKFLA+IRET+ + HV+RCF+D+ + H+S  ++
Sbjct:    61 KRILPTTMEFVDIAGLVAGASKGEGLGNKFLANIRETDAIAHVVRCFEDENVIHVSNSVD 120

Query:   121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIR- 179
             P  D E+I  ELI +DL   EK + K  +     ++ ++    LL+++I + ++  P R 
Sbjct:   121 PKRDIEIIDLELIFADLDSCEKQLQKVTRNAKGGDKDAVVQKGLLEQLIAHFSEGKPARS 180

Query:   180 LM-SLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICA 238
             LM S++N+E  +I+  +LLT KP++++ANV E+GF+NN LLD ++  A  +   ++ +C 
Sbjct:   181 LMKSMSNDEKATIRGFHLLTTKPVMYIANVAEDGFENNPLLDVVRAIAEEEGAMLVPVCN 240

Query:   239 KLEEEISDLNNIDKK-FFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPN 297
             K+E EI++L++ ++K  FL+ LGL+E  LN +IRA + +L L+TYFT G +E+RAWT+  
Sbjct:   241 KIEAEIAELDDGEEKDMFLEALGLEEPGLNRVIRAGYEMLHLQTYFTAGVEEVRAWTVRV 300

Query:   298 GTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDIL 357
             G TA QAAG+IHTD ++GFIRA  ++Y DF+ +KGE G K AGK R EGK+Y+V+DGD++
Sbjct:   301 GATAPQAAGVIHTDFEKGFIRAEVVAYDDFIQFKGEAGAKEAGKWRLEGKEYIVKDGDVM 360

Query:   358 NFLFNI 363
             +F FN+
Sbjct:   361 HFRFNV 366

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q888C9 ychF "GTP-binding protein YchF" [Pseudomonas syringae pv. tomato str. DC3000 (taxid:223283)]

 Score = 966 (345.1 bits), Expect = 3.2e-97, P = 3.2e-97
 Identities = 184/366 (50%), Positives = 266/366 (72%)

Query:     1 MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
             M   CG++GLPNVGKSTLFNALTK  I+AEN+PFCTIEPN GI+ +PD RL  L  IV  
Sbjct:     1 MGFNCGIVGLPNVGKSTLFNALTKSGIAAENFPFCTIEPNTGIVPMPDPRLAALAAIVNP 60

Query:    61 KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
             K+I P  ++ VDIAGLV+GASKGEGLGNKFLA+IRET+ + HV+RCF+D+ + H+S  ++
Sbjct:    61 KRILPTTMEFVDIAGLVAGASKGEGLGNKFLANIRETDAIAHVVRCFEDENVIHVSNSVD 120

Query:   121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIR- 179
             P  D E+I  ELI +DL   EK + K  +     ++ ++    LL+++I + ++  P R 
Sbjct:   121 PKRDIEIIDLELIFADLDSCEKQLQKVTRNAKGGDKDAVVQKGLLEQLIAHFSEGKPARS 180

Query:   180 LM-SLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICA 238
             LM S++N++   I+  +LLT KP++++ANV E+GF+NN LLD ++  A  +   ++ +C 
Sbjct:   181 LMKSMSNDDKAVIRGFHLLTTKPVMYIANVAEDGFENNPLLDVVRAIAEEEGAMLVPVCN 240

Query:   239 KLEEEISDLNNIDKK-FFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPN 297
             K+E EI++L++ ++K  FL+ LGL+E  LN +IRA + +L L+TYFT G +E+RAWT+  
Sbjct:   241 KIEAEIAELDDGEEKDMFLEALGLEEPGLNRVIRAGYEMLHLQTYFTAGVEEVRAWTVRV 300

Query:   298 GTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDIL 357
             G TA QAAG+IHTD ++GFIRA  ++Y DF+ +KGE G K AGK R EGK+Y+V+DGD++
Sbjct:   301 GATAPQAAGVIHTDFEKGFIRAEVVAYDDFIQFKGEAGAKEAGKWRLEGKEYIVKDGDVM 360

Query:   358 NFLFNI 363
             +F FN+
Sbjct:   361 HFRFNV 366

GO:0008150 "biological_process" evidence=ND

---

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)
Q9NTK5	OLA1_HUMAN	3, ., 6, ., 3, ., -	0.4005	0.9807	0.8989	yes	N/A
Q5ZM25	OLA1_CHICK	3, ., 6, ., 3, ., -	0.3962	0.9834	0.9015	yes	N/A
A0JPJ7	OLA1_RAT	3, ., 6, ., 3, ., -	0.4032	0.9807	0.8989	yes	N/A
Q7ZU42	OLA1_DANRE	3, ., 6, ., 3, ., -	0.3800	0.9834	0.9015	yes	N/A
P37518	ENGD_BACSU	No assigned EC number	0.4808	1.0	0.9918	yes	N/A
Q89AR6	ENGD_BUCBP	No assigned EC number	0.4456	0.9862	0.9862	yes	N/A
Q8SWU7	Y1354_DROME	No assigned EC number	0.3777	0.9889	0.9042	yes	N/A
Q5R821	OLA1_PONAB	3, ., 6, ., 3, ., -	0.4005	0.9807	0.8989	yes	N/A
Q8K9V2	ENGD_BUCAP	No assigned EC number	0.4710	0.9972	1.0	yes	N/A
P38219	OLA1_YEAST	No assigned EC number	0.3810	0.9807	0.9035	yes	N/A
Q9CZ30	OLA1_MOUSE	3, ., 6, ., 3, ., -	0.3978	0.9807	0.8989	yes	N/A
P47270	Y024_MYCGE	No assigned EC number	0.4562	0.9917	0.9809	yes	N/A
P44681	ENGD_HAEIN	No assigned EC number	0.5096	1.0	1.0	yes	N/A
P57288	ENGD_BUCAI	No assigned EC number	0.4820	0.9972	1.0	yes	N/A
P91917	TG210_CAEEL	No assigned EC number	0.3825	0.9917	0.9113	yes	N/A
Q2HJ33	OLA1_BOVIN	3, ., 6, ., 3, ., -	0.3978	0.9807	0.8989	yes	N/A
P75088	Y026_MYCPN	No assigned EC number	0.4314	0.9476	0.9502	yes	N/A
O13998	YEI3_SCHPO	No assigned EC number	0.3611	0.9779	0.9056	yes	N/A
P0ABU4	ENGD_SHIFL	No assigned EC number	0.5261	1.0	1.0	yes	N/A
Q9CP90	ENGD_PASMU	No assigned EC number	0.5151	1.0	1.0	yes	N/A
Q7VMI2	ENGD_HAEDU	No assigned EC number	0.5068	1.0	1.0	yes	N/A
P0ABU2	ENGD_ECOLI	No assigned EC number	0.5261	1.0	1.0	N/A	N/A
P0ABU3	ENGD_ECO57	No assigned EC number	0.5261	1.0	1.0	N/A	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	363
PRK09601	364	PRK09601, PRK09601, GTP-binding protein YchF; Revi	0.0
COG0012	372	COG0012, COG0012, Predicted GTPase, probable trans	1e-158
PTZ00258	390	PTZ00258, PTZ00258, GTP-binding protein; Provision	1e-145
cd01900	274	cd01900, YchF, YchF GTPase	1e-128
TIGR00092	368	TIGR00092, TIGR00092, GTP-binding protein YchF	1e-110
pfam06071	84	pfam06071, YchF-GTPase_C, Protein of unknown funct	3e-46
cd04867	83	cd04867, TGS_YchF_C, TGS_YchF_C: This subfamily re	6e-42
cd01881	167	cd01881, Obg_like, Obg-like family of GTPases cons	3e-31
PRK09602	396	PRK09602, PRK09602, translation-associated GTPase;	1e-28
cd01899	318	cd01899, Ygr210, Ygr210 GTPase	1e-27
TIGR02729	329	TIGR02729, Obg_CgtA, Obg family GTPase CgtA	4e-27
cd01898	170	cd01898, Obg, Obg GTPase	8e-27
COG0536	369	COG0536, Obg, Predicted GTPase [General function p	1e-24
PRK12299	335	PRK12299, obgE, GTPase CgtA; Reviewed	8e-24
PRK12297	424	PRK12297, obgE, GTPase CgtA; Reviewed	1e-23
PRK12296	500	PRK12296, obgE, GTPase CgtA; Reviewed	6e-20
PRK12298	390	PRK12298, obgE, GTPase CgtA; Reviewed	6e-20
pfam01926	117	pfam01926, MMR_HSR1, 50S ribosome-binding GTPase	2e-18
cd01896	233	cd01896, DRG, Developmentally Regulated GTP-bindin	8e-16
COG1163	365	COG1163, DRG, Predicted GTPase [General function p	2e-15
cd00880	161	cd00880, Era_like, E	1e-09
cd04938	76	cd04938, TGS_Obg-like, TGS_Obg-like: The C-termina	1e-07
cd01879	159	cd01879, FeoB, Ferrous iron transport protein B (F	6e-07
pfam02421	190	pfam02421, FeoB_N, Ferrous iron transport protein	1e-06
cd01616	60	cd01616, TGS, The TGS domain, named after the ThrR	1e-06
COG0370	653	COG0370, FeoB, Fe2+ transport system protein B [In	4e-06
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	4e-06
COG1084	346	COG1084, COG1084, Predicted GTPase [General functi	1e-05
COG1160	444	COG1160, COG1160, Predicted GTPases [General funct	1e-05
COG2262	411	COG2262, HflX, GTPases [General function predictio	1e-05
cd01897	167	cd01897, NOG, Nucleolar GTP-binding protein (NOG)	2e-05
cd01894	157	cd01894, EngA1, EngA1 GTPase contains the first do	2e-05
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	3e-05
cd01878	204	cd01878, HflX, HflX GTPase family	1e-04
TIGR03156	351	TIGR03156, GTP_HflX, GTP-binding protein HflX	1e-04
PRK00093	435	PRK00093, PRK00093, GTP-binding protein Der; Revie	2e-04
TIGR03594	429	TIGR03594, GTPase_EngA, ribosome-associated GTPase	3e-04
PRK00089	292	PRK00089, era, GTPase Era; Reviewed	3e-04
PRK11058	426	PRK11058, PRK11058, GTPase HflX; Provisional	3e-04
TIGR00437	591	TIGR00437, feoB, ferrous iron transporter FeoB	5e-04
cd04163	168	cd04163, Era, E	5e-04
TIGR00436	270	TIGR00436, era, GTP-binding protein Era	0.002
cd01669	76	cd01669, TGS_Ygr210_C, TGS_Ygr210_C: The C-termina	0.003
PRK09554	772	PRK09554, feoB, ferrous iron transport protein B;	0.003
cd01857	140	cd01857, HSR1_MMR1, A circularly permuted subfamil	0.004
PRK05291	449	PRK05291, trmE, tRNA modification GTPase TrmE; Rev	0.004
COG1159	298	COG1159, Era, GTPase [General function prediction	0.004
cd01858	157	cd01858, NGP_1, A novel nucleolar GTP-binding prot	0.004

>gnl|CDD|236583 PRK09601, PRK09601, GTP-binding protein YchF; Reviewed

 Score =  554 bits (1430), Expect = 0.0
 Identities = 196/364 (53%), Positives = 266/364 (73%), Gaps = 1/364 (0%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M LKCG++GLPNVGKSTLFNALTK    A NYPFCTIEPN+G++ VPD RL  L  IVK 
Sbjct: 1   MGLKCGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           KKI PA I+ VDIAGLV GASKGEGLGN+FLA+IRE + ++HV+RCF+DD ITH+ G+++
Sbjct: 61  KKIVPATIEFVDIAGLVKGASKGEGLGNQFLANIREVDAIVHVVRCFEDDNITHVEGKVD 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           PI D E I TELIL+DL  +EK +++  KK    ++ +   L+LL++++ +L +  P R 
Sbjct: 121 PIRDIETINTELILADLETVEKRLERLEKKAKGGDKEAKAELELLEKLLEHLEEGKPART 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGF-KNNLLLDQLKIYAHNQNIPIIIICAK 239
           + L +EE   +K L LLT KP+++VANV E+     N  + +++  A  +   +++ICAK
Sbjct: 181 LELTDEEEKLLKSLQLLTAKPVLYVANVDEDDLADGNPYVKKVREIAAKEGAEVVVICAK 240

Query: 240 LEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGT 299
           +E EI++L++ +K  FL+ LGL+E+ L+ LIRA + LL L TYFT G KE+RAWTI  GT
Sbjct: 241 IEAEIAELDDEEKAEFLEELGLEESGLDRLIRAGYELLGLITYFTAGPKEVRAWTIKKGT 300

Query: 300 TAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNF 359
           TA QAAG+IHTD ++GFIRA  ISY D + Y  E G K AGK+R EGK Y+V+DGD+++F
Sbjct: 301 TAPQAAGVIHTDFEKGFIRAEVISYDDLIEYGSEAGAKEAGKVRLEGKDYIVQDGDVMHF 360

Query: 360 LFNI 363
            FN+
Sbjct: 361 RFNV 364

Length = 364

>gnl|CDD|223091 COG0012, COG0012, Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

 Score =  447 bits (1153), Expect = e-158
 Identities = 189/371 (50%), Positives = 250/371 (67%), Gaps = 9/371 (2%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVK- 59
           M+LK G++GLPNVGKSTLFNALTK      NYPFCTIEPN+G++ VPD RL  L  IVK 
Sbjct: 1   MSLKIGIVGLPNVGKSTLFNALTKAGAEIANYPFCTIEPNVGVVYVPDCRLDELAEIVKC 60

Query: 60  TKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEI 119
             KI PA ++ VDIAGLV GASKGEGLGNKFL +IRE + +IHV+RCF D  I H+ G++
Sbjct: 61  PPKIRPAPVEFVDIAGLVKGASKGEGLGNKFLDNIREVDAIIHVVRCFGDTDIEHVEGKV 120

Query: 120 NPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIEL---LKLLKRIIFNLNKSI 176
           +P+ D E+I TELIL DL  LEK  ++  K+     +   EL   L LL ++  +L +  
Sbjct: 121 DPVEDIEIINTELILWDLESLEKRWERLEKRAKAGKKLDKELKEELSLLGKLEEHLEEGK 180

Query: 177 PIR---LMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKN-NLLLDQLKIYAHNQNIP 232
           P R   L   + E+L ++  LNLLT KP+++VANV E+   N N  + +LK  A  +N  
Sbjct: 181 PARGLDLSKWSEEDLEALASLNLLTAKPMLYVANVSEDDLANLNEYVKRLKELAAKENAE 240

Query: 233 IIIICAKLEEEISDLNNI-DKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIR 291
           ++ + A +E E+ +L +  +K  FL  LG KE+ LN+LIRA + LL L+TYFT G KE+R
Sbjct: 241 VVPVSAAIELELRELADAEEKGEFLIELGQKESGLNELIRAGYGLLGLQTYFTAGVKEVR 300

Query: 292 AWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLV 351
           AWTI +G+ A  AAG+IH D ++GFIRA  ISY D + Y GE   K AGK R EGK Y+V
Sbjct: 301 AWTIKDGSKAPDAAGVIHPDFEKGFIRAEVISYADLIHYGGEAAAKEAGKRRLEGKDYIV 360

Query: 352 EDGDILNFLFN 362
           +DGD+++F FN
Sbjct: 361 QDGDVIHFKFN 371

Length = 372

>gnl|CDD|240334 PTZ00258, PTZ00258, GTP-binding protein; Provisional

 Score =  417 bits (1073), Expect = e-145
 Identities = 164/368 (44%), Positives = 237/368 (64%), Gaps = 6/368 (1%)

Query: 2   NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTK 61
           NLK G++GLPNVGKST FNAL K ++ AEN+PFCTI+PN   + VPD+R   L    K K
Sbjct: 21  NLKMGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPK 80

Query: 62  KIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINP 121
            I PA + + DIAGLV GAS+GEGLGN FL+HIR  + + HV+R F+D+ ITH+ GEI+P
Sbjct: 81  SIVPAQLDITDIAGLVKGASEGEGLGNAFLSHIRAVDGIYHVVRAFEDEDITHVEGEIDP 140

Query: 122 IHDAEVIQTELILSDLAILEKYIDKENKKFFLKNE--HSIELLKLLKRIIFNLNKSIPIR 179
           + D E+I +ELIL DL  +EK +D+  KK   K +       L +LK+++  L +  P+R
Sbjct: 141 VRDLEIISSELILKDLEFVEKRLDELTKKRKKKKKKKEEKVELDVLKKVLEWLEEGKPVR 200

Query: 180 LMSLNNEELMSIKFLNLLTIKPIIFVANVKENGF--KNNLLLDQLKIY-AHNQNIPIIII 236
                ++E+  +    LLT KP+I++ N+ E  F  + N  L ++K +       PII  
Sbjct: 201 DGDWTDKEIEILNEYQLLTAKPMIYLVNMSEKDFIRQKNKWLAKIKEWVGEKGGGPIIPY 260

Query: 237 CAKLEEEISDLNNID-KKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTI 295
            A+ EEE+++L + + +K +L+  G+K++ L+ +I+  + LL+L  +FT G  E+R WTI
Sbjct: 261 SAEFEEELAELGSEEERKEYLEEYGIKQSMLDKIIKTGYKLLNLIHFFTAGPDEVRCWTI 320

Query: 296 PNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGD 355
             GT A QAAG+IH+D ++GFI A  + Y+DFL    E   K  GK R EGK Y+V+DGD
Sbjct: 321 QKGTKAPQAAGVIHSDFEKGFICAEVMKYEDFLELGSEAAVKAEGKYRQEGKDYVVQDGD 380

Query: 356 ILNFLFNI 363
           I+ F FN+
Sbjct: 381 IIFFKFNV 388

Length = 390

>gnl|CDD|206687 cd01900, YchF, YchF GTPase

 Score =  369 bits (950), Expect = e-128
 Identities = 142/274 (51%), Positives = 195/274 (71%), Gaps = 1/274 (0%)

Query: 5   CGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF 64
            G++GLPNVGKSTLFNALTK    A NYPFCTIEPN+GI+ VPD+RL  L  IVK KKI 
Sbjct: 1   IGIVGLPNVGKSTLFNALTKSNAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIV 60

Query: 65  PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHD 124
           PA I+ VDIAGLV GASKGEGLGNKFL+HIRE + + HV+RCF+DD ITH+ G ++P+ D
Sbjct: 61  PATIEFVDIAGLVKGASKGEGLGNKFLSHIREVDAIAHVVRCFEDDDITHVEGSVDPVRD 120

Query: 125 AEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLN 184
            E+I TELIL+DL  +EK +++  KK    ++ + E L+LL++I  +L +  P R + L 
Sbjct: 121 IEIINTELILADLETIEKRLERLEKKAKSGDKEAKEELELLEKIKEHLEEGKPARTLELT 180

Query: 185 NEELMSIKFLNLLTIKPIIFVANVKENGF-KNNLLLDQLKIYAHNQNIPIIIICAKLEEE 243
           +EE+  +K L LLT KP+I+VANV E+   + N  + +++  A  +   +I I AKLE E
Sbjct: 181 DEEIKILKSLQLLTAKPVIYVANVSEDDLIRGNNKVLKVREIAAKEGAEVIPISAKLEAE 240

Query: 244 ISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLL 277
           +++L+  +   FL+ LGL+E+ L+ LIRA + LL
Sbjct: 241 LAELDEEEAAEFLEELGLEESGLDKLIRAGYELL 274

YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor. Length = 274

>gnl|CDD|129200 TIGR00092, TIGR00092, GTP-binding protein YchF

 Score =  325 bits (834), Expect = e-110
 Identities = 178/369 (48%), Positives = 237/369 (64%), Gaps = 7/369 (1%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDKRLKHLNNIVK 59
           M L  G++GLPNVGKSTLF A T L  + A N PF TIEPN G++   D RL  L   +K
Sbjct: 1   MGLSGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIK 60

Query: 60  TKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEI 119
            +K+ P   + VDIAGLV GASKGEGLGN+FLA+IRE +I+ HV+RCF+DD I H+    
Sbjct: 61  PEKVPPTTTEFVDIAGLVGGASKGEGLGNQFLANIREVDIIQHVVRCFEDDIIHHVGNVD 120

Query: 120 NPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIR 179
           +P  D E+I  EL+ +D  ++EK I +  K      +   E L LL+ I+  LN     R
Sbjct: 121 DPRDDFEIIDEELLKADEFLVEKRIGRSKKS-AEGGKDKKEELLLLEIILPLLNGGQMAR 179

Query: 180 LMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKN---NLLLDQLKIYAHNQNIPIII- 235
            + L+ EEL+ IK LNLLT KPII +ANV E+  +N   N LL    I A+++  P ++ 
Sbjct: 180 HVDLSKEELILIKSLNLLTKKPIILIANVSEDYLRNLNNNYLLIVEWIAAYSKGDPKVVF 239

Query: 236 ICAKLEEEISDLNNIDKKFFLDNLGLKETK-LNDLIRASFSLLDLRTYFTVGKKEIRAWT 294
           +CA  E E+S+L++ +++ FL  LGL E+  LN +IRA + LL L  +FT GK+E+RAWT
Sbjct: 240 VCALEESELSELDDEERQEFLQKLGLTESAGLNIIIRARYKLLLLSFFFTGGKEEVRAWT 299

Query: 295 IPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDG 354
              G  A QAAGIIHTD + GFI A  IS+ DF+  K  QG K  G +R EGK Y+V+DG
Sbjct: 300 RKGGWAAPQAAGIIHTDFETGFIAAEVISWDDFIYKKSSQGAKKGGLMRLEGKYYVVDDG 359

Query: 355 DILNFLFNI 363
           D+L F FN+
Sbjct: 360 DVLFFAFNV 368

This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor [Unknown function, General]. Length = 368

>gnl|CDD|203386 pfam06071, YchF-GTPase_C, Protein of unknown function (DUF933)

 Score =  151 bits (385), Expect = 3e-46
 Identities = 51/84 (60%), Positives = 63/84 (75%)

Query: 279 LRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKN 338
           L T+FT G KE+RAWTI  GTTA QAAG+IH+D ++GFIRA  ISY D + Y  E   K 
Sbjct: 1   LITFFTAGPKEVRAWTIRKGTTAPQAAGVIHSDFEKGFIRAEVISYDDLIEYGSEAKAKE 60

Query: 339 AGKIRSEGKKYLVEDGDILNFLFN 362
           AGK+R EGK Y+V+DGDI++F FN
Sbjct: 61  AGKLRLEGKDYIVQDGDIIHFRFN 84

This domain is found at the C terminus of the YchF GTP-binding protein and is possibly related to the ubiquitin-like and MoaD/ThiS superfamilies. Length = 84

>gnl|CDD|133440 cd04867, TGS_YchF_C, TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown

 Score =  141 bits (357), Expect = 6e-42
 Identities = 45/83 (54%), Positives = 57/83 (68%)

Query: 279 LRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKN 338
           L ++FT G  E+RAWTI  GT A QAAG+IHTD ++GFIRA  + Y+D +    E   K 
Sbjct: 1   LISFFTAGPDEVRAWTIRKGTKAPQAAGVIHTDFEKGFIRAEVMKYEDLVELGSEAAAKE 60

Query: 339 AGKIRSEGKKYLVEDGDILNFLF 361
           AGK R EGK Y+V+DGDI+ F F
Sbjct: 61  AGKYRQEGKDYVVQDGDIIFFKF 83

The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the family contain a C-terminal TGS domain. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role. Length = 83

>gnl|CDD|206668 cd01881, Obg_like, Obg-like family of GTPases consist of five subfamilies: Obg, DRG, YyaF/YchF, Ygr210, and NOG1

 Score =  115 bits (291), Expect = 3e-31
 Identities = 50/137 (36%), Positives = 77/137 (56%), Gaps = 23/137 (16%)

Query: 6   GLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFP 65
           GL+GLPNVGKSTL +ALT  K+   +YPF T+EPN+G+ E  D                 
Sbjct: 1   GLVGLPNVGKSTLLSALTSAKVEIASYPFTTLEPNVGVFEFGD----------------G 44

Query: 66  AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDA 125
             I+++D+ GL+ GAS+G GLG + LAH+  +++++HVI   +D          +P+ D 
Sbjct: 45  VDIQIIDLPGLLDGASEGRGLGEQILAHLYRSDLILHVIDASEDCV-------GDPLEDQ 97

Query: 126 EVIQTELILSDLAILEK 142
           + +  E+  S L +  K
Sbjct: 98  KTLNEEVSGSFLFLKNK 114

The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1. 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 form one major branch of the Obg family and the Ygr210 and YchF subfamilies form another branch. No GEFs, GAPs, or GDIs for Obg have been identified. Length = 167

>gnl|CDD|236584 PRK09602, PRK09602, translation-associated GTPase; Reviewed

 Score =  114 bits (288), Expect = 1e-28
 Identities = 70/233 (30%), Positives = 112/233 (48%), Gaps = 43/233 (18%)

Query: 6   GLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGI----IEVPDKRLKH-----LNN 56
           GL+G PNVGKST FNA T   +   NYPF TI+PN+G+    +E P K L          
Sbjct: 5   GLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGK 64

Query: 57  IVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKI--TH 114
            +   +  P  ++L+D+AGLV GA +G GLGN+FL  +R+ + +IHV+     D    T 
Sbjct: 65  CIDGTRFIP--VELIDVAGLVPGAHEGRGLGNQFLDDLRQADALIHVV-----DASGSTD 117

Query: 115 ISGEI------NPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRI 168
             G        +P+ D + ++ EL +    ILEK  +K ++K   +     ++ + L   
Sbjct: 118 EEGNPVEPGSHDPVEDIKFLEEELDMWIYGILEKNWEKFSRKAQAEKF---DIEEALAEQ 174

Query: 169 I--FNLNK----------SIPIRLMSLNNEELMSIKFLNLLTI--KPIIFVAN 207
           +    +N+           +P       +E+L  ++    L    KP++  AN
Sbjct: 175 LSGLGINEEHVKEALRELGLPEDPSKWTDEDL--LELARELRKISKPMVIAAN 225

Length = 396

>gnl|CDD|206686 cd01899, Ygr210, Ygr210 GTPase

 Score =  110 bits (277), Expect = 1e-27
 Identities = 74/231 (32%), Positives = 117/231 (50%), Gaps = 39/231 (16%)

Query: 6   GLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGI----IEVPDKRLKHLNN----- 56
           GL+G PNVGKST FNA T   +   NYPF TI+PN+G+    +E P K L    N     
Sbjct: 2   GLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGK 61

Query: 57  IVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKD------- 109
            +  K+  P  ++L+D+AGLV GA +G+GLGN+FL  +R+ +++IHV+    D       
Sbjct: 62  CIDGKRYVP--VELIDVAGLVPGAHEGKGLGNQFLDDLRDADVLIHVV----DASGGTDA 115

Query: 110 DKITHISGEINPIHDAEVIQTELILSDLAILEKYIDK-ENKKFFLKNEHSIELLKLLKRI 168
           +     +G  +P+ D E ++ E+ +    ILE+  +K   K    K +    L + L   
Sbjct: 116 EGNGVETGGYDPLEDIEFLENEIDMWIYGILERNWEKIVRKAKAEKTDIVEALSEQLS-- 173

Query: 169 IFNLNKSI----------PIRLMSLNNEELMSIKFLNLLTI--KPIIFVAN 207
            F +N+ +          P  L   ++E+L  ++    L    KP++  AN
Sbjct: 174 GFGVNEDVVIEALEELELPADLSKWDDEDL--LRLARELRKRRKPMVIAAN 222

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. Length = 318

>gnl|CDD|233986 TIGR02729, Obg_CgtA, Obg family GTPase CgtA

 Score =  109 bits (274), Expect = 4e-27
 Identities = 53/139 (38%), Positives = 77/139 (55%), Gaps = 27/139 (19%)

Query: 6   GLIGLPNVGKSTLFNALT--KLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKI 63
           GL+GLPN GKSTL +A++  K KI+  +YPF T+ PN+G++ V D R             
Sbjct: 161 GLVGLPNAGKSTLISAVSAAKPKIA--DYPFTTLVPNLGVVRVDDGR------------- 205

Query: 64  FPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIH 123
                 + DI GL+ GAS+G GLG++FL HI  T +++H+I    +D         +PI 
Sbjct: 206 ---SFVIADIPGLIEGASEGAGLGHRFLKHIERTRVLLHLIDISPED-------GSDPIE 255

Query: 124 DAEVIQTELILSDLAILEK 142
           D E+I+ EL      + EK
Sbjct: 256 DYEIIRNELKKYSPELAEK 274

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 [Protein synthesis, Other]. Length = 329

>gnl|CDD|206685 cd01898, Obg, Obg GTPase

 Score =  104 bits (261), Expect = 8e-27
 Identities = 57/139 (41%), Positives = 83/139 (59%), Gaps = 29/139 (20%)

Query: 6   GLIGLPNVGKSTLFNALT--KLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKI 63
           GL+GLPN GKSTL +A++  K KI+  +YPF T+ PN+G++ V D R     + V     
Sbjct: 4   GLVGLPNAGKSTLLSAISNAKPKIA--DYPFTTLVPNLGVVRVDDGR-----SFV----- 51

Query: 64  FPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIH 123
                 + DI GL+ GAS+G+GLG++FL HI  T +++HVI    D     +SGE +P+ 
Sbjct: 52  ------IADIPGLIEGASEGKGLGHRFLRHIERTRVLLHVI----D-----LSGEDDPVE 96

Query: 124 DAEVIQTELILSDLAILEK 142
           D E I+ EL   +  + EK
Sbjct: 97  DYETIRNELEAYNPGLAEK 115

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. Length = 170

>gnl|CDD|223610 COG0536, Obg, Predicted GTPase [General function prediction only]

 Score =  102 bits (257), Expect = 1e-24
 Identities = 60/200 (30%), Positives = 88/200 (44%), Gaps = 56/200 (28%)

Query: 6   GLIGLPNVGKSTLFNALT--KLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKI 63
           GL+GLPN GKSTL +A++  K KI+  +YPF T+ PN+G++ V         + V     
Sbjct: 163 GLVGLPNAGKSTLLSAVSAAKPKIA--DYPFTTLVPNLGVVRVDGG-----ESFV----- 210

Query: 64  FPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIH 123
                 + DI GL+ GAS+G GLG +FL HI  T +++HVI     D         +PI 
Sbjct: 211 ------VADIPGLIEGASEGVGLGLRFLRHIERTRVLLHVIDLSPID-------GRDPIE 257

Query: 124 DAEVIQTEL---------------------ILSD--LAILEKYIDKENKKFF------LK 154
           D + I+ EL                      L +  L  L+K + +            L 
Sbjct: 258 DYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDEEELEELKKALAEALGWEVFYLISALT 317

Query: 155 NEHSIELLKLLKRIIFNLNK 174
            E   ELL+ L  ++     
Sbjct: 318 REGLDELLRALAELLEETKA 337

Length = 369

>gnl|CDD|237048 PRK12299, obgE, GTPase CgtA; Reviewed

 Score = 99.8 bits (250), Expect = 8e-24
 Identities = 49/139 (35%), Positives = 76/139 (54%), Gaps = 30/139 (21%)

Query: 6   GLIGLPNVGKSTLFNALT--KLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKI 63
           GL+GLPN GKSTL +A++  K KI+  +YPF T+ PN+G++ V D +     + V     
Sbjct: 162 GLVGLPNAGKSTLISAVSAAKPKIA--DYPFTTLHPNLGVVRVDDYK-----SFV----- 209

Query: 64  FPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIH 123
                 + DI GL+ GAS+G GLG++FL HI  T +++H++     D          P+ 
Sbjct: 210 ------IADIPGLIEGASEGAGLGHRFLKHIERTRLLLHLVDIEAVD----------PVE 253

Query: 124 DAEVIQTELILSDLAILEK 142
           D + I+ EL      + +K
Sbjct: 254 DYKTIRNELEKYSPELADK 272

Length = 335

>gnl|CDD|237046 PRK12297, obgE, GTPase CgtA; Reviewed

 Score =  100 bits (252), Expect = 1e-23
 Identities = 57/141 (40%), Positives = 80/141 (56%), Gaps = 31/141 (21%)

Query: 6   GLIGLPNVGKSTLFNALT--KLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKI 63
           GL+G PNVGKSTL + ++  K KI+  NY F T+ PN+G++E  D R     + V     
Sbjct: 162 GLVGFPNVGKSTLLSVVSNAKPKIA--NYHFTTLVPNLGVVETDDGR-----SFV----- 209

Query: 64  FPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEI--NP 121
                 + DI GL+ GAS+G GLG++FL HI  T +++HVI    D     +SG    +P
Sbjct: 210 ------MADIPGLIEGASEGVGLGHQFLRHIERTRVIVHVI----D-----MSGSEGRDP 254

Query: 122 IHDAEVIQTELILSDLAILEK 142
           I D E I  EL L +  +LE+
Sbjct: 255 IEDYEKINKELKLYNPRLLER 275

Length = 424

>gnl|CDD|237045 PRK12296, obgE, GTPase CgtA; Reviewed

 Score = 90.7 bits (226), Expect = 6e-20
 Identities = 45/129 (34%), Positives = 71/129 (55%), Gaps = 27/129 (20%)

Query: 6   GLIGLPNVGKSTLFNALT--KLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKI 63
           GL+G P+ GKS+L +AL+  K KI+  +YPF T+ PN+G+++  D R             
Sbjct: 163 GLVGFPSAGKSSLISALSAAKPKIA--DYPFTTLVPNLGVVQAGDTRFT----------- 209

Query: 64  FPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIH 123
                 + D+ GL+ GAS+G+GLG  FL HI    +++HV+ C      T   G  +P+ 
Sbjct: 210 ------VADVPGLIPGASEGKGLGLDFLRHIERCAVLVHVVDC-----ATLEPGR-DPLS 257

Query: 124 DAEVIQTEL 132
           D + ++ EL
Sbjct: 258 DIDALEAEL 266

Length = 500

>gnl|CDD|237047 PRK12298, obgE, GTPase CgtA; Reviewed

 Score = 89.9 bits (224), Expect = 6e-20
 Identities = 47/127 (37%), Positives = 70/127 (55%), Gaps = 23/127 (18%)

Query: 6   GLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFP 65
           GL+GLPN GKST   A++  K    +YPF T+ PN+G++ V D+R     + V       
Sbjct: 163 GLLGLPNAGKSTFIRAVSAAKPKVADYPFTTLVPNLGVVRVDDER-----SFV------- 210

Query: 66  AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDA 125
               + DI GL+ GAS+G GLG +FL H+    +++H+I       I  I G  +P+ +A
Sbjct: 211 ----VADIPGLIEGASEGAGLGIRFLKHLERCRVLLHLI------DIAPIDGS-DPVENA 259

Query: 126 EVIQTEL 132
            +I  EL
Sbjct: 260 RIIINEL 266

Length = 390

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

 Score = 80.0 bits (198), Expect = 2e-18
 Identities = 41/130 (31%), Positives = 66/130 (50%), Gaps = 23/130 (17%)

Query: 4   KCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKK 62
           +  L+G PNVGKSTL NALT  K++   +YP  T +P +G++ +  +             
Sbjct: 1   RVALVGRPNVGKSTLINALTGAKVAIVSDYPGTTRDPILGVLGLGRQ------------- 47

Query: 63  IFPAIIKLVDIAGLVSGASKGEGLG--NKFLAHIRETNIVIHVI--RCFKDDKITHISGE 118
                I LVD  GL+ GAS+G+G+   N+FL  IRE ++++ V+       +    I  E
Sbjct: 48  -----IILVDTPGLIEGASEGKGVEGFNRFLEAIREADLILLVVDASEGLTEDDEEILEE 102

Query: 119 INPIHDAEVI 128
           +  +    +I
Sbjct: 103 LEKLPKKPII 112

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

>gnl|CDD|206683 cd01896, DRG, Developmentally Regulated GTP-binding protein (DRG)

 Score = 75.7 bits (187), Expect = 8e-16
 Identities = 32/106 (30%), Positives = 52/106 (49%), Gaps = 17/106 (16%)

Query: 5   CGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF 64
             L+G P+VGKSTL + LT  K     Y F T+    G++E                   
Sbjct: 3   VALVGFPSVGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVMEYKG---------------- 46

Query: 65  PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDD 110
            A I+L+D+ G++ GAS G+G G + +A  R  ++++ V+   K +
Sbjct: 47  -AKIQLLDLPGIIEGASDGKGRGRQVIAVARTADLILIVLDATKPE 91

The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins. 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. Length = 233

>gnl|CDD|224085 COG1163, DRG, Predicted GTPase [General function prediction only]

 Score = 76.2 bits (188), Expect = 2e-15
 Identities = 84/362 (23%), Positives = 143/362 (39%), Gaps = 78/362 (21%)

Query: 6   GLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFP 65
            L+G P+VGKSTL N LT  K    +YPF T+EP  G++E                    
Sbjct: 67  ALVGFPSVGKSTLLNKLTNTKSEVADYPFTTLEPVPGMLEYKG----------------- 109

Query: 66  AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDA 125
           A I+L+D+ G++ GAS G G G + L+  R  +++I V+  F+D             H  
Sbjct: 110 AQIQLLDLPGIIEGASSGRGRGRQVLSVARNADLIIIVLDVFEDP------------HHR 157

Query: 126 EVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNN 185
           ++I+ E  L D+ I    ++K      +K           K+    +  +    L  L+ 
Sbjct: 158 DIIERE--LEDVGI---RLNKRPPDVTIK-----------KKESGGIRINGTGPLTHLDE 201

Query: 186 EELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLK--IYAHNQNIPIIIICAKL--- 240
           + + +I  L    I      A+V     + ++ LD L   +  +    P + +  K+   
Sbjct: 202 DTVRAI--LREYRIHN----ADVL---IREDVTLDDLIDALEGNRVYKPALYVVNKIDLP 252

Query: 241 -EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWT----I 295
             EE+  L        +     K   L++L    + +L L   +T    E   +     +
Sbjct: 253 GLEELERLARKPNSVPIS--AKKGINLDELKERIWDVLGLIRVYTKPPGEEPDFDEPLIL 310

Query: 296 PNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGD 355
             G+T       IH D+   F  A  +  K           K+ G+    G  +++ED D
Sbjct: 311 RRGSTVGDVCRKIHRDLVENFRYAR-VWGKSV---------KHPGQ--RVGLDHVLEDED 358

Query: 356 IL 357
           I+
Sbjct: 359 IV 360

Length = 365

>gnl|CDD|206646 cd00880, Era_like, E

 Score = 56.1 bits (136), Expect = 1e-09
 Identities = 22/102 (21%), Positives = 34/102 (33%), Gaps = 17/102 (16%)

Query: 6   GLIGLPNVGKSTLFNALTKLKISA-ENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF 64
            + G PNVGKS+L NAL    +      P  T +P     E+                  
Sbjct: 1   AIFGRPNVGKSSLLNALLGQNVGIVSPIPGTTRDPVRKEWELLPLG-------------- 46

Query: 65  PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRC 106
              + L+D  GL      G     +        ++V+ V+  
Sbjct: 47  --PVVLIDTPGLDEEGGLGRERVEEARQVADRADLVLLVVDS 86

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

>gnl|CDD|133441 cd04938, TGS_Obg-like, TGS_Obg-like: The C-terminal TGS domain of Obg-like GTPases such as those present in DRG (developmentally regulated GTP-binding protein), and GTP-binding proteins Ygr210 and YchF

 Score = 48.2 bits (115), Expect = 1e-07
 Identities = 22/94 (23%), Positives = 31/94 (32%), Gaps = 29/94 (30%)

Query: 279 LRTYFTVGKK-----------EIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDF 327
           L   + V                    +  GTT    A  IH D+++GFI A+       
Sbjct: 1   LIPVYPVKNIHTFTNGSGGNVFRDCVLVKKGTTVGDVARKIHGDLEKGFIEAVG------ 54

Query: 328 LLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFLF 361
                       G+ R EGK  ++   DIL F  
Sbjct: 55  ------------GRRRLEGKDVILGKNDILKFKT 76

The TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role. Length = 76

>gnl|CDD|206667 cd01879, FeoB, Ferrous iron transport protein B (FeoB) family

 Score = 48.2 bits (116), Expect = 6e-07
 Identities = 20/46 (43%), Positives = 29/46 (63%)

Query: 7  LIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLK 52
          L+G PNVGK+TLFNALT  +    N+P  T+E   G  ++  K ++
Sbjct: 2  LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGEFKLGGKEIE 47

Ferrous iron transport protein B (FeoB) subfamily. 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. Length = 159

>gnl|CDD|217025 pfam02421, FeoB_N, Ferrous iron transport protein B

 Score = 48.3 bits (116), Expect = 1e-06
 Identities = 19/50 (38%), Positives = 28/50 (56%)

Query: 3  LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLK 52
          +   L+G PNVGK+TLFNALT  +    N+P  T+E   G  +     ++
Sbjct: 1  ITIALVGNPNVGKTTLFNALTGARQHVGNWPGVTVEKKEGTFKYKGYEIE 50

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. 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. Length = 190

>gnl|CDD|133435 cd01616, TGS, The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin

 Score = 44.6 bits (106), Expect = 1e-06
 Identities = 22/81 (27%), Positives = 32/81 (39%), Gaps = 22/81 (27%)

Query: 281 TYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAG 340
             FT       A  +P G TA   A  IHTD+ +GFI AL                   G
Sbjct: 2   IIFTPDG---SAVELPKGATAMDFALKIHTDLGKGFIGAL-----------------VNG 41

Query: 341 KIRSEGKKYLVEDGDILNFLF 361
           ++      Y ++DGD ++ + 
Sbjct: 42  QL--VDLSYTLQDGDTVSIVT 60

TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role. Length = 60

>gnl|CDD|223447 COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion transport and metabolism]

 Score = 48.4 bits (116), Expect = 4e-06
 Identities = 20/52 (38%), Positives = 28/52 (53%)

Query: 1  MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLK 52
            L   L+G PNVGK+TLFNALT       N+P  T+E   G ++     ++
Sbjct: 2  KKLTVALVGNPNVGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKYKGHEIE 53

Length = 653

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

 Score = 45.9 bits (109), Expect = 4e-06
 Identities = 23/100 (23%), Positives = 43/100 (43%), Gaps = 18/100 (18%)

Query: 6   GLIGLPNVGKSTLFNALTKLKISA-ENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF 64
            ++G   VGKS+L NAL   ++    + P  T +P++ + E+   ++K            
Sbjct: 1   VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDVYVKELDKGKVK------------ 48

Query: 65  PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVI 104
              + LVD  GL      G G        +R  ++++ V+
Sbjct: 49  ---LVLVDTPGLDEFG--GLGREELARLLLRGADLILLVV 83

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

>gnl|CDD|224009 COG1084, COG1084, Predicted GTPase [General function prediction only]

 Score = 46.5 bits (111), Expect = 1e-05
 Identities = 18/42 (42%), Positives = 21/42 (50%)

Query: 9   GLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR 50
           G PNVGKS+L   LT  K     YPF T   ++G  E    R
Sbjct: 175 GYPNVGKSSLVRKLTTAKPEVAPYPFTTKGIHVGHFERGYLR 216

Length = 346

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

 Score = 46.4 bits (111), Expect = 1e-05
 Identities = 28/103 (27%), Positives = 43/103 (41%), Gaps = 24/103 (23%)

Query: 7   LIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFP 65
           ++G PNVGKSTLFN LT  +I+   + P  T +   G  E   +                
Sbjct: 8   IVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLGRE--------------- 52

Query: 66  AIIKLVDIAGLVSGASKGEGLG----NKFLAHIRETNIVIHVI 104
               L+D  GL  G    + L      + L  I E ++++ V+
Sbjct: 53  --FILIDTGGLDDG--DEDELQELIREQALIAIEEADVILFVV 91

Length = 444

>gnl|CDD|225171 COG2262, HflX, GTPases [General function prediction only]

 Score = 46.5 bits (111), Expect = 1e-05
 Identities = 20/45 (44%), Positives = 26/45 (57%)

Query: 6   GLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR 50
            L+G  N GKSTLFNALT   +   +  F T++P    IE+ D R
Sbjct: 196 ALVGYTNAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGDGR 240

Length = 411

>gnl|CDD|206684 cd01897, NOG, Nucleolar GTP-binding protein (NOG)

 Score = 44.5 bits (106), Expect = 2e-05
 Identities = 18/42 (42%), Positives = 22/42 (52%)

Query: 9  GLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR 50
          G PNVGKS+L N LT+ K     YPF T    +G  +    R
Sbjct: 7  GYPNVGKSSLVNKLTRAKPEVAPYPFTTKSLFVGHFDYKYLR 48

NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans. 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. Length = 167

>gnl|CDD|206681 cd01894, EngA1, EngA1 GTPase contains the first domain of EngA

 Score = 44.0 bits (105), Expect = 2e-05
 Identities = 14/28 (50%), Positives = 19/28 (67%), Gaps = 1/28 (3%)

Query: 7  LIGLPNVGKSTLFNALTKLKIS-AENYP 33
          ++G PNVGKSTLFN LT  + +   + P
Sbjct: 2  IVGRPNVGKSTLFNRLTGRRDAIVSDTP 29

This EngA1 subfamily 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. Length = 157

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

 Score = 43.5 bits (103), Expect = 3e-05
 Identities = 31/103 (30%), Positives = 40/103 (38%), Gaps = 16/103 (15%)

Query: 4   KCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKK 62
           K  ++G PNVGKSTL N L   KIS  E  P  T      +IE   K  K          
Sbjct: 3   KIVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIEEDGKTYK---------- 52

Query: 63  IFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIR 105
                  L+D AG     +          + +R  +IVI V+ 
Sbjct: 53  -----FNLLDTAGQEDYDAIRRLYYRAVESSLRVFDIVILVLD 90

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

>gnl|CDD|206666 cd01878, HflX, HflX GTPase family

 Score = 42.4 bits (101), Expect = 1e-04
 Identities = 21/45 (46%), Positives = 28/45 (62%)

Query: 6  GLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR 50
           L+G  N GKSTLFNALT   + AE+  F T++P    I++P  R
Sbjct: 45 ALVGYTNAGKSTLFNALTGADVLAEDQLFATLDPTTRRIKLPGGR 89

HflX subfamily. 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. Length = 204

>gnl|CDD|234125 TIGR03156, GTP_HflX, GTP-binding protein HflX

 Score = 43.2 bits (103), Expect = 1e-04
 Identities = 19/45 (42%), Positives = 27/45 (60%)

Query: 6   GLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR 50
            L+G  N GKSTLFNALT   + A +  F T++P    +++PD  
Sbjct: 193 ALVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPDGG 237

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) [Unknown function, General]. Length = 351

>gnl|CDD|234628 PRK00093, PRK00093, GTP-binding protein Der; Reviewed

 Score = 42.3 bits (101), Expect = 2e-04
 Identities = 13/22 (59%), Positives = 17/22 (77%)

Query: 7  LIGLPNVGKSTLFNALTKLKIS 28
          ++G PNVGKSTLFN LT  + +
Sbjct: 6  IVGRPNVGKSTLFNRLTGKRDA 27

Length = 435

>gnl|CDD|234274 TIGR03594, GTPase_EngA, ribosome-associated GTPase EngA

 Score = 42.0 bits (100), Expect = 3e-04
 Identities = 14/28 (50%), Positives = 19/28 (67%), Gaps = 1/28 (3%)

Query: 7  LIGLPNVGKSTLFNALTKLKIS-AENYP 33
          ++G PNVGKSTLFN LT  + +   + P
Sbjct: 4  IVGRPNVGKSTLFNRLTGKRDAIVSDTP 31

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 [Protein synthesis, Other]. Length = 429

>gnl|CDD|234624 PRK00089, era, GTPase Era; Reviewed

 Score = 41.6 bits (99), Expect = 3e-04
 Identities = 18/31 (58%), Positives = 20/31 (64%), Gaps = 3/31 (9%)

Query: 1  MNLKCG---LIGLPNVGKSTLFNALTKLKIS 28
          M  K G   ++G PNVGKSTL NAL   KIS
Sbjct: 1  MGFKSGFVAIVGRPNVGKSTLLNALVGQKIS 31

Length = 292

>gnl|CDD|182934 PRK11058, PRK11058, GTPase HflX; Provisional

 Score = 42.0 bits (99), Expect = 3e-04
 Identities = 18/42 (42%), Positives = 28/42 (66%)

Query: 7   LIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD 48
           L+G  N GKSTLFN +T+ ++ A +  F T++P +  I+V D
Sbjct: 202 LVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVAD 243

Length = 426

>gnl|CDD|232975 TIGR00437, feoB, ferrous iron transporter FeoB

 Score = 41.6 bits (98), Expect = 5e-04
 Identities = 18/30 (60%), Positives = 21/30 (70%)

Query: 9  GLPNVGKSTLFNALTKLKISAENYPFCTIE 38
          G PNVGKSTLFNALT    +  N+P  T+E
Sbjct: 1  GNPNVGKSTLFNALTGANQTVGNWPGVTVE 30

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 [Transport and binding proteins, Cations and iron carrying compounds]. Length = 591

>gnl|CDD|206726 cd04163, Era, E

 Score = 39.8 bits (94), Expect = 5e-04
 Identities = 18/28 (64%), Positives = 19/28 (67%), Gaps = 3/28 (10%)

Query: 4  KCG---LIGLPNVGKSTLFNALTKLKIS 28
          K G   +IG PNVGKSTL NAL   KIS
Sbjct: 2  KSGFVAIIGRPNVGKSTLLNALVGQKIS 29

coli Ras-like protein (Era) is a multifunctional GTPase. 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. Length = 168

>gnl|CDD|129528 TIGR00436, era, GTP-binding protein Era

 Score = 39.3 bits (92), Expect = 0.002
 Identities = 34/150 (22%), Positives = 51/150 (34%), Gaps = 24/150 (16%)

Query: 3   LKCGLIGLPNVGKSTLFNAL--------------TKLKISAENYPFCTIEPNIGIIEVPD 48
               ++G PNVGKSTL N L              T+ +IS       T    I  I+ P 
Sbjct: 1   GFVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNRISGI---HTTGASQIIFIDTPG 57

Query: 49  KRL-KHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETN-----IVIH 102
               KH  N +  K+   A I  VD+   V  + +  G G   L  ++            
Sbjct: 58  FHEKKHSLNRLMMKEARSA-IGGVDLILFVVDSDQWNGDGEFVLTKLQNLKRPVVLTRNK 116

Query: 103 VIRCFKDDKITHISGEINPIHDAEVIQTEL 132
           +   FKD  +  I          +++    
Sbjct: 117 LDNKFKDKLLPLIDKYAILEDFKDIVPISA 146

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein [Protein synthesis, Other]. Length = 270

>gnl|CDD|133439 cd01669, TGS_Ygr210_C, TGS_Ygr210_C: The C-terminal TGS domain of Ygr210 GTP-binding protein which is a member of Obg-like family of GTPases, and present in archaea

 Score = 36.1 bits (84), Expect = 0.003
 Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 17/66 (25%)

Query: 292 AWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLV 351
           A+ +P G+TA   A  IHTDI  GF+ A+                 +A   R  G+ Y +
Sbjct: 24  AFLLPKGSTARDLAYAIHTDIGDGFLHAI-----------------DARTGRRVGEDYEL 66

Query: 352 EDGDIL 357
           +  D++
Sbjct: 67  KHRDVI 72

Several Obg-like 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. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role. Length = 76

>gnl|CDD|236563 PRK09554, feoB, ferrous iron transport protein B; Reviewed

 Score = 39.3 bits (92), Expect = 0.003
 Identities = 25/76 (32%), Positives = 32/76 (42%), Gaps = 17/76 (22%)

Query: 3  LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKK 62
          L  GLIG PN GK+TLFN LT  +    N+   T+E   G     D +            
Sbjct: 4  LTIGLIGNPNSGKTTLFNQLTGARQRVGNWAGVTVERKEGQFSTTDHQ------------ 51

Query: 63 IFPAIIKLVDIAGLVS 78
               + LVD+ G  S
Sbjct: 52 -----VTLVDLPGTYS 62

Length = 772

>gnl|CDD|206750 cd01857, HSR1_MMR1, A circularly permuted subfamily of the Ras GTPases

 Score = 37.2 bits (87), Expect = 0.004
 Identities = 26/73 (35%), Positives = 30/73 (41%), Gaps = 21/73 (28%)

Query: 6   GLIGLPNVGKSTLFNAL-TKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF 64
           GL+G PNVGKS+L NAL    K+S  + P  T               KH   I       
Sbjct: 86  GLVGYPNVGKSSLINALVGSKKVSVSSTPGKT---------------KHFQTIFLEPG-- 128

Query: 65  PAIIKLVDIAGLV 77
              I L D  GLV
Sbjct: 129 ---ITLCDCPGLV 138

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. Length = 140

>gnl|CDD|235392 PRK05291, trmE, tRNA modification GTPase TrmE; Reviewed

 Score = 38.6 bits (91), Expect = 0.004
 Identities = 11/18 (61%), Positives = 13/18 (72%)

Query: 7   LIGLPNVGKSTLFNALTK 24
           + G PNVGKS+L NAL  
Sbjct: 220 IAGRPNVGKSSLLNALLG 237

Length = 449

>gnl|CDD|224081 COG1159, Era, GTPase [General function prediction only]

 Score = 38.3 bits (90), Expect = 0.004
 Identities = 19/31 (61%), Positives = 20/31 (64%), Gaps = 3/31 (9%)

Query: 1  MNLKCG---LIGLPNVGKSTLFNALTKLKIS 28
          M  K G   +IG PNVGKSTL NAL   KIS
Sbjct: 2  MKFKSGFVAIIGRPNVGKSTLLNALVGQKIS 32

Length = 298

>gnl|CDD|206751 cd01858, NGP_1, A novel nucleolar GTP-binding protein, circularly permuted subfamily of the Ras GTPases

 Score = 37.3 bits (87), Expect = 0.004
 Identities = 19/59 (32%), Positives = 26/59 (44%), Gaps = 14/59 (23%)

Query: 6   GLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF 64
           G IG PNVGKS++ N L   K+       C + P  G  +V          I   K+I+
Sbjct: 106 GFIGYPNVGKSSVINTLRSKKV-------CKVAPIPGETKV-------WQYITLMKRIY 150

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. Length = 157

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	363
PRK09601	364	GTP-binding protein YchF; Reviewed	100.0
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	100.0
PTZ00258	390	GTP-binding protein; Provisional	100.0
COG0012	372	Predicted GTPase, probable translation factor [Tra	100.0
KOG1491|consensus	391		100.0
PRK09602	396	translation-associated GTPase; Reviewed	100.0
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	100.0
COG1163	365	DRG Predicted GTPase [General function prediction	100.0
PF06071	84	YchF-GTPase_C: Protein of unknown function (DUF933	100.0
cd04867	83	TGS_YchF_C TGS_YchF_C: This subfamily represents T	100.0
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	100.0
KOG1486|consensus	364		100.0
KOG1487|consensus	358		99.96
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.94
COG0536	369	Obg Predicted GTPase [General function prediction	99.93
PRK12296	500	obgE GTPase CgtA; Reviewed	99.92
KOG1489|consensus	366		99.92
PRK12297	424	obgE GTPase CgtA; Reviewed	99.91
PRK12299	335	obgE GTPase CgtA; Reviewed	99.91
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.89
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.89
PRK12298	390	obgE GTPase CgtA; Reviewed	99.88
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.86
COG1160	444	Predicted GTPases [General function prediction onl	99.85
cd04938	76	TGS_Obg-like TGS_Obg-like: The C-terminal TGS doma	99.84
COG1159	298	Era GTPase [General function prediction only]	99.84
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.83
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.81
COG0486	454	ThdF Predicted GTPase [General function prediction	99.79
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.78
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.78
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.76
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.75
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.74
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.74
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.74
COG2262	411	HflX GTPases [General function prediction only]	99.73
PRK15494	339	era GTPase Era; Provisional	99.73
COG1084	346	Predicted GTPase [General function prediction only	99.72
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.72
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.71
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.71
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.7
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.7
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.69
COG1160	444	Predicted GTPases [General function prediction onl	99.69
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.69
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.69
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.69
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.69
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.69
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.69
PRK00089	292	era GTPase Era; Reviewed	99.68
PRK11058	426	GTPase HflX; Provisional	99.68
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.68
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.68
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.68
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.68
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.68
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.67
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.67
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.67
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.67
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.67
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.66
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.66
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.66
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.66
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.66
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.65
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.65
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.65
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.65
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.65
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.65
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.65
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.65
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.64
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.64
PRK03003	472	GTP-binding protein Der; Reviewed	99.64
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.63
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.63
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.63
PRK03003	472	GTP-binding protein Der; Reviewed	99.63
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.63
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.63
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.63
PLN03118	211	Rab family protein; Provisional	99.63
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.62
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.62
PRK00093	435	GTP-binding protein Der; Reviewed	99.62
COG0218	200	Predicted GTPase [General function prediction only	99.62
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.62
PRK00093	435	GTP-binding protein Der; Reviewed	99.62
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.61
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.61
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.61
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.61
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.61
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.61
PRK00007	693	elongation factor G; Reviewed	99.61
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.6
PLN03108	210	Rab family protein; Provisional	99.6
KOG1191|consensus	531		99.6
PRK12739	691	elongation factor G; Reviewed	99.6
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.6
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.6
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.6
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.6
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.6
PLN03110	216	Rab GTPase; Provisional	99.6
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.59
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.59
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.59
PTZ00369	189	Ras-like protein; Provisional	99.59
cd01666	75	TGS_DRG_C TGS_DRG_C: DRG (developmentally regulate	99.59
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.59
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.59
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.59
cd01669	76	TGS_Ygr210_C TGS_Ygr210_C: The C-terminal TGS doma	99.59
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.59
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.59
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.58
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.58
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.58
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.58
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.58
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.58
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.57
PRK04213	201	GTP-binding protein; Provisional	99.57
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.57
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.57
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.57
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.57
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.57
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.57
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.57
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.57
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.56
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.56
cd00881	189	GTP_translation_factor GTP translation factor fami	99.56
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.56
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.56
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.55
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.55
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.55
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.55
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.55
KOG0084|consensus	205		99.54
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.54
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.54
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.54
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.53
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.53
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.53
KOG0092|consensus	200		99.53
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.52
PLN00223	181	ADP-ribosylation factor; Provisional	99.52
KOG0078|consensus	207		99.52
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.52
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.52
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.52
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.52
PRK13351	687	elongation factor G; Reviewed	99.52
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.51
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.51
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.51
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.51
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.51
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.5
PTZ00133	182	ADP-ribosylation factor; Provisional	99.5
KOG0080|consensus	209		99.5
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.5
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.49
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.49
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.49
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.49
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.48
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.48
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.48
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.48
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.48
KOG0098|consensus	216		99.47
PRK05306	787	infB translation initiation factor IF-2; Validated	99.47
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.47
PRK12317	425	elongation factor 1-alpha; Reviewed	99.47
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.47
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.47
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.47
KOG0394|consensus	210		99.47
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.46
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.46
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.46
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.46
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.45
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.45
KOG0087|consensus	222		99.45
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.44
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.43
CHL00189	742	infB translation initiation factor 2; Provisional	99.43
KOG0094|consensus	221		99.43
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.43
KOG0073|consensus	185		99.43
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.41
KOG1423|consensus	379		99.39
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.39
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.39
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.37
KOG1490|consensus	620		99.37
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.37
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.35
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.35
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.34
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.33
PRK09866	741	hypothetical protein; Provisional	99.33
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.32
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.32
PRK10218	607	GTP-binding protein; Provisional	99.32
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.32
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.31
CHL00071	409	tufA elongation factor Tu	99.3
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.3
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.29
KOG0079|consensus	198		99.28
KOG0075|consensus	186		99.28
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.27
PRK05433	600	GTP-binding protein LepA; Provisional	99.27
KOG0465|consensus	721		99.26
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.26
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.26
PRK12740	668	elongation factor G; Reviewed	99.26
KOG0086|consensus	214		99.25
PRK12736	394	elongation factor Tu; Reviewed	99.25
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.25
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.24
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.24
PRK12735	396	elongation factor Tu; Reviewed	99.23
KOG0093|consensus	193		99.23
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.22
KOG0095|consensus	213		99.22
COG2229	187	Predicted GTPase [General function prediction only	99.22
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.21
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.2
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	99.2
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.2
PLN03127	447	Elongation factor Tu; Provisional	99.19
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.19
KOG0410|consensus	410		99.19
PLN00023	334	GTP-binding protein; Provisional	99.18
PRK00049	396	elongation factor Tu; Reviewed	99.18
COG3596	296	Predicted GTPase [General function prediction only	99.17
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.17
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.16
KOG0097|consensus	215		99.16
PLN03126	478	Elongation factor Tu; Provisional	99.16
PRK04004	586	translation initiation factor IF-2; Validated	99.15
PLN00043	447	elongation factor 1-alpha; Provisional	99.15
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.15
PTZ00141	446	elongation factor 1- alpha; Provisional	99.14
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.14
KOG0088|consensus	218		99.09
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.08
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.08
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	99.07
PTZ00416	836	elongation factor 2; Provisional	99.07
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.05
KOG0070|consensus	181		99.02
KOG0462|consensus	650		99.01
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	98.99
KOG1145|consensus	683		98.98
KOG0395|consensus	196		98.97
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	98.97
KOG0091|consensus	213		98.95
COG1100	219	GTPase SAR1 and related small G proteins [General	98.94
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	98.94
KOG0083|consensus	192		98.94
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.94
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	98.86
COG3276	447	SelB Selenocysteine-specific translation elongatio	98.85
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.85
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	98.83
PRK13768	253	GTPase; Provisional	98.81
COG1161	322	Predicted GTPases [General function prediction onl	98.81
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.79
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	98.78
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	98.78
KOG0464|consensus	753		98.77
KOG0071|consensus	180		98.75
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.74
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	98.74
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	98.72
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	98.72
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.72
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	98.71
PF02824	60	TGS: TGS domain; InterPro: IPR004095 The TGS domai	98.7
KOG1424|consensus	562		98.68
KOG0081|consensus	219		98.67
KOG0076|consensus	197		98.66
PTZ00099	176	rab6; Provisional	98.66
COG1217	603	TypA Predicted membrane GTPase involved in stress	98.65
KOG0090|consensus	238		98.63
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	98.62
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.61
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.59
PRK07560	731	elongation factor EF-2; Reviewed	98.59
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	98.57
PRK13796	365	GTPase YqeH; Provisional	98.51
PF08438	109	MMR_HSR1_C: GTPase of unknown function C-terminal;	98.46
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	98.44
KOG0458|consensus	603		98.43
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	98.43
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	98.39
KOG1673|consensus	205		98.39
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.38
PRK09435	332	membrane ATPase/protein kinase; Provisional	98.37
KOG0077|consensus	193		98.36
KOG1707|consensus	625		98.35
KOG0461|consensus	522		98.33
PRK12288	347	GTPase RsgA; Reviewed	98.33
PRK12289	352	GTPase RsgA; Reviewed	98.32
PRK14845	1049	translation initiation factor IF-2; Provisional	98.29
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	98.29
KOG4252|consensus	246		98.24
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.24
KOG3883|consensus	198		98.23
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.23
KOG0074|consensus	185		98.21
KOG0468|consensus	971		98.19
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.19
PRK00098	298	GTPase RsgA; Reviewed	98.18
KOG2484|consensus	435		98.18
KOG1547|consensus	336		98.18
KOG0072|consensus	182		98.15
KOG0393|consensus	198		98.13
COG4559	259	ABC-type hemin transport system, ATPase component	98.06
COG0411	250	LivG ABC-type branched-chain amino acid transport	98.06
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	98.06
KOG1144|consensus	1064		98.03
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.02
KOG2423|consensus	572		98.02
COG0050	394	TufB GTPases - translation elongation factors [Tra	97.99
KOG2485|consensus	335		97.99
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	97.97
COG1162	301	Predicted GTPases [General function prediction onl	97.96
COG5019	373	CDC3 Septin family protein [Cell division and chro	97.95
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	97.92
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	97.92
TIGR00691	683	spoT_relA (p)ppGpp synthetase, RelA/SpoT family. (	97.89
KOG0448|consensus	749		97.89
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	97.88
KOG1954|consensus	532		97.87
COG4604	252	CeuD ABC-type enterochelin transport system, ATPas	97.86
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	97.85
PRK10872	743	relA (p)ppGpp synthetase I/GTP pyrophosphokinase;	97.83
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.83
PF00005	137	ABC_tran: ABC transporter This structure is on hol	97.82
COG1134	249	TagH ABC-type polysaccharide/polyol phosphate tran	97.8
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	97.78
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.75
COG0410	237	LivF ABC-type branched-chain amino acid transport	97.74
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.73
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	97.73
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	97.71
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	97.71
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	97.7
COG4148	352	ModC ABC-type molybdate transport system, ATPase c	97.69
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	97.68
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	97.68
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	97.67
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	97.67
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	97.66
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	97.66
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	97.65
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	97.64
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.64
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	97.64
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	97.64
cd03269	210	ABC_putative_ATPase This subfamily is involved in	97.64
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	97.63
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	97.63
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	97.63
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	97.63
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	97.63
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	97.62
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	97.62
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	97.62
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	97.61
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	97.61
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	97.61
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	97.61
COG3638	258	ABC-type phosphate/phosphonate transport system, A	97.6
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	97.6
COG1101	263	PhnK ABC-type uncharacterized transport system, AT	97.59
cd03215	182	ABC_Carb_Monos_II This family represents domain II	97.59
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	97.59
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.59
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	97.58
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	97.58
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	97.58
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	97.58
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	97.58
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	97.58
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	97.57
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	97.57
KOG2486|consensus	320		97.57
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	97.57
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	97.57
PRK10908	222	cell division protein FtsE; Provisional	97.57
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	97.57
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	97.57
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	97.56
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	97.56
COG1127	263	Ttg2A ABC-type transport system involved in resist	97.56
KOG4423|consensus	229		97.56
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	97.56
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	97.56
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.56
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	97.54
PRK15056	272	manganese/iron transporter ATP-binding protein; Pr	97.54
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	97.54
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	97.54
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	97.53
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	97.53
PRK13641	287	cbiO cobalt transporter ATP-binding subunit; Provi	97.53
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.53
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	97.52
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	97.52
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	97.52
TIGR01288	303	nodI ATP-binding ABC transporter family nodulation	97.52
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	97.52
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	97.52
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	97.51
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	97.51
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	97.51
PRK13652	277	cbiO cobalt transporter ATP-binding subunit; Provi	97.51
PRK13536	340	nodulation factor exporter subunit NodI; Provision	97.51
PRK13537	306	nodulation ABC transporter NodI; Provisional	97.51
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	97.51
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	97.5
PRK01889	356	GTPase RsgA; Reviewed	97.5
PRK13637	287	cbiO cobalt transporter ATP-binding subunit; Provi	97.5
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	97.5
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	97.5
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	97.5
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	97.49
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	97.49
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	97.49
PRK13649	280	cbiO cobalt transporter ATP-binding subunit; Provi	97.49
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	97.49
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	97.49
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.49
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	97.48
KOG3886|consensus	295		97.48
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	97.48
PRK15112	267	antimicrobial peptide ABC system ATP-binding prote	97.48
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	97.48
PRK13646	286	cbiO cobalt transporter ATP-binding subunit; Provi	97.48
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	97.48
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	97.48
PRK11614	237	livF leucine/isoleucine/valine transporter ATP-bin	97.47
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	97.47
cd03246	173	ABCC_Protease_Secretion This family represents the	97.47
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	97.47
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	97.47
TIGR02769	265	nickel_nikE nickel import ATP-binding protein NikE	97.47
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	97.47
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	97.47
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	97.46
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	97.46
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	97.45
PRK13643	288	cbiO cobalt transporter ATP-binding subunit; Provi	97.45
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	97.44
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	97.44
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	97.44
PRK10771	232	thiQ thiamine transporter ATP-binding subunit; Pro	97.44
COG4525	259	TauB ABC-type taurine transport system, ATPase com	97.44
PRK13647	274	cbiO cobalt transporter ATP-binding subunit; Provi	97.44
TIGR02314	343	ABC_MetN D-methionine ABC transporter, ATP-binding	97.44
PRK13548	258	hmuV hemin importer ATP-binding subunit; Provision	97.44
PRK11153	343	metN DL-methionine transporter ATP-binding subunit	97.44
PRK13635	279	cbiO cobalt transporter ATP-binding subunit; Provi	97.43
PRK11831	269	putative ABC transporter ATP-binding protein YrbF;	97.43
PRK13644	274	cbiO cobalt transporter ATP-binding subunit; Provi	97.43
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	97.43
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	97.43
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	97.43
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	97.43
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	97.42
PRK13650	279	cbiO cobalt transporter ATP-binding subunit; Provi	97.42
cd03248	226	ABCC_TAP TAP, the Transporter Associated with Anti	97.42
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	97.42
PRK11231	255	fecE iron-dicitrate transporter ATP-binding subuni	97.41
TIGR03873	256	F420-0_ABC_ATP proposed F420-0 ABC transporter, AT	97.41
TIGR02982	220	heterocyst_DevA ABC exporter ATP-binding subunit,	97.41
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	97.41
PRK13546	264	teichoic acids export protein ATP-binding subunit;	97.41
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	97.4
PRK13632	271	cbiO cobalt transporter ATP-binding subunit; Provi	97.4
PRK10253	265	iron-enterobactin transporter ATP-binding protein;	97.4
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	97.4

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=100.00  E-value=1.7e-95  Score=698.64  Aligned_cols=363  Identities=54%  Similarity=0.921  Sum_probs=347.5

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      |+++|||||.||||||||||+||+..+.+++|||||++|+.|.+.+++.+++.|.++++|++.+|.++.++|+||+.+++
T Consensus         1 m~~~vgIVG~PNvGKSTLfnaLt~~~~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a   80 (364)
T PRK09601          1 MGLKCGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGA   80 (364)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCC
Confidence            88999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHH
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIE  160 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~  160 (363)
                      +.+++++++|++++++||+++||||+|.+++++|++|..||++|++.+++||.++|++.+++|++++.|..+.+++....
T Consensus        81 ~~g~glg~~fL~~i~~aD~li~VVd~f~d~~~~~~~~~~dP~~d~~~i~~EL~~~d~~~~ek~~~k~~k~~~~~~~~~~~  160 (364)
T PRK09601         81 SKGEGLGNQFLANIREVDAIVHVVRCFEDDNITHVEGKVDPIRDIETINTELILADLETVEKRLERLEKKAKGGDKEAKA  160 (364)
T ss_pred             ChHHHHHHHHHHHHHhCCEEEEEEeCCccCCCCCCCCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhhccchhHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999887666555567


Q ss_pred             HHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCC-CchHHHHHHHHHHhcCCCcEEEeeHH
Q psy2401         161 LLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGF-KNNLLLDQLKIYAHNQNIPIIIICAK  239 (363)
Q Consensus       161 ~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~-~~~~~~~~i~~~~~~~~~~~i~~sa~  239 (363)
                      +.+++++|+++|+++.+.+...|+++|...++++.++|.||++|++|++|.++ ..+++.+++++++.+++.+++++||+
T Consensus       161 e~~~l~~v~~~Le~~~~~~~~~~~~~e~~~l~~~~llt~KP~i~v~N~~e~~~~~~~~~~~~i~~~~~~~~~~~i~~sa~  240 (364)
T PRK09601        161 ELELLEKLLEHLEEGKPARTLELTDEEEKLLKSLQLLTAKPVLYVANVDEDDLADGNPYVKKVREIAAKEGAEVVVICAK  240 (364)
T ss_pred             HHHHHHHHHHHHHcCCCcccCCCCHHHHHHHHHhcccccCCeEEEEECCccccccccHHHHHHHHHHHHcCCeEEEEEHH
Confidence            88999999999999988888899999999999999999999999999999754 35778999999988888899999999


Q ss_pred             HHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeCCCCceEEEeecCCCCHHHhhhhhhcchhcccEEE
Q psy2401         240 LEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRA  319 (363)
Q Consensus       240 ~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~g~~e~raw~~~~g~ta~~~A~~IHsD~~~gfi~A  319 (363)
                      +|.++.+|+++++++||+++|+++++++++++++|++||||+|||+|++|+|||++++||||+||||+|||||+||||||
T Consensus       241 ~E~el~~l~~ee~~~fl~~~g~~~s~~~~ii~~~~~~L~li~fftvg~~evrawti~~GstA~~aAg~IHsD~~kgFI~A  320 (364)
T PRK09601        241 IEAEIAELDDEEKAEFLEELGLEESGLDRLIRAGYELLGLITYFTAGPKEVRAWTIKKGTTAPQAAGVIHTDFEKGFIRA  320 (364)
T ss_pred             HHHHHHcCCHHHHHHHHHHcCCcchhHHHHHHHHHHHhCCEEEecCCCCeEEEEEeCCCCchHHHhhcchhhHhhccEEE
Confidence            99999999998999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEecccccccccChhhHhhcCceeecCCCeeeeCCCEEEEEecC
Q psy2401         320 LTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFLFNI  363 (363)
Q Consensus       320 ~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~~~f~~  363 (363)
                      ||++|+||+++||+++||++|++|+|||||+|||||||+|||||
T Consensus       321 eVi~~~d~~~~g~~~~ak~~gk~rleGkdY~v~DGDIi~f~fn~  364 (364)
T PRK09601        321 EVISYDDLIEYGSEAGAKEAGKVRLEGKDYIVQDGDVMHFRFNV  364 (364)
T ss_pred             EEecHHHHHHcCCHHHHHHccceeccCCceEecCCCEEEEEcCC
Confidence            99999999999999999999999999999999999999999997

>TIGR00092 GTP-binding protein YchF

Probab=100.00  E-value=4.1e-92  Score=675.23  Aligned_cols=361  Identities=48%  Similarity=0.718  Sum_probs=339.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHcCCc-cccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCC
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTKLKI-SAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~~~~-~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      |++++||||.||+|||||||+||++.+ .+++|||||++|+.|.+.++|.|++.|+.+++|++..|..+.++|+||+..+
T Consensus         1 m~lk~GivGlPn~GKSTlfnaLT~~~~~~~a~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~g   80 (368)
T TIGR00092         1 MGLSGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGG   80 (368)
T ss_pred             CCceEEEECCCCCChHHHHHHHhCCCccccCCCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccc
Confidence            889999999999999999999999988 9999999999999999999999999999999999999999999999999999


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhH
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSI  159 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~  159 (363)
                      ++++++++++|++++|++|+++||||+|++++++|+.|.+||.+|++.+++||.++|++.+++|++++.|..+.+ +...
T Consensus        81 As~g~Glgn~fL~~ir~~d~l~hVvr~f~d~~i~H~~~~~dp~~d~~~i~~EL~l~d~~~~ek~l~r~~k~~k~~-k~~~  159 (368)
T TIGR00092        81 ASKGEGLGNQFLANIREVDIIQHVVRCFEDDIIHHVGNVDDPRDDFEIIDEELLKADEFLVEKRIGRSKKSAEGG-KDKK  159 (368)
T ss_pred             hhcccCcchHHHHHHHhCCEEEEEEeCCCCcccCccCCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHhhcc-hhhH
Confidence            999999999999999999999999999999999999999999999999999999999999999999999875543 4445


Q ss_pred             HHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCC-Cc-hHHHHHHHHHHhc---CCCcEE
Q psy2401         160 ELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGF-KN-NLLLDQLKIYAHN---QNIPII  234 (363)
Q Consensus       160 ~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~-~~-~~~~~~i~~~~~~---~~~~~i  234 (363)
                      .+..++++++++|+++++.+.+.+++++...++.+.++|.||++|++|..+.++ .. +.+...++ |+.+   .+..++
T Consensus       160 ~e~~ll~~~~~~Le~~~~~r~~~~~~ee~~~~~~~~llt~Kp~~~v~N~~e~~~~~~n~~~~~~~~-~~~~~~~~~~~~~  238 (368)
T TIGR00092       160 EELLLLEIILPLLNGGQMARHVDLSKEELILIKSLNLLTKKPIILIANVSEDYLRNLNNNYLLIVE-WIAAYSKGDPKVV  238 (368)
T ss_pred             HHHHHHHHHHHHHhCCCeeccCCCCHHHHHHHHhCcchhhCCEEEEEECCHHHhhhcccHHHHHHH-HHhhcCcCCCeEE
Confidence            678899999999999999998889999999999999999999999999887543 12 34444555 7776   466789


Q ss_pred             EeeHHHHHHHhcCCHHHHHHHHhhcCCCch-hHHHHHHHHHHhCCCEEEEeCCCCceEEEeecCCCCHHHhhhhhhcchh
Q psy2401         235 IICAKLEEEISDLNNIDKKFFLDNLGLKET-KLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIK  313 (363)
Q Consensus       235 ~~sa~~e~~i~el~~~~~~~~l~~~~l~~~-~l~~l~~~~~~~l~li~~ft~g~~e~raw~~~~g~ta~~~A~~IHsD~~  313 (363)
                      ++||++|.++++++++++.+||+++|++++ +++++++..|++|+|++|||+|++|+||||+++|+||+||||+|||||+
T Consensus       239 ~~~a~~E~el~~l~~ee~~~fl~~~g~~~s~~~~~ii~~~y~lL~L~sFfT~g~~EvRaWti~~G~~Ap~AAG~IHsDfe  318 (368)
T TIGR00092       239 FVCALEESELSELDDEERQEFLQKLGLTESAGLNIIIRARYKLLLLSFFFTGGKEEVRAWTRKGGWAAPQAAGIIHTDFE  318 (368)
T ss_pred             EeEHHHHHHHhcCCHHHHHHHHHHcCCcccchHHHHHHHHHHHhCeeEEEcCCCceeEEeecCCCCchhHhcCCcccccc
Confidence            999999999999999999999999999998 9999999999999999999999999999999999999999999999999


Q ss_pred             cccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEEEEEecC
Q psy2401         314 RGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFLFNI  363 (363)
Q Consensus       314 ~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~~~f~~  363 (363)
                      ||||||||++|+||+++||++.||++|++|+|||+|+|||||||+|||||
T Consensus       319 kgFIrAEV~~yddl~~~gs~~~~k~~Gk~r~eGK~YivqDGDIi~f~fnv  368 (368)
T TIGR00092       319 TGFIAAEVISWDDFIYKKSSQGAKKGGLMRLEGKYYVVDDGDVLFFAFNV  368 (368)
T ss_pred             cCceEEEEecHHHHHHcCCHHHHHhcCchhhcCCeEEeeCCeEEEEecCC
Confidence            99999999999999999999999999999999999999999999999997

This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.

>PTZ00258 GTP-binding protein; Provisional

Probab=100.00  E-value=9.7e-92  Score=679.86  Aligned_cols=362  Identities=45%  Similarity=0.785  Sum_probs=341.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +++|||||.||||||||||+||+..+.+++|||||++|+.|.+.+++.+++.|+.+++|++.++.++.++||||+..+.+
T Consensus        21 ~~kvgIVG~PNvGKSTLfnaLt~~~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~ga~  100 (390)
T PTZ00258         21 NLKMGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVKGAS  100 (390)
T ss_pred             CcEEEEECCCCCChHHHHHHHhcCcccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCcCCc
Confidence            47999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhccccc--CCchhH
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFL--KNEHSI  159 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~--g~~~~~  159 (363)
                      .+++++++|+++++++|+++||||+|++++++|++|..||++|++.+++||.++|++.++++++++.+..+.  .++...
T Consensus       101 ~g~gLg~~fL~~Ir~aD~il~VVd~f~d~~v~h~~~~~dp~~d~~~i~~EL~~~d~~~~ek~~~~~~k~~~~~~~~~~~~  180 (390)
T PTZ00258        101 EGEGLGNAFLSHIRAVDGIYHVVRAFEDEDITHVEGEIDPVRDLEIISSELILKDLEFVEKRLDELTKKRKKKKKKKEEK  180 (390)
T ss_pred             chhHHHHHHHHHHHHCCEEEEEEeCCCCCCccccCCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHhccccchhhHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999876422  334445


Q ss_pred             HHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCC--CchHHHHHHHHHHhcC-CCcEEEe
Q psy2401         160 ELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGF--KNNLLLDQLKIYAHNQ-NIPIIII  236 (363)
Q Consensus       160 ~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~--~~~~~~~~i~~~~~~~-~~~~i~~  236 (363)
                      .+.+++++|+++|+++.+.+...|+++|...++.+.++|.||++|++|+++.++  .++++.+++++++.++ +.+++++
T Consensus       181 ~~~~~l~~v~~~L~~~~~~~~~~~~~~e~~~l~~l~llt~KP~iyv~N~~E~D~~~~~~~~~~~l~~~~~~~~~~~~v~~  260 (390)
T PTZ00258        181 VELDVLKKVLEWLEEGKPVRDGDWTDKEIEILNEYQLLTAKPMIYLVNMSEKDFIRQKNKWLAKIKEWVGEKGGGPIIPY  260 (390)
T ss_pred             HHHHHHHHHHHHHHcCCccccCCCCHHHHHHHHHhchhhcCCEEEEEECchhhhcccchHHHHHHHHHHHhcCCCeEEEe
Confidence            578899999999999999999999999999999999999999999999994332  3567889999988877 4789999


Q ss_pred             eHHHHHHHhcC-CHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeCCCCceEEEeecCCCCHHHhhhhhhcchhcc
Q psy2401         237 CAKLEEEISDL-NNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRG  315 (363)
Q Consensus       237 sa~~e~~i~el-~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~g~~e~raw~~~~g~ta~~~A~~IHsD~~~g  315 (363)
                      ||++|.+++++ +++++.+||+++|++++|++++++++|++|+||+|||+||||+|||++++||||+||||+|||||+||
T Consensus       261 sa~~E~el~~l~~~~e~~~fl~~~g~~~~gl~~li~~~~~lL~li~ffT~g~~e~raw~i~~Gsta~~aAg~IHsD~~kg  340 (390)
T PTZ00258        261 SAEFEEELAELGSEEERKEYLEEYGIKQSMLDKIIKTGYKLLNLIHFFTAGPDEVRCWTIQKGTKAPQAAGVIHSDFEKG  340 (390)
T ss_pred             eHHHHHHHHhcCCHHHHHHHHHHcCCCcccHHHHHHHHHHHhCCEEEEcCCCCceeEEEeCCCCcHHHHHhhhhhHHhhC
Confidence            99999999999 99999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEEEEEecC
Q psy2401         316 FIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFLFNI  363 (363)
Q Consensus       316 fi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~~~f~~  363 (363)
                      ||||+||+|+||+++||++.||.+|++|++||||+|||||||+|||||
T Consensus       341 Fi~Aev~~~~d~~~~g~~~~ak~~g~~r~eGkdYiv~DGDIi~f~fnv  388 (390)
T PTZ00258        341 FICAEVMKYEDFLELGSEAAVKAEGKYRQEGKDYVVQDGDIIFFKFNV  388 (390)
T ss_pred             cEEEEECcHHHHHHcCCHHHHHhcCceeeeCCceEecCCCEEEEEecC
Confidence            999999999999999999999999999999999999999999999997

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=9.1e-92  Score=662.34  Aligned_cols=363  Identities=51%  Similarity=0.834  Sum_probs=346.5

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccc-cccccceeEEEEeeecccCC
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVK-TKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~-~~~~~~~~i~lvDtpGl~~~   79 (363)
                      |++++||||.||||||||||+||.+.+.++||||||++||.|.+++++.|+.+|.++++ |++.+|.+++++|++|++++
T Consensus         1 m~l~~GIVGlPNVGKSTlFnAlT~~~a~~aNYPF~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~G   80 (372)
T COG0012           1 MSLKIGIVGLPNVGKSTLFNALTKAGAEIANYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVKG   80 (372)
T ss_pred             CCceeEEecCCCCcHHHHHHHHHcCCccccCCCcccccCCeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEecccCCC
Confidence            88999999999999999999999999999999999999999999999999999999888 78899999999999999999


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccC---Cc
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLK---NE  156 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g---~~  156 (363)
                      +|+|+||||+||+++|++|+|+||||||+++++.|+.+.+||++|++.+++||.+||++.++++|+++.|.++.+   ++
T Consensus        81 As~GeGLGNkFL~~IRevdaI~hVVr~f~d~di~hv~~~vDP~~DIe~I~~EL~l~d~~~lek~~~r~~k~a~~~~~~~k  160 (372)
T COG0012          81 ASKGEGLGNKFLDNIREVDAIIHVVRCFGDTDIEHVEGKVDPVEDIEIINTELILWDLESLEKRWERLEKRAKAGKKLDK  160 (372)
T ss_pred             cccCCCcchHHHHhhhhcCeEEEEEEecCCCcccCCCCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999999998876   57


Q ss_pred             hhHHHHHHHHHHHhhhcCCCccccc---CCChHHHHHHhhhcccccccEEEeccccccCCC-chHHHHHHHHHHhcCCCc
Q psy2401         157 HSIELLKLLKRIIFNLNKSIPIRLM---SLNNEELMSIKFLNLLTIKPIIFVANVKENGFK-NNLLLDQLKIYAHNQNIP  232 (363)
Q Consensus       157 ~~~~~~~~l~~i~~~L~~~~~~~~~---~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~-~~~~~~~i~~~~~~~~~~  232 (363)
                      ....+.+++..+.+.|.++.+.+.+   .|++++...++.+.++|.||++|++||+|.+.. .+++.++++++...++..
T Consensus       161 ~~~~~l~~l~~~~~~l~~~~~~~~~~~~~~~~e~~~~l~~l~llt~KP~lyvaN~~e~~~~~~n~~~~~i~~~~~~~~~~  240 (372)
T COG0012         161 ELKEELSLLGKLEEHLEEGKPARGLDLSKWSEEDLEALASLNLLTAKPMLYVANVSEDDLANLNEYVKRLKELAAKENAE  240 (372)
T ss_pred             HHHHHHHHHHhHHHHHHhhhhhhcCCcccCCHHHHHHHHHhhhhhcCCeEEEEECCcccccchhHHHHHHHHHhhhcCCc
Confidence            7777889999999999998887653   599999999999999999999999999998752 356799999999888889


Q ss_pred             EEEeeHHHHHHHhcCCH-HHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeCCCCceEEEeecCCCCHHHhhhhhhcc
Q psy2401         233 IIIICAKLEEEISDLNN-IDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTD  311 (363)
Q Consensus       233 ~i~~sa~~e~~i~el~~-~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~g~~e~raw~~~~g~ta~~~A~~IHsD  311 (363)
                      ++|+||+.|++|.++++ ++..+|+..+|+..++|++++++.|..|||++|||+|++|+|+||+++|+||+|+||.||||
T Consensus       241 vV~~sA~~E~eL~~l~~~~e~~~F~~~~g~~~~~l~~~i~~~y~~lgl~~~ft~g~~evrawti~~g~kap~aaG~Ih~D  320 (372)
T COG0012         241 VVPVSAAIELELRELADAEEKGEFLIELGQKESGLNELIRAGYGLLGLQTYFTAGVKEVRAWTIKDGSKAPDAAGVIHPD  320 (372)
T ss_pred             EEEeeHHHHHHHHhCccccchhhHHHhcCcchhHHHHHHHHHhcccchhHHHhhcCCeEEEEEeccCCcccccCCccccc
Confidence            99999999999999987 88888999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEEEEEecC
Q psy2401         312 IKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFLFNI  363 (363)
Q Consensus       312 ~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~~~f~~  363 (363)
                      |++|||+|+|++|+|++.+||++.||.+|++|++||||+|||||||+||||+
T Consensus       321 fe~~fi~aevi~~~d~i~~~~~~~Akeag~~r~~GkdY~vqdGDVi~Fk~~~  372 (372)
T COG0012         321 FEKGFIRAEVISYADLIHYGGEAAAKEAGKRRLEGKDYIVQDGDVIHFKFNV  372 (372)
T ss_pred             hhhccccceEeeHHHHHhcCcHHHHHHhcceeeccccceecCCCEEEEEecC
Confidence            9999999999999999999999999999999999999999999999999996

>KOG1491|consensus

Probab=100.00  E-value=4.9e-86  Score=609.33  Aligned_cols=362  Identities=44%  Similarity=0.715  Sum_probs=338.2

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      |++++||||.||+||||+||+||++.+.++||||||++|+.+.+.+++.|++.|++.|+|++.+|+.+++.|++|+++++
T Consensus        19 ~~lkiGIVGlPNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvkGA   98 (391)
T KOG1491|consen   19 NNLKIGIVGLPNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVKGA   98 (391)
T ss_pred             CcceeeEeeCCCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecccccCc
Confidence            45799999999999999999999999889999999999999999999999999999999999999999999999999999


Q ss_pred             CcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCC-----
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKN-----  155 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~-----  155 (363)
                      |.|+|+||.||+++|.+|+|+||||||++.+++||++.+||++|+++++.||.++|++.++++++++.|..+.+.     
T Consensus        99 s~G~GLGN~FLs~iR~vDaifhVVr~f~d~di~hve~~vDPvrDieii~~EL~lkd~e~l~k~~e~~~k~~~~~~~~~~~  178 (391)
T KOG1491|consen   99 SAGEGLGNKFLSHIRHVDAIFHVVRAFEDTDIIHVEGGVDPVRDIEIIQEELRLKDLEFLEKRLEKLEKKHKRTKSNLET  178 (391)
T ss_pred             ccCcCchHHHHHhhhhccceeEEEEecCcccceeccCCCCchhhHHHHHHHHHHhHHHHHHHHHHHHhhhhhcccCcHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999998765432     


Q ss_pred             chhHHHHHHHHHHHhhhcCCCcc-cc-cCCChHHHHHHhhhcccccccEEEeccccccCCC--chHHHHHHHHHHhcC--
Q psy2401         156 EHSIELLKLLKRIIFNLNKSIPI-RL-MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFK--NNLLLDQLKIYAHNQ--  229 (363)
Q Consensus       156 ~~~~~~~~~l~~i~~~L~~~~~~-~~-~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~--~~~~~~~i~~~~~~~--  229 (363)
                      +....+.++++.+.++|.+++.. +. ..|+++|.+.++.+.++|.||++|++|++|.++.  .++.+.++++|...+  
T Consensus       179 ~q~k~e~~~l~~v~~~ll~~kk~~~~~~~W~d~eieiln~~~lLt~kP~Vyl~N~se~dy~r~knk~l~~i~~w~~~~~~  258 (391)
T KOG1491|consen  179 KQLKFEYGLLEKVKEKLLDGKKPVRPKEKWNDEEIEILNKLFLLTAKPTVYLLNLSEHDYARKKNKKLPKIKEWVDEVSP  258 (391)
T ss_pred             HHHHHHHhHHHHHHHHHhccCCCCcchhhcCHHHHHHHHHhhhhhcCceEEEEecCcchhhhHHHHHHhhhhhhhhccCC
Confidence            33344577899999988765543 33 5799999999999999999999999999998763  456788899998755  


Q ss_pred             CCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeCCCCceEEEeecCCCCHHHhhhhhh
Q psy2401         230 NIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTTAEQAAGIIH  309 (363)
Q Consensus       230 ~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~g~~e~raw~~~~g~ta~~~A~~IH  309 (363)
                      |..++++|+.+|+.+.++.+|++.+||++.+. .+.|.++|.+.|+.|+|+.|||+||+|+|+|+|++|++|++|||+||
T Consensus       259 g~~~i~fs~~~e~ql~~~~~EE~~~~~~~~~~-~s~L~~iI~~~~~~L~li~fFt~G~~eV~~WtIr~gt~ap~aagvih  337 (391)
T KOG1491|consen  259 GDVVIVFSAAFESQLFELYEEEAVKELEDLGD-SSALPKIIKTGYSALNLIVFFTCGEDEVRAWTIRKGTKAPQAAGVIH  337 (391)
T ss_pred             CCeEEEehHHHHHHhhccCHHHHHHHHHhccc-ccchhHHHHHHHHhhCceEEEeeCCchheeeehhhccccccccceee
Confidence            57799999999999999999999999999995 59999999999999999999999999999999999999999999999


Q ss_pred             cchhcccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEEEEEecC
Q psy2401         310 TDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFLFNI  363 (363)
Q Consensus       310 sD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~~~f~~  363 (363)
                      |||++|||.|+|++|+||..+||+.+||.+|+.|.+||+|+|+||||++||||.
T Consensus       338 sdf~k~Fi~aev~~f~D~~~~k~e~a~k~~Gk~~~~Gk~yiVedGDIi~FK~~~  391 (391)
T KOG1491|consen  338 SDFEKGFIMAEVMKFEDFKEYKSESACKAAGKYRQVGKEYIVEDGDIIFFKFNP  391 (391)
T ss_pred             ehhhhhccccceeeeehHHHhcCHHHHHHhcchhhcCceeeecCCCEEEEeecC
Confidence            999999999999999999999999999999999999999999999999999985

>PRK09602 translation-associated GTPase; Reviewed

Probab=100.00  E-value=4.9e-63  Score=484.37  Aligned_cols=333  Identities=31%  Similarity=0.457  Sum_probs=278.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCC----cccccccccccccc------ccceeEEEEe
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD----KRLKHLNNIVKTKK------IFPAIIKLVD   72 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~----~~~~~l~~~~~~~~------~~~~~i~lvD   72 (363)
                      ++|||||.||||||||||+||+..+.+++|||+|++|+.|.+.+++    .+++.   +++|.+      ..+.+++++|
T Consensus         2 ~kigivG~pnvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~---~~~~~~~~~~~~~~~~~i~i~D   78 (396)
T PRK09602          2 ITIGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGV---KCNPRNGKCIDGTRFIPVELID   78 (396)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCcccccCCCCcceeeeeeeeeeccCCchhhhhh---hhccccccccCCcceeeEEEEE
Confidence            7999999999999999999999988999999999999999988744    34433   455444      6778999999


Q ss_pred             eecccCCCCcccchhhHHHhhccccCEEEEEEecccCC---ceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhc
Q psy2401          73 IAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDD---KITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENK  149 (363)
Q Consensus        73 tpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~---~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k  149 (363)
                      |||+.++++.+++++++|++++++||+++||||+|.+.   ..++.+|..||++|++.++.||.++|++.+++++.++.+
T Consensus        79 ~aGl~~ga~~g~glg~~fL~~ir~ad~ll~Vvd~~~~~~~~~~~~~~~~~dp~~d~~~i~~EL~~~d~~~~~k~~~~~~~  158 (396)
T PRK09602         79 VAGLVPGAHEGRGLGNQFLDDLRQADALIHVVDASGSTDEEGNPVEPGSHDPVEDIKFLEEELDMWIYGILEKNWEKFSR  158 (396)
T ss_pred             cCCcCCCccchhhHHHHHHHHHHHCCEEEEEEeCCCCcccCCcccCCCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999543   234448999999999999999999999999999988887


Q ss_pred             ccccCCchh----HHHHHHH----HHHHhhhcC-CCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHH
Q psy2401         150 KFFLKNEHS----IELLKLL----KRIIFNLNK-SIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLD  220 (363)
Q Consensus       150 ~~~~g~~~~----~~~~~~l----~~i~~~L~~-~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~  220 (363)
                      ..+.++...    ......+    +.|+++|++ +.+.+...|++++...+..+.+++.||++||+||.|.. ..++..+
T Consensus       159 ~~~~~~~~~~~~~~~~l~~~~~~e~~v~~~L~~~g~~~~~~~~~~~~~~~I~~~~l~t~KPvI~VlNK~D~~-~~~~~l~  237 (396)
T PRK09602        159 KAQAEKFDIEEALAEQLSGLGINEEHVKEALRELGLPEDPSKWTDEDLLELARELRKISKPMVIAANKADLP-PAEENIE  237 (396)
T ss_pred             HHhcCCcchHHHHHHHHhhhccCHHHHHHHHHHcCCcCcccCCCHHHHHHHHHhhhhcCCCEEEEEEchhcc-cchHHHH
Confidence            655543221    1223333    789999985 56666678999999899999999999999999999963 2344455


Q ss_pred             HHHHHHhcCCCcEEEeeHHHHHHHhc---------------------CCHHHH------HHHHhhcCCCchhHHHHH-HH
Q psy2401         221 QLKIYAHNQNIPIIIICAKLEEEISD---------------------LNNIDK------KFFLDNLGLKETKLNDLI-RA  272 (363)
Q Consensus       221 ~i~~~~~~~~~~~i~~sa~~e~~i~e---------------------l~~~~~------~~~l~~~~l~~~~l~~l~-~~  272 (363)
                      .+.++   .+..++++||+.|.++.+                     ++++..      ++||+.+++  +|+++++ ++
T Consensus       238 ~i~~~---~~~~vvpISA~~e~~l~~~l~~~i~~~lp~~p~~~~~d~ltd~~~r~~E~IRk~l~~~g~--~~~~~~i~~~  312 (396)
T PRK09602        238 RLKEE---KYYIVVPTSAEAELALRRAAKAGLIDYIPGDSDFEILGELSEKQKKALEYIREVLKKYGG--TGVQEAINTA  312 (396)
T ss_pred             HHHhc---CCCcEEEEcchhhhhHHHHHHHhHHhhCCCCCccCccccCCHHHHHHHHHHHHHHHHhCC--chHHHHHHHH
Confidence            55554   345699999999999876                     555442      489999997  8999999 79


Q ss_pred             HHHhCCCEEEEeCCC----------CceEEEeecCCCCHHHhhhhhhcchhcccEEEEEecccccccccChhhHhhcCce
Q psy2401         273 SFSLLDLRTYFTVGK----------KEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKI  342 (363)
Q Consensus       273 ~~~~l~li~~ft~g~----------~e~raw~~~~g~ta~~~A~~IHsD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~  342 (363)
                      +|++|+||+|||+++          ++.|||++++|+||+|+|++|||||+++||||+              .||   +.
T Consensus       313 ~~~~L~li~~yt~~~~~~~~~~~g~~~~~~~~l~~g~t~~d~A~~IH~d~~~~fi~A~--------------~~~---~~  375 (396)
T PRK09602        313 VFDLLDMIVVYPVEDENKLTDKKGNVLPDAFLLPKGSTARDLAYKIHTDIGEGFLYAI--------------DAR---TK  375 (396)
T ss_pred             HHHHhCCEEEEecCcccccccccCcccceeEEECCCCCHHHHHHHHHHHHHhhceehh--------------ccc---CC
Confidence            999999999999965          677799999999999999999999999999999              344   34


Q ss_pred             eecCCCeeeeCCCEEEEEe
Q psy2401         343 RSEGKKYLVEDGDILNFLF  361 (363)
Q Consensus       343 r~~gk~y~v~dgdii~~~f  361 (363)
                      |.+|++|+|+|||||+|.-
T Consensus       376 ~~~g~~~~l~dgDiv~i~~  394 (396)
T PRK09602        376 RRIGEDYELKDGDVIKIVS  394 (396)
T ss_pred             cccCCCcEecCCCEEEEEe
Confidence            5779999999999999864

>cd01900 YchF YchF subfamily

Probab=100.00  E-value=5e-54  Score=400.48  Aligned_cols=273  Identities=51%  Similarity=0.832  Sum_probs=254.9

Q ss_pred             EEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCccc
Q psy2401           5 CGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGE   84 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~   84 (363)
                      |||||.||||||||||+||+..+.+++|||||++|+.|.+.+++.+++.++.+++|.+.+|++++++|+||+.++++.++
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a~~~~   80 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGE   80 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCCccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCchhh
Confidence            68999999999999999999988999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHHHH
Q psy2401          85 GLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKL  164 (363)
Q Consensus        85 ~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~~~  164 (363)
                      +++++|+++++++|+++||||+|++++++|++|.+||++|++.++.||.+||++.+++++++++|..+.+++....+.++
T Consensus        81 glg~~fL~~i~~~D~li~VV~~f~d~~~~~~~~~~dp~~d~~~i~~El~~~d~~~~ek~~~~l~k~~~~~~~~~~~e~~~  160 (274)
T cd01900          81 GLGNKFLSHIREVDAIAHVVRCFEDDDITHVEGSVDPVRDIEIINTELILADLETVEKRLERLEKKAKSGDKEAKAELEL  160 (274)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeCcCCCCccCCCCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhcccHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999998876665556678899


Q ss_pred             HHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCC-CchHHHHHHHHHHhcCCCcEEEeeHHHHHH
Q psy2401         165 LKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGF-KNNLLLDQLKIYAHNQNIPIIIICAKLEEE  243 (363)
Q Consensus       165 l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~-~~~~~~~~i~~~~~~~~~~~i~~sa~~e~~  243 (363)
                      +++|+++|+++.+++...|+.+|...++++.++|.||++|++|++|.++ ..+...+++..+....+.+++++||++|.+
T Consensus       161 l~~~~~~L~~~~~~~~~~~~~~e~~~l~~~~llt~KP~i~v~N~~e~d~~~~~~~~~~~~~~~~~~~~~~i~~sa~~E~e  240 (274)
T cd01900         161 LEKIKEHLEEGKPARSLELTEEEIEILNSLQLLTAKPVLYVANVSEDDLANGNNKVLKVREIAAKEGAEVIPISAKIEAE  240 (274)
T ss_pred             HHHHHHHHHcCCCcCcCCCCHHHHHHHHHHhHhhcCCceeecccCHHHhccccHHHHHHHHHHhcCCCeEEEeeHHHHHH
Confidence            9999999999999888899999999999999999999999999999553 234556677777777788899999999999


Q ss_pred             HhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhC
Q psy2401         244 ISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLL  277 (363)
Q Consensus       244 i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l  277 (363)
                      +++|+++++++||+++|+++++++++++++|++|
T Consensus       241 L~~l~~ee~~~fl~~~gi~es~l~riI~~~y~~L  274 (274)
T cd01900         241 LAELDEEEAAEFLEELGLEESGLDRLIRAGYELL  274 (274)
T ss_pred             HHcCCHHHHHHHHHHcCCccccHHHHHHHHHhhC
Confidence            9999999999999999999999999999999986

YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=100.00  E-value=1.4e-47  Score=352.99  Aligned_cols=286  Identities=27%  Similarity=0.353  Sum_probs=235.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      -++++||+|++|||||+|+||+...++++|||||..|.+|++.++|                 ++|+++|+||++.+++.
T Consensus        64 a~v~lVGfPsvGKStLL~~LTnt~seva~y~FTTl~~VPG~l~Y~g-----------------a~IQild~Pgii~gas~  126 (365)
T COG1163          64 ATVALVGFPSVGKSTLLNKLTNTKSEVADYPFTTLEPVPGMLEYKG-----------------AQIQLLDLPGIIEGASS  126 (365)
T ss_pred             eEEEEEcCCCccHHHHHHHHhCCCccccccCceecccccceEeecC-----------------ceEEEEcCcccccCccc
Confidence            4799999999999999999999999999999999999999999999                 89999999999999999


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhh-hhhhcccccCCc-hhHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYI-DKENKKFFLKNE-HSIE  160 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~-~~i~k~~~~g~~-~~~~  160 (363)
                      +.+.|+++++.+|+||++++|+|++.+            ...++.+..||.-.++...+.+. ..+.|...+|-+ ....
T Consensus       127 g~grG~~vlsv~R~ADlIiiVld~~~~------------~~~~~~i~~ELe~~GIrlnk~~p~V~I~kk~~gGI~i~~t~  194 (365)
T COG1163         127 GRGRGRQVLSVARNADLIIIVLDVFED------------PHHRDIIERELEDVGIRLNKRPPDVTIKKKESGGIRINGTG  194 (365)
T ss_pred             CCCCcceeeeeeccCCEEEEEEecCCC------------hhHHHHHHHHHHhcCeEecCCCCceEEEEeccCCEEEeccc
Confidence            999999999999999999999999743            22367888888888876666643 556665444421 1111


Q ss_pred             HH--HHHHHHHhhhcCCCccccc-----CCChHHHHHHhhh-cccccccEEEeccccccCCCchHHHHHHHHHHhcCCCc
Q psy2401         161 LL--KLLKRIIFNLNKSIPIRLM-----SLNNEELMSIKFL-NLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIP  232 (363)
Q Consensus       161 ~~--~~l~~i~~~L~~~~~~~~~-----~~~~~e~~~~~~~-~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~  232 (363)
                      ..  -..+.+++.|.++++.++.     +.+-++  .++.+ ....++|++|++||.|..  ..+..+.+.+.     ..
T Consensus       195 ~l~~~d~~~ir~iL~Ey~I~nA~V~Ir~dvTlDd--~id~l~~nrvY~p~l~v~NKiD~~--~~e~~~~l~~~-----~~  265 (365)
T COG1163         195 PLTHLDEDTVRAILREYRIHNADVLIREDVTLDD--LIDALEGNRVYKPALYVVNKIDLP--GLEELERLARK-----PN  265 (365)
T ss_pred             ccccCCHHHHHHHHHHhCcccceEEEecCCcHHH--HHHHHhhcceeeeeEEEEeccccc--CHHHHHHHHhc-----cc
Confidence            11  2367888889888876542     667666  34444 567899999999999964  34455555443     26


Q ss_pred             EEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeCCC----CceEEEeecCCCCHHHhhhhh
Q psy2401         233 IIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGK----KEIRAWTIPNGTTAEQAAGII  308 (363)
Q Consensus       233 ~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~g~----~e~raw~~~~g~ta~~~A~~I  308 (363)
                      .+++||+                      ..-+++++.+.+|+.|+||+|||+.+    |...|.++++|||+.|+|.+|
T Consensus       266 ~v~isa~----------------------~~~nld~L~e~i~~~L~liRVYtK~~g~~pd~~~PlIlr~GsTV~Dvc~~I  323 (365)
T COG1163         266 SVPISAK----------------------KGINLDELKERIWDVLGLIRVYTKPPGEEPDFDEPLILRRGSTVGDVCRKI  323 (365)
T ss_pred             eEEEecc----------------------cCCCHHHHHHHHHHhhCeEEEEecCCCCCCCCCCCeEEeCCCcHHHHHHHH
Confidence            8899998                      35679999999999999999999954    556899999999999999999


Q ss_pred             hcchhcccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEEEEE
Q psy2401         309 HTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL  360 (363)
Q Consensus       309 HsD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~~~  360 (363)
                      |+||.+.|.+|.||+-          ++|+.| +|+ |.||++.|+|||+|-
T Consensus       324 H~~l~~~FryA~VWGk----------Svk~~~-QrV-G~dHvLeD~DIV~I~  363 (365)
T COG1163         324 HRDLVENFRYARVWGK----------SVKHPG-QRV-GLDHVLEDEDIVEIH  363 (365)
T ss_pred             HHHHHHhcceEEEecc----------CCCCCc-ccc-CcCcCccCCCeEEEe
Confidence            9999999999999985          788876 667 999999999999985

>PF06071 YchF-GTPase_C: Protein of unknown function (DUF933); InterPro: IPR013029 This domain is found at the C terminus of family of conserved hypothetical proteins found in both prokaryotes and eukaryotes

Probab=100.00  E-value=7.6e-44  Score=267.21  Aligned_cols=84  Identities=62%  Similarity=1.045  Sum_probs=76.5

Q ss_pred             CEEEEeCCCCceEEEeecCCCCHHHhhhhhhcchhcccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEEE
Q psy2401         279 LRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILN  358 (363)
Q Consensus       279 li~~ft~g~~e~raw~~~~g~ta~~~A~~IHsD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~  358 (363)
                      |++|||+||+|+|||++++|+||+||||+|||||+||||+|||++|+||+++||++.||++|++|+|||||+|||||||+
T Consensus         1 L~tffT~G~~EvRaWti~~G~~Ap~aAG~IHsDfekgFI~Aevi~~~d~~~~~s~~~~k~~Gk~r~eGK~YivqDGDIi~   80 (84)
T PF06071_consen    1 LITFFTAGPKEVRAWTIRKGTTAPQAAGVIHSDFEKGFIRAEVISYDDFVEYGSEAAAKEAGKLRLEGKDYIVQDGDIIH   80 (84)
T ss_dssp             EEEEEEESSSEEEEEEEETT-BHHHHHHCC-THHHHHEEEEEEEEHHHHHHHTSHHHHHHTT-SEEEETT-B--TTEEEE
T ss_pred             CceEEccCCCeEEEEEccCCCCHHHhHhHHHHHHHhhceEEEEEcHHHHHHcCCHHHHHHcCCccccCCceeEeCCCEEE
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEec
Q psy2401         359 FLFN  362 (363)
Q Consensus       359 ~~f~  362 (363)
                      ||||
T Consensus        81 f~fN   84 (84)
T PF06071_consen   81 FRFN   84 (84)
T ss_dssp             EEE-
T ss_pred             EEcC
Confidence            9999

While the function of these proteins is not known, the crystal structure of P44681 from SWISSPROT from Haemophilus influenzae has been determined []. This protein consists of three domains: an N-terminal domain which has a mononucleotide binding fold typical for the P-loop NTPases, a central domain which forms an alpha-helical coiled coil, and this C-terminal domain which is composed of a six-stranded half-barrel curved around an alpha helix. The central domain and this domain are topologically similar to RNA-binding proteins, while the N-terminal region contains the features typical of GTP-dependent molecular switches. The purified protein was capable of binding both double-stranded nucleic acid and GTP. It was suggested, therefore, that this protein might be part of a nucleoprotein complex and could function as a GTP-dependent translation factor.; PDB: 1NI3_A 1JAL_A 2DWQ_B 2DBY_A 2OHF_A.

>cd04867 TGS_YchF_C TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown

Probab=100.00  E-value=5.2e-43  Score=260.85  Aligned_cols=83  Identities=54%  Similarity=0.934  Sum_probs=82.2

Q ss_pred             CEEEEeCCCCceEEEeecCCCCHHHhhhhhhcchhcccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEEE
Q psy2401         279 LRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILN  358 (363)
Q Consensus       279 li~~ft~g~~e~raw~~~~g~ta~~~A~~IHsD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~  358 (363)
                      |++|||+||+|+|||++++|+||+||||+|||||+||||||||++|+||+++||++.||++|++|+|||+|+||||||++
T Consensus         1 L~tffT~G~~EvRAWti~~g~tAp~AAG~IHsDfekgFIrAeVi~~~d~i~~g~~~~ak~~Gkir~eGK~Yiv~DGDi~~   80 (83)
T cd04867           1 LISFFTAGPDEVRAWTIRKGTKAPQAAGVIHTDFEKGFIRAEVMKYEDLVELGSEAAAKEAGKYRQEGKDYVVQDGDIIF   80 (83)
T ss_pred             CccEECCCCCeEEEEEccCCCChHHhcCCcccccccCcEEEEEEcHHHHHHcCCHHHHHHcChhhhhCCceEeeCCeEEE
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEe
Q psy2401         359 FLF  361 (363)
Q Consensus       359 ~~f  361 (363)
                      |||
T Consensus        81 f~f   83 (83)
T cd04867          81 FKF   83 (83)
T ss_pred             EEC
Confidence            998

The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the family contain a C-terminal TGS domain. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.

>cd01899 Ygr210 Ygr210 subfamily

Probab=100.00  E-value=5.8e-37  Score=292.28  Aligned_cols=246  Identities=29%  Similarity=0.404  Sum_probs=196.1

Q ss_pred             EEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeC----Cccccccccccccc------cccceeEEEEeee
Q psy2401           5 CGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVP----DKRLKHLNNIVKTK------KIFPAIIKLVDIA   74 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~----~~~~~~l~~~~~~~------~~~~~~i~lvDtp   74 (363)
                      |||+|.||||||||||+||+..+.+++|||||++|+.|.+.+.    +.|++.++   .|+      +....++++||||
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~---~~~~~~~~~~~~~v~i~l~D~a   77 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSC---NPRYGKCIDGKRYVPVELIDVA   77 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhh---cccccccccCcCcceEEEEECC
Confidence            6899999999999999999999999999999999999998874    44555544   332      2334569999999


Q ss_pred             cccCCCCcccchhhHHHhhccccCEEEEEEecccCCce---eeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhccc
Q psy2401          75 GLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKI---THISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKF  151 (363)
Q Consensus        75 Gl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~---~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~  151 (363)
                      |+.++++.+++++++|++++|+||+++||+|++++.+.   +|+.|..||.+|++.+++||.+||++.+++++.++.|..
T Consensus        78 Glv~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~~~~d~~~~~~~~~~~dp~~d~~~i~~El~~~d~~~~~~~~~~~~~~~  157 (318)
T cd01899          78 GLVPGAHEGKGLGNKFLDDLRDADALIHVVDASGGTDAEGNGVETGGHDPLEDIEFLENEIDMWIYGILEKNWEKIVRKA  157 (318)
T ss_pred             CCCCCccchhhHHHHHHHHHHHCCEEEEEEeCCCCcccccccccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999976554   899999999999999999999999999999999999876


Q ss_pred             ccCCch----hHHHHHHH----HHHHhhhcCCC-cccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHH
Q psy2401         152 FLKNEH----SIELLKLL----KRIIFNLNKSI-PIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQL  222 (363)
Q Consensus       152 ~~g~~~----~~~~~~~l----~~i~~~L~~~~-~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i  222 (363)
                      +.++..    .......+    +.++++|+++. +.+...|++++.+.+..+.+++.||+||++||.|.. .+++..+.+
T Consensus       158 ~~~~~~~~~~~~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~~~~~~~~~llt~KPvI~VlNK~Dl~-~~~~~~~~l  236 (318)
T cd01899         158 DAEKTDIVEALSEQLSGFGVNEKDVIEALEELELPEDLSKWTDEDLLRLARALRKRSKPMVIAANKADIP-DAENNISKL  236 (318)
T ss_pred             hcCCccHHHHHHHHHhhccccHHHHHHHHHhCCCCCcccCCCHHHHHHHHHHHHhcCCcEEEEEEHHHcc-ChHHHHHHH
Confidence            655433    22334445    88999997755 445567999998899989889999999999999963 234444444


Q ss_pred             HHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHH
Q psy2401         223 KIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFL  256 (363)
Q Consensus       223 ~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l  256 (363)
                      +.  ......++++||+.+.++.+|.++...+||
T Consensus       237 ~~--~~~~~~iI~iSA~~e~~L~~L~~~~i~~~l  268 (318)
T cd01899         237 RL--KYPDEIVVPTSAEAELALRRAAKQGLIKYD  268 (318)
T ss_pred             Hh--hCCCCeEEEEeCcccccHHHHHHhhHHHhC
Confidence            32  223457999999987776666443333443

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.

>KOG1486|consensus

Probab=100.00  E-value=5.1e-35  Score=260.63  Aligned_cols=286  Identities=23%  Similarity=0.301  Sum_probs=220.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      -+|++||.|.+|||||+..||+...+.+.|.|||....+|.+.++|                 ..|+++|.||++.+++.
T Consensus        63 aRValIGfPSVGKStlLs~iT~T~SeaA~yeFTTLtcIpGvi~y~g-----------------a~IQllDLPGIieGAsq  125 (364)
T KOG1486|consen   63 ARVALIGFPSVGKSTLLSKITSTHSEAASYEFTTLTCIPGVIHYNG-----------------ANIQLLDLPGIIEGASQ  125 (364)
T ss_pred             eEEEEecCCCccHHHHHHHhhcchhhhhceeeeEEEeecceEEecC-----------------ceEEEecCccccccccc
Confidence            4899999999999999999999999999999999999999999999                 88999999999999999


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHH--
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIE--  160 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~--  160 (363)
                      +++.|++..+..|.||++++|+|+...            ..+-+.++.||.--++...+++....-|..+.|......  
T Consensus       126 gkGRGRQviavArtaDlilMvLDatk~------------e~qr~~le~ELe~vGiRLNk~~Pniy~k~kk~gGi~f~~T~  193 (364)
T KOG1486|consen  126 GKGRGRQVIAVARTADLILMVLDATKS------------EDQREILEKELEAVGIRLNKRKPNIYFKKKKTGGISFNTTV  193 (364)
T ss_pred             CCCCCceEEEEeecccEEEEEecCCcc------------hhHHHHHHHHHHHhceeccCCCCCeEEEeeccCCeEEeeee
Confidence            999999999999999999999999643            223445555655555544444333333333444321110  


Q ss_pred             --HHHHHHHHHhhhcCCCcccc-----cCCChHHHHHHhhh-cccccccEEEeccccccCCCchHHHHHHHHHHhcCCCc
Q psy2401         161 --LLKLLKRIIFNLNKSIPIRL-----MSLNNEELMSIKFL-NLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIP  232 (363)
Q Consensus       161 --~~~~l~~i~~~L~~~~~~~~-----~~~~~~e~~~~~~~-~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~  232 (363)
                        -.-..+.+..+|.++++.+.     -+.+.+|  .++-. +...+.|++||-||.|..     .++++...++..+. 
T Consensus       194 ~lT~~~ek~i~~ILheykI~Naevl~ReD~t~Dd--fIDvi~gnr~Y~~ClYvYnKID~v-----s~eevdrlAr~Pns-  265 (364)
T KOG1486|consen  194 PLTHCDEKLIYTILHEYKIHNAEVLFREDCTVDD--FIDVIEGNRVYIKCLYVYNKIDQV-----SIEEVDRLARQPNS-  265 (364)
T ss_pred             ccccccHHHHHHHHHHHeeccceEEEecCCChHH--HHHHHhccceEEEEEEEeecccee-----cHHHHHHHhcCCCc-
Confidence              01123445566666665432     1456565  33333 566889999999999942     35667776666553 


Q ss_pred             EEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeCC----CCceEEEeecCCCCHHHhhhhh
Q psy2401         233 IIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVG----KKEIRAWTIPNGTTAEQAAGII  308 (363)
Q Consensus       233 ~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~g----~~e~raw~~~~g~ta~~~A~~I  308 (363)
                       +++|..+                      .-+++.+++.+++.|+|.+|||+.    ||...|.++++|+|+.++|..|
T Consensus       266 -vViSC~m----------------------~lnld~lle~iWe~l~L~rvYtKk~g~~Pdfdd~~vlr~g~tve~~C~~i  322 (364)
T KOG1486|consen  266 -VVISCNM----------------------KLNLDRLLERIWEELNLVRVYTKKKGQRPDFDDPLVLRKGSTVEDVCHRI  322 (364)
T ss_pred             -EEEEecc----------------------ccCHHHHHHHHHHHhceEEEEecCCCCCCCCCCceEEeCCCcHHHHHHHH
Confidence             4456652                      456999999999999999999994    5667899999999999999999


Q ss_pred             hcchhcccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEEEEE
Q psy2401         309 HTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL  360 (363)
Q Consensus       309 HsD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~~~  360 (363)
                      |.||...|.+|-||+-          .+|+ ..+|+ |-.|.+.|.|||.+-
T Consensus       323 Hr~l~~qfkyAlVWGt----------Sakh-sPQrv-gl~h~~~dEdvvqi~  362 (364)
T KOG1486|consen  323 HRTLAAQFKYALVWGT----------SAKH-SPQRV-GLGHTLEDEDVVQIV  362 (364)
T ss_pred             HHHHHHhhceeeEecc----------cccc-Cccee-ccccccccccceeee
Confidence            9999999999999985          6776 57878 999999999999863

>KOG1487|consensus

Probab=99.96  E-value=1e-29  Score=227.58  Aligned_cols=284  Identities=23%  Similarity=0.302  Sum_probs=218.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      +|+++|.|.+|||||+.-|++...+++.|-|+|....+|.+.+.+                 .++++.|.||+++++..+
T Consensus        61 ~vg~vgFPSvGksTl~~~l~g~~s~vasyefttl~~vpG~~~y~g-----------------aKiqlldlpgiiegakdg  123 (358)
T KOG1487|consen   61 RVGFVGFPSVGKSTLLSKLTGTFSEVAAYEFTTLTTVPGVIRYKG-----------------AKIQLLDLPGIIEGAKDG  123 (358)
T ss_pred             eeeEEecCccchhhhhhhhcCCCCccccccceeEEEecceEeccc-----------------cceeeecCcchhcccccC
Confidence            899999999999999999999988999999999999999999999                 789999999999999999


Q ss_pred             cchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhh-hhhhcccccCCchhHHHH
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYI-DKENKKFFLKNEHSIELL  162 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~-~~i~k~~~~g~~~~~~~~  162 (363)
                      ++.+++.++..|.|.+|++|+|+            ..|+..-..++.||.--++...+.+. ..+.|..++|- ....-.
T Consensus       124 kgrg~qviavartcnli~~vld~------------~kp~~hk~~ie~eleg~girlnk~pp~i~~kkKdkgGI-nlt~~~  190 (358)
T KOG1487|consen  124 KGRGKQVIAVARTCNLIFIVLDV------------LKPLSHKKIIEKELEGFGIRLNKQPPNIGTKKKDKGGI-NLTGTH  190 (358)
T ss_pred             CCCccEEEEEeecccEEEEEeec------------cCcccHHHHHHHhhhcceeeccCCCCCccccccccCce-eeecch
Confidence            99999999999999999999999            56888888888888776665555533 22333334431 111100


Q ss_pred             HHHHHHHhhhcCCCccc-----ccCCChHHHHHHhhh-cccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEe
Q psy2401         163 KLLKRIIFNLNKSIPIR-----LMSLNNEELMSIKFL-NLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIII  236 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~-----~~~~~~~e~~~~~~~-~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~  236 (363)
                      =-++.++..|.+++..+     ..+-+.++  .+..+ +...+.|.+|+.||.|.-.     ++++.-..  .....+|+
T Consensus       191 LdlD~~rsil~eyR~hsAdi~Lr~DaT~Dd--LIdvVegnr~yVp~iyvLNkIdsIS-----iEELdii~--~iphavpI  261 (358)
T KOG1487|consen  191 LDLDLQRSILSEYRIHSADIALRFDATADD--LIDVVEGNRIYVPCIYVLNKIDSIS-----IEELDIIY--TIPHAVPI  261 (358)
T ss_pred             hhHHHHHHHHHHhhhcchheeeecCcchhh--hhhhhccCceeeeeeeeecccceee-----eeccceee--eccceeec
Confidence            11344445555544332     23555555  34444 3456889999999999521     22222111  11247888


Q ss_pred             eHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeCC----CCceEEEeecCC-CCHHHhhhhhhcc
Q psy2401         237 CAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVG----KKEIRAWTIPNG-TTAEQAAGIIHTD  311 (363)
Q Consensus       237 sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~g----~~e~raw~~~~g-~ta~~~A~~IHsD  311 (363)
                      ||.                      +.-.+++++..+++.|+|+++||..    ||...+.+++.+ +|+.|+|.+||++
T Consensus       262 SA~----------------------~~wn~d~lL~~mweyL~LvriYtkPKgq~PDy~~pVvLs~~~~sv~dfc~~ih~~  319 (358)
T KOG1487|consen  262 SAH----------------------TGWNFDKLLEKMWEYLKLVRIYTKPKGQPPDYTSPVVLSSERRSVEDFCNKIHKS  319 (358)
T ss_pred             ccc----------------------cccchHHHHHHHhhcchheEEecCCCCCCCCCCCCceecCCcccHHHHHHHHHHH
Confidence            987                      4677999999999999999999994    566778888776 6999999999999


Q ss_pred             hhcccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEEEEE
Q psy2401         312 IKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL  360 (363)
Q Consensus       312 ~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~~~  360 (363)
                      +.+-|.+|-||+-          .+|+.. +|+ |++|++.|.|||.|.
T Consensus       320 ~~~~fk~alvwg~----------s~kh~p-q~v-g~~h~l~dedvv~iv  356 (358)
T KOG1487|consen  320 ILKQFKYALVWGS----------SVKHNP-QRV-GKEHVLEDEDVVQIV  356 (358)
T ss_pred             HHHhhhhheEecc----------ccCcCh-hhc-chhheeccchhhhhc
Confidence            9999999999974          677754 777 999999999999863

>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins

Probab=99.94  E-value=3.3e-26  Score=210.31  Aligned_cols=220  Identities=25%  Similarity=0.325  Sum_probs=159.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      +++++|+||||||||+|+|++....++++||+|.+|..|.+.+++                 .++++|||||+.++....
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v~~~~~tT~~~~~g~~~~~~-----------------~~i~l~DtpG~~~~~~~~   64 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVLEYKG-----------------AKIQLLDLPGIIEGAADG   64 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCCCccccceEEEEEECC-----------------eEEEEEECCCcccccccc
Confidence            799999999999999999999888899999999999999999988                 789999999998877666


Q ss_pred             cchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhh--hhhhcccccCCchh---
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYI--DKENKKFFLKNEHS---  158 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~--~~i~k~~~~g~~~~---  158 (363)
                      .++.++++..++++|++++|+|++            ++.++.+.+..++...++. +.++.  ..+.+...+| ...   
T Consensus        65 ~~~~~~~l~~~~~ad~il~V~D~t------------~~~~~~~~~~~~l~~~gi~-l~~~~~~v~~~~~~~gg-i~~~~~  130 (233)
T cd01896          65 KGRGRQVIAVARTADLILMVLDAT------------KPEGHREILERELEGVGIR-LNKRPPNITIKKKKKGG-INITST  130 (233)
T ss_pred             hhHHHHHHHhhccCCEEEEEecCC------------cchhHHHHHHHHHHHcCce-ecCCCCeEEEEEEecCC-EEEecc
Confidence            667778889999999999999995            3444555666666655552 22221  2233332222 111   


Q ss_pred             HH-HHHHHHHHHhhhcCCCccccc-----CCChHHHHHHhhh-cccccccEEEeccccccCCCchHHHHHHHHHHhcCCC
Q psy2401         159 IE-LLKLLKRIIFNLNKSIPIRLM-----SLNNEELMSIKFL-NLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNI  231 (363)
Q Consensus       159 ~~-~~~~l~~i~~~L~~~~~~~~~-----~~~~~e~~~~~~~-~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~  231 (363)
                      .+ .....+.+++.|.+.++.++.     +.+.++  .+..+ +...++|+++++||.|..  +.+   ++..+...  .
T Consensus       131 ~~~~~~~~~~v~~~l~~~~i~~~~v~~~~~~~~~~--~~~~~~~~~~y~p~iiV~NK~Dl~--~~~---~~~~~~~~--~  201 (233)
T cd01896         131 VPLTKLDEKTIKAILREYKIHNADVLIREDITVDD--LIDVIEGNRVYIPCLYVYNKIDLI--SIE---ELDLLARQ--P  201 (233)
T ss_pred             CCCCCCCHHHHHHHHHHhCeeeEEEEEccCCCHHH--HHHHHhCCceEeeEEEEEECccCC--CHH---HHHHHhcC--C
Confidence            01 112356777777777665431     556555  23333 567899999999999963  222   22233332  3


Q ss_pred             cEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeC
Q psy2401         232 PIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTV  285 (363)
Q Consensus       232 ~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~  285 (363)
                      +++++||+                      +..+++++.+.+++.|+||+|||+
T Consensus       202 ~~~~~SA~----------------------~g~gi~~l~~~i~~~L~~irvy~k  233 (233)
T cd01896         202 NSVVISAE----------------------KGLNLDELKERIWDKLGLIRVYTK  233 (233)
T ss_pred             CEEEEcCC----------------------CCCCHHHHHHHHHHHhCcEEEecC
Confidence            58889998                      578899999999999999999996

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.

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.93  E-value=1.9e-25  Score=208.29  Aligned_cols=174  Identities=37%  Similarity=0.554  Sum_probs=137.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      .|||||.||+|||||++++++++.++++|||||+.|+.|.+...+.                .++.+-|+||++++++.+
T Consensus       161 DVGLVG~PNaGKSTlls~vS~AkPKIadYpFTTL~PnLGvV~~~~~----------------~sfv~ADIPGLIEGAs~G  224 (369)
T COG0536         161 DVGLVGLPNAGKSTLLSAVSAAKPKIADYPFTTLVPNLGVVRVDGG----------------ESFVVADIPGLIEGASEG  224 (369)
T ss_pred             ccccccCCCCcHHHHHHHHhhcCCcccCCccccccCcccEEEecCC----------------CcEEEecCcccccccccC
Confidence            4899999999999999999999999999999999999999998553                568999999999999999


Q ss_pred             cchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHHH
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLK  163 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~~  163 (363)
                      .+++.+||.|+..+.+++||||++..+       ..||+++++.++.||..+.                           
T Consensus       225 ~GLG~~FLrHIERt~vL~hviD~s~~~-------~~dp~~~~~~i~~EL~~Y~---------------------------  270 (369)
T COG0536         225 VGLGLRFLRHIERTRVLLHVIDLSPID-------GRDPIEDYQTIRNELEKYS---------------------------  270 (369)
T ss_pred             CCccHHHHHHHHhhheeEEEEecCccc-------CCCHHHHHHHHHHHHHHhh---------------------------
Confidence            999999999999999999999997533       2678888877766643211                           


Q ss_pred             HHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhc-CCCc-EEEeeHHHH
Q psy2401         164 LLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHN-QNIP-IIIICAKLE  241 (363)
Q Consensus       164 ~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~-~~~~-~i~~sa~~e  241 (363)
                                                     ..|..||.++|+||+|.+. +.+..+.+.+.+.+ .+.. .+++||.  
T Consensus       271 -------------------------------~~L~~K~~ivv~NKiD~~~-~~e~~~~~~~~l~~~~~~~~~~~ISa~--  316 (369)
T COG0536         271 -------------------------------PKLAEKPRIVVLNKIDLPL-DEEELEELKKALAEALGWEVFYLISAL--  316 (369)
T ss_pred             -------------------------------HHhccCceEEEEeccCCCc-CHHHHHHHHHHHHHhcCCCcceeeehh--
Confidence                                           2447899999999999654 55666666655553 3433 2238987  


Q ss_pred             HHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEE
Q psy2401         242 EEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRT  281 (363)
Q Consensus       242 ~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~  281 (363)
                                          +..|++.+++.+++.+.-.+
T Consensus       317 --------------------t~~g~~~L~~~~~~~l~~~~  336 (369)
T COG0536         317 --------------------TREGLDELLRALAELLEETK  336 (369)
T ss_pred             --------------------cccCHHHHHHHHHHHHHHhh
Confidence                                45666666666665555443

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.92  E-value=4.2e-25  Score=220.52  Aligned_cols=172  Identities=30%  Similarity=0.540  Sum_probs=130.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+|||.||||||||+|+|+++...+++|||||+.|+.|.+.+.+                 .++.++||||+.++++.
T Consensus       160 adV~LVG~PNAGKSTLln~Ls~akpkIadypfTTl~P~lGvv~~~~-----------------~~f~laDtPGliegas~  222 (500)
T PRK12296        160 ADVGLVGFPSAGKSSLISALSAAKPKIADYPFTTLVPNLGVVQAGD-----------------TRFTVADVPGLIPGASE  222 (500)
T ss_pred             ceEEEEEcCCCCHHHHHHHHhcCCccccccCcccccceEEEEEECC-----------------eEEEEEECCCCccccch
Confidence            4799999999999999999999988899999999999999999988                 67999999999999998


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                      +++++.+|+.++..||+++||||++...      ...||..+++.+..||.....                         
T Consensus       223 g~gLg~~fLrhieradvLv~VVD~s~~e------~~rdp~~d~~~i~~EL~~y~~-------------------------  271 (500)
T PRK12296        223 GKGLGLDFLRHIERCAVLVHVVDCATLE------PGRDPLSDIDALEAELAAYAP-------------------------  271 (500)
T ss_pred             hhHHHHHHHHHHHhcCEEEEEECCcccc------cccCchhhHHHHHHHHHHhhh-------------------------
Confidence            8899999999999999999999996421      124566666555544321110                         


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                              .+..       +         .++..+..+|+|+|+||+|++ ...+..+.+++.+.+.+.+++++||+..+
T Consensus       272 --------~l~~-------~---------~~~~~l~~kP~IVVlNKiDL~-da~el~e~l~~~l~~~g~~Vf~ISA~tge  326 (500)
T PRK12296        272 --------ALDG-------D---------LGLGDLAERPRLVVLNKIDVP-DARELAEFVRPELEARGWPVFEVSAASRE  326 (500)
T ss_pred             --------cccc-------c---------chhhhhcCCCEEEEEECccch-hhHHHHHHHHHHHHHcCCeEEEEECCCCC
Confidence                    0000       0         001233679999999999974 23344455555556667889999999766


Q ss_pred             HHhcC
Q psy2401         243 EISDL  247 (363)
Q Consensus       243 ~i~el  247 (363)
                      .+.++
T Consensus       327 GLdEL  331 (500)
T PRK12296        327 GLREL  331 (500)
T ss_pred             CHHHH
Confidence            66555

>KOG1489|consensus

Probab=99.92  E-value=1.2e-24  Score=200.62  Aligned_cols=159  Identities=33%  Similarity=0.512  Sum_probs=122.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      .+|+||.||+|||||+|+|+.++..+++|+|||+.|..|.+.+++.                .++.+-|+||+++++|..
T Consensus       198 dvGLVG~PNAGKSTLL~als~AKpkVa~YaFTTL~P~iG~v~yddf----------------~q~tVADiPGiI~GAh~n  261 (366)
T KOG1489|consen  198 DVGLVGFPNAGKSTLLNALSRAKPKVAHYAFTTLRPHIGTVNYDDF----------------SQITVADIPGIIEGAHMN  261 (366)
T ss_pred             ccceecCCCCcHHHHHHHhhccCCcccccceeeeccccceeecccc----------------ceeEeccCcccccccccc
Confidence            5899999999999999999999999999999999999999999884                459999999999999999


Q ss_pred             cchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHHH
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLK  163 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~~  163 (363)
                      ++++-+||.++..|+.+++|||++....       ..|..+++.+..||.                              
T Consensus       262 kGlG~~FLrHiER~~~l~fVvD~s~~~~-------~~p~~~~~lL~~ELe------------------------------  304 (366)
T KOG1489|consen  262 KGLGYKFLRHIERCKGLLFVVDLSGKQL-------RNPWQQLQLLIEELE------------------------------  304 (366)
T ss_pred             CcccHHHHHHHHhhceEEEEEECCCccc-------CCHHHHHHHHHHHHH------------------------------
Confidence            9999999999999999999999975321       234444433332221                              


Q ss_pred             HHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         164 LLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       164 ~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                                                   .| ..++.+|.++|+||+|.+...+..++.+.+.+.  +..++++||++++
T Consensus       305 -----------------------------~yek~L~~rp~liVaNKiD~~eae~~~l~~L~~~lq--~~~V~pvsA~~~e  353 (366)
T KOG1489|consen  305 -----------------------------LYEKGLADRPALIVANKIDLPEAEKNLLSSLAKRLQ--NPHVVPVSAKSGE  353 (366)
T ss_pred             -----------------------------HHhhhhccCceEEEEeccCchhHHHHHHHHHHHHcC--CCcEEEeeecccc
Confidence                                         12 245899999999999974211222344443332  2249999999655


Q ss_pred             HHhc
Q psy2401         243 EISD  246 (363)
Q Consensus       243 ~i~e  246 (363)
                      ++.+
T Consensus       354 gl~~  357 (366)
T KOG1489|consen  354 GLEE  357 (366)
T ss_pred             chHH
Confidence            4433

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.91  E-value=6.7e-24  Score=209.32  Aligned_cols=89  Identities=45%  Similarity=0.813  Sum_probs=82.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      .|+|||.||||||||+|+|+++.+.+++|||||..|+.|.+.+++.                .++.++|+||+..+++.+
T Consensus       160 dVglVG~pNaGKSTLLn~Lt~ak~kIa~ypfTTl~PnlG~v~~~~~----------------~~~~laD~PGliega~~~  223 (424)
T PRK12297        160 DVGLVGFPNVGKSTLLSVVSNAKPKIANYHFTTLVPNLGVVETDDG----------------RSFVMADIPGLIEGASEG  223 (424)
T ss_pred             cEEEEcCCCCCHHHHHHHHHcCCCccccCCcceeceEEEEEEEeCC----------------ceEEEEECCCCccccccc
Confidence            6999999999999999999999888999999999999999988732                579999999999999988


Q ss_pred             cchhhHHHhhccccCEEEEEEeccc
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      .+++.+|+.++..+|+++||+|+++
T Consensus       224 ~gLg~~fLrhier~~llI~VID~s~  248 (424)
T PRK12297        224 VGLGHQFLRHIERTRVIVHVIDMSG  248 (424)
T ss_pred             chHHHHHHHHHhhCCEEEEEEeCCc
Confidence            8999999999999999999999863

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.91  E-value=2.2e-23  Score=200.62  Aligned_cols=90  Identities=43%  Similarity=0.821  Sum_probs=82.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ..|+|||.||||||||+|+|+++...+++|||||+.|+.|.+.+.+.                .++.++|+||+.++++.
T Consensus       159 adVglVG~PNaGKSTLln~ls~a~~~va~ypfTT~~p~~G~v~~~~~----------------~~~~i~D~PGli~ga~~  222 (335)
T PRK12299        159 ADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLHPNLGVVRVDDY----------------KSFVIADIPGLIEGASE  222 (335)
T ss_pred             CCEEEEcCCCCCHHHHHHHHHcCCCccCCCCCceeCceEEEEEeCCC----------------cEEEEEeCCCccCCCCc
Confidence            36999999999999999999999888999999999999999998542                56899999999999998


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      +.+++.+|+.+++.+|+++||+|+++
T Consensus       223 ~~gLg~~flrhie~a~vlI~ViD~s~  248 (335)
T PRK12299        223 GAGLGHRFLKHIERTRLLLHLVDIEA  248 (335)
T ss_pred             cccHHHHHHHHhhhcCEEEEEEcCCC
Confidence            88999999999999999999999963

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.89  E-value=2.5e-22  Score=193.07  Aligned_cols=90  Identities=44%  Similarity=0.823  Sum_probs=82.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ..|+|||.||||||||+|+|+++...+++|||||..|+.|.+.+++.                .++.++||||+.++++.
T Consensus       158 adV~lvG~pnaGKSTLl~~lt~~~~~va~y~fTT~~p~ig~v~~~~~----------------~~~~i~D~PGli~~a~~  221 (329)
T TIGR02729       158 ADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLVPNLGVVRVDDG----------------RSFVIADIPGLIEGASE  221 (329)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhcCCccccCCCCCccCCEEEEEEeCCc----------------eEEEEEeCCCcccCCcc
Confidence            36999999999999999999999888999999999999999988763                56899999999999988


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      +.+++..|+.++..+|++++|+|++.
T Consensus       222 ~~gLg~~flrhierad~ll~VvD~s~  247 (329)
T TIGR02729       222 GAGLGHRFLKHIERTRVLLHLIDISP  247 (329)
T ss_pred             cccHHHHHHHHHHhhCEEEEEEcCcc
Confidence            88899999999999999999999864

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.

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

Probab=99.89  E-value=7e-23  Score=175.57  Aligned_cols=87  Identities=39%  Similarity=0.608  Sum_probs=69.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+++|.||||||||||+|||..+.+++||++|.++..|.+.+.+                 .++.++|+||+++..+.
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~~-----------------~~~~lvDlPG~ysl~~~   63 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKLGD-----------------QQVELVDLPGIYSLSSK   63 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETT-----------------EEEEEEE----SSSSSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEecC-----------------ceEEEEECCCcccCCCC
Confidence            4799999999999999999999999999999999999999999988                 78999999998764433


Q ss_pred             --ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 --GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 --~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                        .+.+...++. ....|++++|+|++
T Consensus        64 s~ee~v~~~~l~-~~~~D~ii~VvDa~   89 (156)
T PF02421_consen   64 SEEERVARDYLL-SEKPDLIIVVVDAT   89 (156)
T ss_dssp             SHHHHHHHHHHH-HTSSSEEEEEEEGG
T ss_pred             CcHHHHHHHHHh-hcCCCEEEEECCCC
Confidence              2333344443 36799999999995

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 ....

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.88  E-value=5.4e-22  Score=194.64  Aligned_cols=88  Identities=42%  Similarity=0.817  Sum_probs=81.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      .|+|||+||||||||+|+|+++++.+++|||||+.|+.|.+.+.+.                .++.++||||+.++++.+
T Consensus       161 dValVG~PNaGKSTLln~Lt~~k~~vs~~p~TT~~p~~Giv~~~~~----------------~~i~~vDtPGi~~~a~~~  224 (390)
T PRK12298        161 DVGLLGLPNAGKSTFIRAVSAAKPKVADYPFTTLVPNLGVVRVDDE----------------RSFVVADIPGLIEGASEG  224 (390)
T ss_pred             cEEEEcCCCCCHHHHHHHHhCCcccccCCCCCccCcEEEEEEeCCC----------------cEEEEEeCCCccccccch
Confidence            6999999999999999999999889999999999999999998762                358999999999988888


Q ss_pred             cchhhHHHhhccccCEEEEEEecc
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .+++.+++.++..+|++++|+|++
T Consensus       225 ~~Lg~~~l~~i~radvlL~VVD~s  248 (390)
T PRK12298        225 AGLGIRFLKHLERCRVLLHLIDIA  248 (390)
T ss_pred             hhHHHHHHHHHHhCCEEEEEeccC
Confidence            888999999999999999999985

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

Probab=99.86  E-value=7.7e-21  Score=178.15  Aligned_cols=225  Identities=15%  Similarity=0.124  Sum_probs=167.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC---Ccc---cc------------CCCceeecceeEEEEeCCccccccccccccccccc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL---KIS---AE------------NYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFP   65 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~---~~~---~~------------~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~   65 (363)
                      +|+++|++|+|||||+++|...   ...   +.            ...++|++.....+.+++                 
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~-----------------   63 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWKD-----------------   63 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEECC-----------------
Confidence            5899999999999999999632   111   11            234777777777888877                 


Q ss_pred             eeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-hh
Q psy2401          66 AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-YI  144 (363)
Q Consensus        66 ~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~~  144 (363)
                      .+++++||||+.++.       ......++.+|++++|||+..+.                ..+++..+..+....+ .+
T Consensus        64 ~~i~liDTPG~~df~-------~~~~~~l~~aD~ailVVDa~~g~----------------~~~t~~~~~~~~~~~~p~i  120 (270)
T cd01886          64 HRINIIDTPGHVDFT-------IEVERSLRVLDGAVAVFDAVAGV----------------EPQTETVWRQADRYNVPRI  120 (270)
T ss_pred             EEEEEEECCCcHHHH-------HHHHHHHHHcCEEEEEEECCCCC----------------CHHHHHHHHHHHHcCCCEE
Confidence            789999999976532       35667889999999999996432                1123444555544444 46


Q ss_pred             hhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEE-e--ccccccCCCchHHHH
Q psy2401         145 DKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIF-V--ANVKENGFKNNLLLD  220 (363)
Q Consensus       145 ~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~-v--~Nk~d~~~~~~~~~~  220 (363)
                      ..+||+++.+    .+....++++++.+.....+..+|++...  .++++ ++++.|.+.| -  ..+.+....|.+..+
T Consensus       121 vviNK~D~~~----a~~~~~~~~l~~~l~~~~~~~~~Pisa~~--~f~g~vd~~~~~a~~~~~~~~~~~~~~~ip~~~~~  194 (270)
T cd01886         121 AFVNKMDRTG----ADFFRVVEQIREKLGANPVPLQLPIGEED--DFRGVVDLIEMKALYWDGELGEKIEETEIPEDLLE  194 (270)
T ss_pred             EEEECCCCCC----CCHHHHHHHHHHHhCCCceEEEeccccCC--CceEEEEccccEEEecccCCCceeEEecCCHHHHH
Confidence            7899996543    23556788888888877777788998765  67777 8888888887 2  111121113566677


Q ss_pred             HHHHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeC
Q psy2401         221 QLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTV  285 (363)
Q Consensus       221 ~i~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~  285 (363)
                      .++++           +..+-+.+++.|++++++||++..++.+.+.+.+++++....++|||-.
T Consensus       195 ~~~~~-----------r~~l~e~vae~dd~L~e~yl~~~~~~~~el~~~l~~~~~~~~~~PV~~g  248 (270)
T cd01886         195 EAEEA-----------REELIETLAEFDDELMEKYLEGEEITEEEIKAAIRKGTIANKIVPVLCG  248 (270)
T ss_pred             HHHHH-----------HHHHHHHHhcCCHHHHHHHhCCCCCCHHHHHHHHHHHHHcCcEEEEEeC
Confidence            77776           6678899999999999999999999999999999999999999999975

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

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.85  E-value=8.3e-21  Score=184.10  Aligned_cols=90  Identities=31%  Similarity=0.369  Sum_probs=79.9

Q ss_pred             CC-cEEEEEeCCCCcHHHHHHHHHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccC
Q psy2401           1 MN-LKCGLIGLPNVGKSTLFNALTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVS   78 (363)
Q Consensus         1 m~-~~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~   78 (363)
                      |. ..|+|||+||||||||||+|++. .+-++++||+|+++..+...|.+                 ..+.++||+|+.+
T Consensus         1 m~~~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr~y~~~~~~~-----------------~~f~lIDTgGl~~   63 (444)
T COG1160           1 MSTPVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLG-----------------REFILIDTGGLDD   63 (444)
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCccCCccceeEEcC-----------------ceEEEEECCCCCc
Confidence            55 67999999999999999999999 57799999999999999999999                 6799999999986


Q ss_pred             CC--CcccchhhHHHhhccccCEEEEEEecc
Q psy2401          79 GA--SKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        79 ~~--~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ..  .....+..+.+..+..||++|+|||+.
T Consensus        64 ~~~~~l~~~i~~Qa~~Ai~eADvilfvVD~~   94 (444)
T COG1160          64 GDEDELQELIREQALIAIEEADVILFVVDGR   94 (444)
T ss_pred             CCchHHHHHHHHHHHHHHHhCCEEEEEEeCC
Confidence            55  334556678899999999999999984

>cd04938 TGS_Obg-like TGS_Obg-like: The C-terminal TGS domain of Obg-like GTPases such as those present in DRG (developmentally regulated GTP-binding protein), and GTP-binding proteins Ygr210 and YchF

Probab=99.84  E-value=4e-21  Score=144.77  Aligned_cols=65  Identities=34%  Similarity=0.462  Sum_probs=59.0

Q ss_pred             CEEEEeC-----------CCCceEEEeecCCCCHHHhhhhhhcchhcccEEEEEecccccccccChhhHhhcCceeecCC
Q psy2401         279 LRTYFTV-----------GKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGK  347 (363)
Q Consensus       279 li~~ft~-----------g~~e~raw~~~~g~ta~~~A~~IHsD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk  347 (363)
                      ||+|||+           |+++.+||++++|+||.|+|+.||+||+++|++|+||+                  .|.+|+
T Consensus         1 li~VYpv~~~~~~~~~~~g~d~~~~~~l~~g~tv~d~a~~IH~d~~~~F~~A~v~~------------------~~~vg~   62 (76)
T cd04938           1 LIPVYPVKNIHTFTNGSGGNVFRDCVLVKKGTTVGDVARKIHGDLEKGFIEAVGGR------------------RRLEGK   62 (76)
T ss_pred             CEEEEEcCCCccccCcCCCCccceeEEEcCCCCHHHHHHHHhHHHHhccEEEEEcc------------------CEEECC
Confidence            6899996           36789999999999999999999999999999999996                  235599


Q ss_pred             CeeeeCCCEEEEEe
Q psy2401         348 KYLVEDGDILNFLF  361 (363)
Q Consensus       348 ~y~v~dgdii~~~f  361 (363)
                      +|+|+|||||+|++
T Consensus        63 d~~l~d~DVv~i~~   76 (76)
T cd04938          63 DVILGKNDILKFKT   76 (76)
T ss_pred             CEEecCCCEEEEEC
Confidence            99999999999985

The TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.

>COG1159 Era GTPase [General function prediction only]

Probab=99.84  E-value=3.9e-20  Score=170.78  Aligned_cols=88  Identities=30%  Similarity=0.408  Sum_probs=77.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      -|+|||+||||||||+|+|.|++ +-+|+.|.||++...|.+..++                 .++.|+||||+..+.+.
T Consensus         8 fVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR~~I~GI~t~~~-----------------~QiIfvDTPGih~pk~~   70 (298)
T COG1159           8 FVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVTTDN-----------------AQIIFVDTPGIHKPKHA   70 (298)
T ss_pred             EEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhhhheeEEEEcCC-----------------ceEEEEeCCCCCCcchH
Confidence            48899999999999999999996 5599999999999999999887                 88999999999877554


Q ss_pred             -ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 -GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 -~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                       ++.|.+...+.+..+|++++|||+.+
T Consensus        71 l~~~m~~~a~~sl~dvDlilfvvd~~~   97 (298)
T COG1159          71 LGELMNKAARSALKDVDLILFVVDADE   97 (298)
T ss_pred             HHHHHHHHHHHHhccCcEEEEEEeccc
Confidence             55566778889999999999999953

>cd01898 Obg Obg subfamily

Probab=99.83  E-value=6.4e-20  Score=159.07  Aligned_cols=89  Identities=46%  Similarity=0.851  Sum_probs=76.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      +|+++|++|||||||+|+|++....++.+|++|..|..+.+.+++.                ..+.+|||||+.......
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~v~~~~~~t~~~~~~~~~~~~~----------------~~~~l~DtpG~~~~~~~~   65 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLVPNLGVVRVDDG----------------RSFVVADIPGLIEGASEG   65 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCccccCCCccccCCcceEEEcCCC----------------CeEEEEecCcccCccccc
Confidence            6899999999999999999998777889999999999999887762                379999999987655544


Q ss_pred             cchhhHHHhhccccCEEEEEEeccc
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ..+...++..++.+|++++|+|++.
T Consensus        66 ~~~~~~~~~~~~~~d~vi~v~D~~~   90 (170)
T cd01898          66 KGLGHRFLRHIERTRLLLHVIDLSG   90 (170)
T ss_pred             CCchHHHHHHHHhCCEEEEEEecCC
Confidence            5566788888889999999999964

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.

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

Probab=99.81  E-value=4.7e-19  Score=154.19  Aligned_cols=85  Identities=59%  Similarity=1.027  Sum_probs=73.7

Q ss_pred             EEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeC-CccccccccccccccccceeEEEEeeecccCCCCcccc
Q psy2401           7 LIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVP-DKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEG   85 (363)
Q Consensus         7 lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~-~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~   85 (363)
                      ++|++|||||||+|+|++....++++|++|.+|+.+.+.++ +                 .++.+|||||+.+.....+.
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~-----------------~~~~i~DtpG~~~~~~~~~~   63 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVANYPFTTLEPNLGVVEVPDG-----------------ARIQVADIPGLIEGASEGRG   63 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccCCCceeecCcceEEEcCCC-----------------CeEEEEeccccchhhhcCCC
Confidence            58999999999999999987678899999999999998887 5                 67899999999765555566


Q ss_pred             hhhHHHhhccccCEEEEEEeccc
Q psy2401          86 LGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        86 l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      +.++++..++.+|++++|+|+++
T Consensus        64 ~~~~~~~~~~~~d~ii~v~d~~~   86 (176)
T cd01881          64 LGNQFLAHIRRADAILHVVDASE   86 (176)
T ss_pred             ccHHHHHHHhccCEEEEEEeccC
Confidence            66678888899999999999964

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

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.79  E-value=5.5e-19  Score=171.91  Aligned_cols=90  Identities=30%  Similarity=0.376  Sum_probs=79.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      +++++|+|+||||||||+|+|++. .+-|++.||||++.....+.++|                 .++.++||+|+-+..
T Consensus       217 G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i~G-----------------~pv~l~DTAGiRet~  279 (454)
T COG0486         217 GLKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINLNG-----------------IPVRLVDTAGIRETD  279 (454)
T ss_pred             CceEEEECCCCCcHHHHHHHHhcCCceEecCCCCCccceEEEEEEECC-----------------EEEEEEecCCcccCc
Confidence            589999999999999999999999 68899999999999999999999                 889999999998655


Q ss_pred             Ccccchh-hHHHhhccccCEEEEEEeccc
Q psy2401          81 SKGEGLG-NKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        81 ~~~~~l~-~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ..-+..| .+....+.+||.+++|+|+++
T Consensus       280 d~VE~iGIeRs~~~i~~ADlvL~v~D~~~  308 (454)
T COG0486         280 DVVERIGIERAKKAIEEADLVLFVLDASQ  308 (454)
T ss_pred             cHHHHHHHHHHHHHHHhCCEEEEEEeCCC
Confidence            5544443 567788899999999999964

>TIGR00436 era GTP-binding protein Era

Probab=99.78  E-value=2.7e-18  Score=161.26  Aligned_cols=87  Identities=23%  Similarity=0.261  Sum_probs=70.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +|+++|+||||||||+|+|++.. +.++++|+||.++..+....++                 .++.++||||+....+.
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr~~i~~i~~~~~-----------------~qii~vDTPG~~~~~~~   64 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNRISGIHTTGA-----------------SQIIFIDTPGFHEKKHS   64 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCcccCcEEEEEEcCC-----------------cEEEEEECcCCCCCcch
Confidence            68999999999999999999986 4589999999998777766555                 67899999999765332


Q ss_pred             -ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 -GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 -~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                       .+.+...+...++.+|++++|+|++
T Consensus        65 l~~~~~~~~~~~l~~aDvvl~VvD~~   90 (270)
T TIGR00436        65 LNRLMMKEARSAIGGVDLILFVVDSD   90 (270)
T ss_pred             HHHHHHHHHHHHHhhCCEEEEEEECC
Confidence             2223345667789999999999985

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

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

Probab=99.78  E-value=2.8e-18  Score=160.98  Aligned_cols=226  Identities=18%  Similarity=0.154  Sum_probs=154.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCcc---c---------cCC------CceeecceeEEEEeCCccccccccccccccccc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKIS---A---------ENY------PFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFP   65 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~---~---------~~~------p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~   65 (363)
                      +|+|+|++|||||||+++|......   .         .++      .+.|+.+....+.+++                 
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~~~-----------------   63 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEWKG-----------------   63 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEECC-----------------
Confidence            5899999999999999999753111   1         011      1334455555566655                 


Q ss_pred             eeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-hh
Q psy2401          66 AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-YI  144 (363)
Q Consensus        66 ~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~~  144 (363)
                      ..+++|||||..++.       ......++.+|++++|+|+..+...                ..+..|..+..... .+
T Consensus        64 ~~i~liDtPG~~~f~-------~~~~~~l~~aD~~i~Vvd~~~g~~~----------------~~~~~~~~~~~~~~p~i  120 (268)
T cd04170          64 HKINLIDTPGYADFV-------GETRAALRAADAALVVVSAQSGVEV----------------GTEKLWEFADEAGIPRI  120 (268)
T ss_pred             EEEEEEECcCHHHHH-------HHHHHHHHHCCEEEEEEeCCCCCCH----------------HHHHHHHHHHHcCCCEE
Confidence            679999999975432       3566777899999999999643211                12223333333333 35


Q ss_pred             hhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEeccc-cccCCCchHHHHHH
Q psy2401         145 DKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFVANV-KENGFKNNLLLDQL  222 (363)
Q Consensus       145 ~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v~Nk-~d~~~~~~~~~~~i  222 (363)
                      ..+||+++.+.    +....++.+++.+.....+..+|+...+  .++++ +.+..+.+.|-.++ ......|.+..+.+
T Consensus       121 ivvNK~D~~~~----~~~~~~~~l~~~~~~~~~~~~ip~~~~~--~~~~~vd~~~~~~~~~~~~~~~~~~~~p~~~~~~~  194 (268)
T cd04170         121 IFINKMDRERA----DFDKTLAALQEAFGRPVVPLQLPIGEGD--DFKGVVDLLTEKAYIYSPGAPSEEIEIPEELKEEV  194 (268)
T ss_pred             EEEECCccCCC----CHHHHHHHHHHHhCCCeEEEEecccCCC--ceeEEEEcccCEEEEccCCCcceeccCCHHHHHHH
Confidence            68888865432    3456778888888765555666766554  56666 67777777663222 11111345566666


Q ss_pred             HHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeCC
Q psy2401         223 KIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVG  286 (363)
Q Consensus       223 ~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~g  286 (363)
                      +++           ...+.+.+++.|++++++||++..++.+.+.+.+++++..-.++|||...
T Consensus       195 ~~~-----------~~~l~e~~a~~dd~l~e~yl~~~~~~~~~l~~~l~~~~~~~~~~pv~~gS  247 (268)
T cd04170         195 AEA-----------REELLEAVAETDDELMEKYLEGGELTEEELHAGLRRALRAGLLVPVLCGS  247 (268)
T ss_pred             HHH-----------HHHHHHHHhhCCHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCEEEEEEee
Confidence            665           55678889999999999999999999999999999999999999999873

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

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.76  E-value=2.5e-17  Score=151.67  Aligned_cols=184  Identities=16%  Similarity=0.155  Sum_probs=126.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCcc---c---c------C------CCceeecceeEEEEeCCccccccccccccccccc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKIS---A---E------N------YPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFP   65 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~---~---~------~------~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~   65 (363)
                      +|+++|++|+|||||+++|+.....   .   .      +      ..+.|+......+.+++                 
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~-----------------   63 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWED-----------------   63 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECC-----------------
Confidence            5899999999999999999753111   0   0      0      11233344444555555                 


Q ss_pred             eeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhh
Q psy2401          66 AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYID  145 (363)
Q Consensus        66 ~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~  145 (363)
                      .++++|||||+.++.       ......++.+|++++|+|+.++..            .    ..+.             
T Consensus        64 ~~i~liDTPG~~~f~-------~~~~~~l~~aD~~IlVvd~~~g~~------------~----~~~~-------------  107 (237)
T cd04168          64 TKVNLIDTPGHMDFI-------AEVERSLSVLDGAILVISAVEGVQ------------A----QTRI-------------  107 (237)
T ss_pred             EEEEEEeCCCccchH-------HHHHHHHHHhCeEEEEEeCCCCCC------------H----HHHH-------------
Confidence            789999999986543       255677799999999999853210            0    0000             


Q ss_pred             hhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCC-CchHHHHHHHH
Q psy2401         146 KENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGF-KNNLLLDQLKI  224 (363)
Q Consensus       146 ~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~-~~~~~~~~i~~  224 (363)
                                                                  .++.. ....+|.++++||.|..- ...+.++.+++
T Consensus       108 --------------------------------------------~~~~~-~~~~~P~iivvNK~D~~~a~~~~~~~~i~~  142 (237)
T cd04168         108 --------------------------------------------LWRLL-RKLNIPTIIFVNKIDRAGADLEKVYQEIKE  142 (237)
T ss_pred             --------------------------------------------HHHHH-HHcCCCEEEEEECccccCCCHHHHHHHHHH
Confidence                                                        01101 013679999999999742 12455666666


Q ss_pred             HHhcCCCc------------EEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeC
Q psy2401         225 YAHNQNIP------------IIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTV  285 (363)
Q Consensus       225 ~~~~~~~~------------~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~  285 (363)
                      .+..+-.+            ...+...+-+.+++.||+++++||++..++++.+...++++.....++|||-.
T Consensus       143 ~~~~~~~~~~~p~~~~~~~~~~~~~~~l~e~vae~dd~l~e~yl~~~~~~~~el~~~l~~~~~~~~~~Pv~~g  215 (237)
T cd04168         143 KLSSDIVPMQKVGLAPNICETNEIDDEFWETLAEGDDELLEKYLEGGPIEELELDNELSARIAKRKVFPVYHG  215 (237)
T ss_pred             HHCCCeEEEECCcEeeeeeeeeeccHHHHHHHhcCCHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCeEEEEEc
Confidence            55443111            11234788889999999999999999999999999999999999999999975

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.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.75  E-value=1.8e-17  Score=160.80  Aligned_cols=89  Identities=30%  Similarity=0.522  Sum_probs=72.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+|+|+||||||||+|+|++..+.++++||+|.+|....+.+++.                .++.+|||||+.+....
T Consensus       190 ~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i~~~~~----------------~~i~l~DT~G~~~~l~~  253 (351)
T TIGR03156       190 PTVALVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPDG----------------GEVLLTDTVGFIRDLPH  253 (351)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCceeeccCCccccCCEEEEEEeCCC----------------ceEEEEecCcccccCCH
Confidence            68999999999999999999998877889999999999999998543                57899999998653221


Q ss_pred             c--cchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 G--EGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~--~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      .  +. .+..+..+++||++++|+|+++
T Consensus       254 ~lie~-f~~tle~~~~ADlil~VvD~s~  280 (351)
T TIGR03156       254 ELVAA-FRATLEEVREADLLLHVVDASD  280 (351)
T ss_pred             HHHHH-HHHHHHHHHhCCEEEEEEECCC
Confidence            1  11 1234566889999999999964

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).

>cd04169 RF3 RF3 subfamily

Probab=99.74  E-value=1.5e-17  Score=155.68  Aligned_cols=219  Identities=16%  Similarity=0.095  Sum_probs=145.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-c--cc-------------cCCC------ceeecceeEEEEeCCcccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-I--SA-------------ENYP------FCTIEPNIGIIEVPDKRLKHLNNIVKT   60 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~--~~-------------~~~p------~~t~~~~~g~v~~~~~~~~~l~~~~~~   60 (363)
                      ++|+|+|++|+|||||+++|+... +  ..             .++.      +.|+......+.+.+            
T Consensus         3 Rni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~~~------------   70 (267)
T cd04169           3 RTFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRD------------   70 (267)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEeeCC------------
Confidence            589999999999999999997431 1  11             1111      122222233444444            


Q ss_pred             ccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHH
Q psy2401          61 KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAIL  140 (363)
Q Consensus        61 ~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~  140 (363)
                           .++++|||||..++.       ......++.+|++++|+|+..+.                ....+..+..+...
T Consensus        71 -----~~i~liDTPG~~df~-------~~~~~~l~~aD~~IlVvda~~g~----------------~~~~~~i~~~~~~~  122 (267)
T cd04169          71 -----CVINLLDTPGHEDFS-------EDTYRTLTAVDSAVMVIDAAKGV----------------EPQTRKLFEVCRLR  122 (267)
T ss_pred             -----EEEEEEECCCchHHH-------HHHHHHHHHCCEEEEEEECCCCc----------------cHHHHHHHHHHHhc
Confidence                 789999999976543       24566778999999999995421                11223344444333


Q ss_pred             Hh-hhhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEeccccccCCCchHH
Q psy2401         141 EK-YIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFVANVKENGFKNNLL  218 (363)
Q Consensus       141 ~~-~~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v~Nk~d~~~~~~~~  218 (363)
                      .. .+..+||++..+    .....+++++++.|.....+..+|+..++  .++++ ++++.|.+.|.-+......     
T Consensus       123 ~~P~iivvNK~D~~~----a~~~~~~~~l~~~l~~~~~~~~~Pi~~~~--~~~g~vd~~~~~a~~~~~~~~~~~~-----  191 (267)
T cd04169         123 GIPIITFINKLDREG----RDPLELLDEIEEELGIDCTPLTWPIGMGK--DFKGVYDRRTGEVELYDRGAGGATI-----  191 (267)
T ss_pred             CCCEEEEEECCccCC----CCHHHHHHHHHHHHCCCceeEEecccCCC--ceEEEEEhhhCEEEEecCCCCCccc-----
Confidence            34 357788885432    23456688888888877777788888765  67777 8888888877211000000     


Q ss_pred             HHHHHHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeC
Q psy2401         219 LDQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTV  285 (363)
Q Consensus       219 ~~~i~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~  285 (363)
                                   ....+.+.+.+.+++.+++++++|+++..++.+.+.++++.++....++|||-.
T Consensus       192 -------------~~~~~p~~~~e~~~e~~~~l~e~~~e~~~~~~~~~~~~~~~~~~~~~~~Pv~~g  245 (267)
T cd04169         192 -------------APEETKGLDDPKLDELGGDLAEQLREELELLEGAGPEFDQEAFLAGELTPVFFG  245 (267)
T ss_pred             -------------eeccCCcccHHHHHhcCHHHHHHHhCCCccchhhhHHHhHHHHHcCCEEEEEec
Confidence                         000112233467889999999999999888888899999999999999999965

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.

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

Probab=99.74  E-value=7.9e-17  Score=139.45  Aligned_cols=89  Identities=24%  Similarity=0.335  Sum_probs=65.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+++|++|||||||+|+|++....++++|++|..+..+.+.+.+                 ..+++|||||+.+....
T Consensus         1 ~~i~~~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~-----------------~~~~i~Dt~G~~~~~~~   63 (168)
T cd01897           1 PTLVIAGYPNVGKSSLVNKLTRAKPEVAPYPFTTKSLFVGHFDYKY-----------------LRWQVIDTPGLLDRPLE   63 (168)
T ss_pred             CeEEEEcCCCCCHHHHHHHHhcCCCccCCCCCcccceeEEEEccCc-----------------eEEEEEECCCcCCcccc
Confidence            4799999999999999999999877778889999999888887766                 68999999998543221


Q ss_pred             cc-chhhHHHhhc-cccCEEEEEEeccc
Q psy2401          83 GE-GLGNKFLAHI-RETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~-~l~~~~l~~~-~~aD~il~Vvda~~  108 (363)
                      .+ .+....+..+ ..+|++++|+|+++
T Consensus        64 ~~~~~~~~~~~~~~~~~d~~l~v~d~~~   91 (168)
T cd01897          64 ERNTIEMQAITALAHLRAAVLFLFDPSE   91 (168)
T ss_pred             CCchHHHHHHHHHHhccCcEEEEEeCCc
Confidence            11 1111112122 23689999999853

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.

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.74  E-value=1.6e-17  Score=167.98  Aligned_cols=88  Identities=34%  Similarity=0.551  Sum_probs=76.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccC--C
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVS--G   79 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~--~   79 (363)
                      ..++|++|.||||||||||+|||+...++||||.|.+...|.....+                 ..++++|+||.++  .
T Consensus         3 ~~~valvGNPNvGKTtlFN~LTG~~q~VgNwpGvTVEkkeg~~~~~~-----------------~~i~ivDLPG~YSL~~   65 (653)
T COG0370           3 KLTVALVGNPNVGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKYKG-----------------HEIEIVDLPGTYSLTA   65 (653)
T ss_pred             cceEEEecCCCccHHHHHHHHhccCceecCCCCeeEEEEEEEEEecC-----------------ceEEEEeCCCcCCCCC
Confidence            35799999999999999999999999999999999999999999999                 6799999999975  4


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEecc
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .+.++...++|+.. ..+|+++.|+|++
T Consensus        66 ~S~DE~Var~~ll~-~~~D~ivnVvDAt   92 (653)
T COG0370          66 YSEDEKVARDFLLE-GKPDLIVNVVDAT   92 (653)
T ss_pred             CCchHHHHHHHHhc-CCCCEEEEEcccc
Confidence            45566666677653 5689999999995

>COG2262 HflX GTPases [General function prediction only]

Probab=99.73  E-value=3.5e-17  Score=156.81  Aligned_cols=88  Identities=32%  Similarity=0.529  Sum_probs=75.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ..|+|+|.+|+|||||||+||+....+.+..|+|.+|....+.+++.                .++.+-||.|+++....
T Consensus       193 p~vaLvGYTNAGKSTL~N~LT~~~~~~~d~LFATLdpttR~~~l~~g----------------~~vlLtDTVGFI~~LP~  256 (411)
T COG2262         193 PLVALVGYTNAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGDG----------------RKVLLTDTVGFIRDLPH  256 (411)
T ss_pred             CeEEEEeeccccHHHHHHHHhccCeeccccccccccCceeEEEeCCC----------------ceEEEecCccCcccCCh
Confidence            47999999999999999999999999999999999999999999864                57899999999876543


Q ss_pred             ccchhhHH---HhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKF---LAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~---l~~~~~aD~il~Vvda~~  108 (363)
                        .+...|   +.....||+++||||+++
T Consensus       257 --~LV~AFksTLEE~~~aDlllhVVDaSd  283 (411)
T COG2262         257 --PLVEAFKSTLEEVKEADLLLHVVDASD  283 (411)
T ss_pred             --HHHHHHHHHHHHhhcCCEEEEEeecCC
Confidence              344444   566678999999999964

>PRK15494 era GTPase Era; Provisional

Probab=99.73  E-value=6.1e-17  Score=156.72  Aligned_cols=88  Identities=24%  Similarity=0.326  Sum_probs=71.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc-cccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI-SAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~-~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+|+++|+||||||||+|+|++... .+++.|++|.+...+.+.+++                 .++.+|||||+....+
T Consensus        53 ~kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tTr~~~~~~~~~~~-----------------~qi~~~DTpG~~~~~~  115 (339)
T PRK15494         53 VSVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTRSIITGIITLKD-----------------TQVILYDTPGIFEPKG  115 (339)
T ss_pred             eEEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCccCcEEEEEEeCC-----------------eEEEEEECCCcCCCcc
Confidence            4899999999999999999999854 467889999988888888887                 6799999999864332


Q ss_pred             -cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 -KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 -~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                       ....+.+..+..++.||++++|+|+.
T Consensus       116 ~l~~~~~r~~~~~l~~aDvil~VvD~~  142 (339)
T PRK15494        116 SLEKAMVRCAWSSLHSADLVLLIIDSL  142 (339)
T ss_pred             cHHHHHHHHHHHHhhhCCEEEEEEECC
Confidence             22333444556688999999999974

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.72  E-value=3.3e-17  Score=152.77  Aligned_cols=89  Identities=25%  Similarity=0.391  Sum_probs=73.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ..+.+.|+||||||||+++||+++.++++|||||...+.|++....                 ..++++||||+.+-.-.
T Consensus       169 pTivVaG~PNVGKSSlv~~lT~AkpEvA~YPFTTK~i~vGhfe~~~-----------------~R~QvIDTPGlLDRPl~  231 (346)
T COG1084         169 PTIVVAGYPNVGKSSLVRKLTTAKPEVAPYPFTTKGIHVGHFERGY-----------------LRIQVIDTPGLLDRPLE  231 (346)
T ss_pred             CeEEEecCCCCcHHHHHHHHhcCCCccCCCCccccceeEeeeecCC-----------------ceEEEecCCcccCCChH
Confidence            5789999999999999999999999999999999999999999988                 67999999999863322


Q ss_pred             -ccchhhHHHhhccc-cCEEEEEEeccc
Q psy2401          83 -GEGLGNKFLAHIRE-TNIVIHVIRCFK  108 (363)
Q Consensus        83 -~~~l~~~~l~~~~~-aD~il~Vvda~~  108 (363)
                       .-.+-.+...+++. .++|++++|.++
T Consensus       232 ErN~IE~qAi~AL~hl~~~IlF~~D~Se  259 (346)
T COG1084         232 ERNEIERQAILALRHLAGVILFLFDPSE  259 (346)
T ss_pred             HhcHHHHHHHHHHHHhcCeEEEEEcCcc
Confidence             22233455555555 678999999864

>cd04171 SelB SelB subfamily

Probab=99.72  E-value=9.2e-17  Score=137.93  Aligned_cols=82  Identities=23%  Similarity=0.356  Sum_probs=61.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC---ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK---ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~---~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      |.|+++|.+|||||||+|+|++..   ......+++|.++....+.+.+.                .++++|||||..+ 
T Consensus         1 ~~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~----------------~~~~~~DtpG~~~-   63 (164)
T cd04171           1 MIIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPSG----------------KRLGFIDVPGHEK-   63 (164)
T ss_pred             CEEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecCC----------------cEEEEEECCChHH-
Confidence            579999999999999999999752   22223456777776666666521                5799999999743 


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEecc
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            +...+...++.+|++++|+|+.
T Consensus        64 ------~~~~~~~~~~~ad~ii~V~d~~   85 (164)
T cd04171          64 ------FIKNMLAGAGGIDLVLLVVAAD   85 (164)
T ss_pred             ------HHHHHHhhhhcCCEEEEEEECC
Confidence                  2234556678999999999985

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

>cd01861 Rab6 Rab6 subfamily

Probab=99.71  E-value=1.1e-16  Score=137.52  Aligned_cols=83  Identities=18%  Similarity=0.168  Sum_probs=66.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|++|||||||++++++.....+..|+++.++....+.+++..               .++++|||||.....  
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~l~~~D~~G~~~~~--   63 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKT---------------VRLQLWDTAGQERFR--   63 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEE---------------EEEEEEECCCcHHHH--
Confidence            489999999999999999999987777778888888877788777643               578999999954321  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           ......++.+|++++|+|+.
T Consensus        64 -----~~~~~~~~~~~~ii~v~d~~   83 (161)
T cd01861          64 -----SLIPSYIRDSSVAVVVYDIT   83 (161)
T ss_pred             -----HHHHHHhccCCEEEEEEECc
Confidence                 12344568899999999984

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.71  E-value=2.1e-16  Score=136.71  Aligned_cols=150  Identities=19%  Similarity=0.148  Sum_probs=96.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|++|||||||++++++........|..+.+.....+.+++..               .++++||+||...... 
T Consensus         3 ~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~i~D~~G~~~~~~-   66 (166)
T cd01869           3 FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKT---------------IKLQIWDTAGQERFRT-   66 (166)
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEE---------------EEEEEEECCCcHhHHH-
Confidence            689999999999999999999876555444544444445556666533               6789999999643322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++.+|++++|+|+++.                                                     
T Consensus        67 ------~~~~~~~~~~~ii~v~d~~~~-----------------------------------------------------   87 (166)
T cd01869          67 ------ITSSYYRGAHGIIIVYDVTDQ-----------------------------------------------------   87 (166)
T ss_pred             ------HHHHHhCcCCEEEEEEECcCH-----------------------------------------------------
Confidence                  223456889999999998531                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      +.++.+..|+.                .+..+. ....|+++++||.|.........+..+.+....+.+++++||+..+
T Consensus        88 ~s~~~l~~~~~----------------~~~~~~-~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  150 (166)
T cd01869          88 ESFNNVKQWLQ----------------EIDRYA-SENVNKLLVGNKCDLTDKRVVDYSEAQEFADELGIPFLETSAKNAT  150 (166)
T ss_pred             HHHHhHHHHHH----------------HHHHhC-CCCCcEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCc
Confidence            11222222222                111111 1457999999999964211222345566666678899999999543


Q ss_pred             HH
Q psy2401         243 EI  244 (363)
Q Consensus       243 ~i  244 (363)
                      ++
T Consensus       151 ~v  152 (166)
T cd01869         151 NV  152 (166)
T ss_pred             CH
Confidence            33

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

>cd01868 Rab11_like Rab11-like

Probab=99.70  E-value=3.2e-16  Score=135.32  Aligned_cols=83  Identities=23%  Similarity=0.176  Sum_probs=62.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|++|||||||++++++........|..+.+.....+..++..               ..+.+||+||...... 
T Consensus         4 ~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~l~D~~g~~~~~~-   67 (165)
T cd01868           4 FKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKT---------------IKAQIWDTAGQERYRA-   67 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEE---------------EEEEEEeCCChHHHHH-
Confidence            589999999999999999999876665666766666666667766643               5789999999643221 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        68 ------~~~~~~~~~~~~i~v~d~~   86 (165)
T cd01868          68 ------ITSAYYRGAVGALLVYDIT   86 (165)
T ss_pred             ------HHHHHHCCCCEEEEEEECc
Confidence                  2234558899999999985

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

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

Probab=99.70  E-value=9.5e-17  Score=131.22  Aligned_cols=87  Identities=37%  Similarity=0.508  Sum_probs=73.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +|+++|++|||||||+|+|++. ...+++.|++|..+..+.+.+++                 ..+.++||||+.+....
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~~~~~~~~~~~~-----------------~~~~~vDtpG~~~~~~~   63 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTRDPVYGQFEYNN-----------------KKFILVDTPGINDGESQ   63 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSSSEEEEEEEETT-----------------EEEEEEESSSCSSSSHH
T ss_pred             CEEEECCCCCCHHHHHHHHhccccccccccccceeeeeeeeeeece-----------------eeEEEEeCCCCcccchh
Confidence            6899999999999999999997 56799999999999888888877                 67789999999876544


Q ss_pred             cc--chhhHHHhhccccCEEEEEEecc
Q psy2401          83 GE--GLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~--~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ..  ...++++..++.+|++++|+|+.
T Consensus        64 ~~~~~~~~~~~~~~~~~d~ii~vv~~~   90 (116)
T PF01926_consen   64 DNDGKEIRKFLEQISKSDLIIYVVDAS   90 (116)
T ss_dssp             HHHHHHHHHHHHHHCTESEEEEEEETT
T ss_pred             hHHHHHHHHHHHHHHHCCEEEEEEECC
Confidence            32  13446788889999999999973

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

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

Probab=99.69  E-value=5.7e-16  Score=133.27  Aligned_cols=82  Identities=20%  Similarity=0.165  Sum_probs=57.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|++|||||||++++.+... ...++.++.........+++..               ..+++|||||..+... 
T Consensus         3 ~ki~i~G~~~~GKtsl~~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~-   65 (164)
T cd04145           3 YKLVVVGGGGVGKSALTIQFIQSYF-VTDYDPTIEDSYTKQCEIDGQW---------------AILDILDTAGQEEFSA-   65 (164)
T ss_pred             eEEEEECCCCCcHHHHHHHHHhCCC-CcccCCCccceEEEEEEECCEE---------------EEEEEEECCCCcchhH-
Confidence            6999999999999999999997543 3444444433333344455532               5788999999754322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        66 ------~~~~~~~~~~~~ilv~d~~   84 (164)
T cd04145          66 ------MREQYMRTGEGFLLVFSVT   84 (164)
T ss_pred             ------HHHHHHhhCCEEEEEEECC
Confidence                  2224558899999999985

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

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.69  E-value=3e-16  Score=152.52  Aligned_cols=185  Identities=21%  Similarity=0.215  Sum_probs=129.2

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      +.++||||.||+|||||+|+|++. .+-+++.||||+++....+.+++                 ..+.++||+|+-+..
T Consensus       178 ~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~-----------------~~~~liDTAGiRrk~  240 (444)
T COG1160         178 PIKIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERDG-----------------RKYVLIDTAGIRRKG  240 (444)
T ss_pred             ceEEEEEeCCCCCchHHHHHhccCceEEecCCCCccccceeeeEEECC-----------------eEEEEEECCCCCccc
Confidence            479999999999999999999998 68899999999999999999999                 678999999996544


Q ss_pred             Ccccch----hhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCc
Q psy2401          81 SKGEGL----GNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNE  156 (363)
Q Consensus        81 ~~~~~l----~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~  156 (363)
                      .-.++.    ..+.+..+..+|++++|+|++++.                                              
T Consensus       241 ki~e~~E~~Sv~rt~~aI~~a~vvllviDa~~~~----------------------------------------------  274 (444)
T COG1160         241 KITESVEKYSVARTLKAIERADVVLLVIDATEGI----------------------------------------------  274 (444)
T ss_pred             ccccceEEEeehhhHhHHhhcCEEEEEEECCCCc----------------------------------------------
Confidence            332221    236678889999999999996421                                              


Q ss_pred             hhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHH----HHHHHHhcC-CC
Q psy2401         157 HSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLD----QLKIYAHNQ-NI  231 (363)
Q Consensus       157 ~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~----~i~~~~~~~-~~  231 (363)
                                                 ++.+. .+.++-.-..+|.++|+||-|.-...+...+    +++..+... ..
T Consensus       275 ---------------------------~~qD~-~ia~~i~~~g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a  326 (444)
T COG1160         275 ---------------------------SEQDL-RIAGLIEEAGRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFA  326 (444)
T ss_pred             ---------------------------hHHHH-HHHHHHHHcCCCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCC
Confidence                                       11111 1222333478999999999996321123333    333333322 35


Q ss_pred             cEEEeeHHHHHHHhcCCHHHHHHHHh-hcCCCchhHHHHHHHHHHhC
Q psy2401         232 PIIIICAKLEEEISDLNNIDKKFFLD-NLGLKETKLNDLIRASFSLL  277 (363)
Q Consensus       232 ~~i~~sa~~e~~i~el~~~~~~~~l~-~~~l~~~~l~~l~~~~~~~l  277 (363)
                      +++++||+....+.++.+.-.+.|=. ..-++.+-|.+.++.+...-
T Consensus       327 ~i~~iSA~~~~~i~~l~~~i~~~~~~~~~ri~Ts~LN~~l~~a~~~~  373 (444)
T COG1160         327 PIVFISALTGQGLDKLFEAIKEIYECATRRISTSLLNRVLEDAVAKH  373 (444)
T ss_pred             eEEEEEecCCCChHHHHHHHHHHHHHhccccCHHHHHHHHHHHHHhC
Confidence            79999999888877765433332211 22345677888888665543

>cd01878 HflX HflX subfamily

Probab=99.69  E-value=5.2e-16  Score=139.28  Aligned_cols=90  Identities=30%  Similarity=0.479  Sum_probs=69.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+++|++|||||||+|+|++....+.+.+++|..+..+.+.+++.                ..+.+|||||+.+....
T Consensus        42 ~~I~iiG~~g~GKStLl~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~----------------~~~~i~Dt~G~~~~~~~  105 (204)
T cd01878          42 PTVALVGYTNAGKSTLFNALTGADVYAEDQLFATLDPTTRRLRLPDG----------------REVLLTDTVGFIRDLPH  105 (204)
T ss_pred             CeEEEECCCCCCHHHHHHHHhcchhccCCccceeccceeEEEEecCC----------------ceEEEeCCCccccCCCH
Confidence            58999999999999999999998777778889999998888877663                37899999998654322


Q ss_pred             cc-chhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GE-GLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~-~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      .. ......+..++.+|++++|+|+++
T Consensus       106 ~~~~~~~~~~~~~~~~d~ii~v~D~~~  132 (204)
T cd01878         106 QLVEAFRSTLEEVAEADLLLHVVDASD  132 (204)
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEEECCC
Confidence            10 001123345678999999999853

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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.69  E-value=3.5e-16  Score=165.16  Aligned_cols=89  Identities=31%  Similarity=0.482  Sum_probs=71.4

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      |..+|+++|+||||||||||+|+|....++++|++|.+...+.+.+++                 .+++++||||+.+..
T Consensus         2 ~~~~IaLvG~pNvGKSTLfN~Ltg~~~~vgn~pGvTve~k~g~~~~~~-----------------~~i~lvDtPG~ysl~   64 (772)
T PRK09554          2 KKLTIGLIGNPNSGKTTLFNQLTGARQRVGNWAGVTVERKEGQFSTTD-----------------HQVTLVDLPGTYSLT   64 (772)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCCCccCCCCCceEeeEEEEEEcCc-----------------eEEEEEECCCccccc
Confidence            347899999999999999999999988999999999999999988877                 679999999997654


Q ss_pred             Cc------ccchhhHHHhhccccCEEEEEEecc
Q psy2401          81 SK------GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~------~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ..      .+.+.+.++ ....+|++++|+|++
T Consensus        65 ~~~~~~s~~E~i~~~~l-~~~~aD~vI~VvDat   96 (772)
T PRK09554         65 TISSQTSLDEQIACHYI-LSGDADLLINVVDAS   96 (772)
T ss_pred             cccccccHHHHHHHHHH-hccCCCEEEEEecCC
Confidence            32      111112222 125799999999984

>cd04136 Rap_like Rap-like subfamily

Probab=99.69  E-value=6.4e-16  Score=132.83  Aligned_cols=82  Identities=21%  Similarity=0.195  Sum_probs=57.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||++++...... ..++.++.+.....+.+++..               ..+++|||||..+... 
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~-   64 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQGIFV-EKYDPTIEDSYRKQIEVDGQQ---------------CMLEILDTAGTEQFTA-   64 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCC-cccCCchhhhEEEEEEECCEE---------------EEEEEEECCCccccch-
Confidence            68999999999999999999975432 334333433334445555532               5788999999755433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                         +   ....++.+|++++|+|+.
T Consensus        65 ---~---~~~~~~~~~~~ilv~d~~   83 (163)
T cd04136          65 ---M---RDLYIKNGQGFVLVYSIT   83 (163)
T ss_pred             ---H---HHHHhhcCCEEEEEEECC
Confidence               1   123458899999999984

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.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.69  E-value=4.9e-16  Score=133.80  Aligned_cols=83  Identities=18%  Similarity=0.219  Sum_probs=58.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|++|||||||++++++........|..+.+.....+.+++..               ..+++|||||...... 
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~-   64 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKE---------------VRVNFFDLSGHPEYLE-   64 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeE---------------EEEEEEECCccHHHHH-
Confidence            489999999999999999999876544444433334434455555533               6899999999743221 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        65 ------~~~~~~~~~d~~ilv~D~~   83 (168)
T cd04119          65 ------VRNEFYKDTQGVLLVYDVT   83 (168)
T ss_pred             ------HHHHHhccCCEEEEEEECC
Confidence                  2223458899999999985

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.

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

Probab=99.69  E-value=5e-16  Score=132.64  Aligned_cols=83  Identities=34%  Similarity=0.542  Sum_probs=66.8

Q ss_pred             EEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc--cc
Q psy2401           7 LIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK--GE   84 (363)
Q Consensus         7 lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~--~~   84 (363)
                      |+|++|||||||+|++++....++++|++|.+...+.+.+++                 ..+.+|||||+......  ..
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-----------------~~~~liDtpG~~~~~~~~~~~   63 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGG-----------------KEIEIVDLPGTYSLSPYSEDE   63 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcccccceEEEeeCC-----------------eEEEEEECCCccccCCCChhH
Confidence            589999999999999999877888999999999988888877                 67899999998754432  12


Q ss_pred             chhhHHHhhccccCEEEEEEecc
Q psy2401          85 GLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        85 ~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .+...++.. ..+|++++|+|+.
T Consensus        64 ~~~~~~~~~-~~~d~vi~v~d~~   85 (158)
T cd01879          64 KVARDFLLG-EKPDLIVNVVDAT   85 (158)
T ss_pred             HHHHHHhcC-CCCcEEEEEeeCC
Confidence            233344433 6899999999984

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.

>cd01865 Rab3 Rab3 subfamily

Probab=99.69  E-value=5.7e-16  Score=134.17  Aligned_cols=83  Identities=19%  Similarity=0.143  Sum_probs=56.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|++|||||||++++++........|..+.+.....+..++..               ..+.+|||||..+... 
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~l~Dt~g~~~~~~-   65 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKR---------------VKLQIWDTAGQERYRT-   65 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEE---------------EEEEEEECCChHHHHH-
Confidence            799999999999999999999875543333322222222233333322               6789999999653322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        66 ------~~~~~~~~~~~~l~v~d~~   84 (165)
T cd01865          66 ------ITTAYYRGAMGFILMYDIT   84 (165)
T ss_pred             ------HHHHHccCCcEEEEEEECC
Confidence                  2345578999999999984

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

>PRK00089 era GTPase Era; Reviewed

Probab=99.68  E-value=6e-16  Score=146.86  Aligned_cols=87  Identities=29%  Similarity=0.397  Sum_probs=68.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .|+++|+||||||||+|+|+|.. +.+++.|.+|.....+....++                 .++.++||||+......
T Consensus         7 ~V~iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~~~i~~i~~~~~-----------------~qi~~iDTPG~~~~~~~   69 (292)
T PRK00089          7 FVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRHRIRGIVTEDD-----------------AQIIFVDTPGIHKPKRA   69 (292)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCceeecCCCCCcccccEEEEEEcCC-----------------ceEEEEECCCCCCchhH
Confidence            58999999999999999999985 4578889999887777666544                 67999999998764432


Q ss_pred             -ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 -GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 -~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                       .+.+.......+..+|++++|+|++
T Consensus        70 l~~~~~~~~~~~~~~~D~il~vvd~~   95 (292)
T PRK00089         70 LNRAMNKAAWSSLKDVDLVLFVVDAD   95 (292)
T ss_pred             HHHHHHHHHHHHHhcCCEEEEEEeCC
Confidence             2223334456778999999999985

>PRK11058 GTPase HflX; Provisional

Probab=99.68  E-value=5.4e-16  Score=154.00  Aligned_cols=89  Identities=28%  Similarity=0.493  Sum_probs=71.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+|+|.||||||||||+|++....++++||+|.++..+.+.+++.                .++.+|||||+.+....
T Consensus       198 p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~----------------~~~~l~DTaG~~r~lp~  261 (426)
T PRK11058        198 PTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADV----------------GETVLADTVGFIRHLPH  261 (426)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCC----------------CeEEEEecCcccccCCH
Confidence            47999999999999999999998777899999999999999888763                36789999998653221


Q ss_pred             --ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 --GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 --~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                        .+.+ ...+..++.||++++|+|+++
T Consensus       262 ~lve~f-~~tl~~~~~ADlIL~VvDaS~  288 (426)
T PRK11058        262 DLVAAF-KATLQETRQATLLLHVVDAAD  288 (426)
T ss_pred             HHHHHH-HHHHHHhhcCCEEEEEEeCCC
Confidence              1111 234566789999999999964

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.68  E-value=3.7e-16  Score=156.61  Aligned_cols=90  Identities=27%  Similarity=0.316  Sum_probs=72.4

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      +.+|+++|+||||||||+|+|++.. +.++++|++|.++....+.+++                 .++.+|||||+.++.
T Consensus       215 ~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g-----------------~~i~l~DT~G~~~~~  277 (449)
T PRK05291        215 GLKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLDG-----------------IPLRLIDTAGIRETD  277 (449)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEECC-----------------eEEEEEeCCCCCCCc
Confidence            3689999999999999999999975 4688999999999999999887                 678999999986533


Q ss_pred             Ccccch-hhHHHhhccccCEEEEEEeccc
Q psy2401          81 SKGEGL-GNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        81 ~~~~~l-~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ...+.. ....+..++.+|++++|+|+++
T Consensus       278 ~~ie~~gi~~~~~~~~~aD~il~VvD~s~  306 (449)
T PRK05291        278 DEVEKIGIERSREAIEEADLVLLVLDASE  306 (449)
T ss_pred             cHHHHHHHHHHHHHHHhCCEEEEEecCCC
Confidence            221111 1235567899999999999953

>cd04142 RRP22 RRP22 subfamily

Probab=99.68  E-value=5.9e-16  Score=138.83  Aligned_cols=90  Identities=13%  Similarity=0.232  Sum_probs=61.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||++.+++........|.++.+.....+.+++..               ..+++|||||+..+...
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~---------------~~l~i~Dt~G~~~~~~~   65 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRV---------------YDLHILDVPNMQRYPGT   65 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEECCEE---------------EEEEEEeCCCcccCCcc
Confidence            489999999999999999999865544444544434333455666643               57889999998653321


Q ss_pred             -ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 -GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 -~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                       +..........++.+|++++|+|++
T Consensus        66 ~~~e~~~~~~~~~~~ad~iilv~D~~   91 (198)
T cd04142          66 AGQEWMDPRFRGLRNSRAFILVYDIC   91 (198)
T ss_pred             chhHHHHHHHhhhccCCEEEEEEECC
Confidence             1111122344578999999999985

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.

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.68  E-value=3e-16  Score=136.17  Aligned_cols=150  Identities=21%  Similarity=0.129  Sum_probs=95.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|++|||||||++++++........|..+.+.....+.+++..               ..+++|||||...... 
T Consensus         4 ~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~---------------~~l~l~D~~g~~~~~~-   67 (167)
T cd01867           4 FKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKK---------------IKLQIWDTAGQERFRT-   67 (167)
T ss_pred             eEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEE---------------EEEEEEeCCchHHHHH-
Confidence            689999999999999999999876554444443333334455555532               5789999999643222 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++++|++++|+|+.+.                                                     
T Consensus        68 ------~~~~~~~~ad~~i~v~d~~~~-----------------------------------------------------   88 (167)
T cd01867          68 ------ITTAYYRGAMGIILVYDITDE-----------------------------------------------------   88 (167)
T ss_pred             ------HHHHHhCCCCEEEEEEECcCH-----------------------------------------------------
Confidence                  223456899999999998421                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      ..++.+..|+..                +..+ .....|+++++||.|.........+...+++...+.+++++||+...
T Consensus        89 ~s~~~~~~~~~~----------------i~~~-~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  151 (167)
T cd01867          89 KSFENIRNWMRN----------------IEEH-ASEDVERMLVGNKCDMEEKRVVSKEEGEALADEYGIKFLETSAKANI  151 (167)
T ss_pred             HHHHhHHHHHHH----------------HHHh-CCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCC
Confidence            112222222221                1111 11467999999999974212223445556666667889999998543


Q ss_pred             HH
Q psy2401         243 EI  244 (363)
Q Consensus       243 ~i  244 (363)
                      ++
T Consensus       152 ~v  153 (167)
T cd01867         152 NV  153 (167)
T ss_pred             CH
Confidence            33

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

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

Probab=99.68  E-value=1.1e-15  Score=130.79  Aligned_cols=82  Identities=17%  Similarity=0.167  Sum_probs=55.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||+|++++.... ..++.++.+.....+.+++..               ..+++|||||...... 
T Consensus         2 ~ki~iiG~~~vGKTsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~-   64 (162)
T cd04138           2 YKLVVVGAGGVGKSALTIQLIQNHFV-DEYDPTIEDSYRKQVVIDGET---------------CLLDILDTAGQEEYSA-   64 (162)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCc-CCcCCcchheEEEEEEECCEE---------------EEEEEEECCCCcchHH-
Confidence            58999999999999999999986432 233333333233344555532               5688999999643222 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|..
T Consensus        65 ------l~~~~~~~~~~~i~v~~~~   83 (162)
T cd04138          65 ------MRDQYMRTGEGFLCVFAIN   83 (162)
T ss_pred             ------HHHHHHhcCCEEEEEEECC
Confidence                  2234567899999999984

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.

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.68  E-value=1.3e-15  Score=136.52  Aligned_cols=158  Identities=18%  Similarity=0.089  Sum_probs=97.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeC-CccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVP-DKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~-~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +||+++|.+|||||||++++++........|....+.....+.++ +..               ..+.+|||||......
T Consensus         1 ~KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~---------------~~l~l~Dt~G~~~~~~   65 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTV---------------VRLQLWDIAGQERFGG   65 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCE---------------EEEEEEECCCchhhhh
Confidence            589999999999999999999865433333433333334445555 332               6789999999743322


Q ss_pred             cccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHH
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIEL  161 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~  161 (363)
                             .....++++|++++|+|++..                                                    
T Consensus        66 -------~~~~~~~~a~~~ilv~D~t~~----------------------------------------------------   86 (201)
T cd04107          66 -------MTRVYYRGAVGAIIVFDVTRP----------------------------------------------------   86 (201)
T ss_pred             -------hHHHHhCCCCEEEEEEECCCH----------------------------------------------------
Confidence                   223456899999999998431                                                    


Q ss_pred             HHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCC-CcEEEeeHHH
Q psy2401         162 LKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQN-IPIIIICAKL  240 (363)
Q Consensus       162 ~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~-~~~i~~sa~~  240 (363)
                       +.++.+..|+..             ......+......|+++++||.|+........+++++++...+ .+++.+||+.
T Consensus        87 -~s~~~~~~~~~~-------------i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~  152 (201)
T cd04107          87 -STFEAVLKWKAD-------------LDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGWFETSAKE  152 (201)
T ss_pred             -HHHHHHHHHHHH-------------HHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCceEEEEeCCC
Confidence             111112222110             0000001112567999999999974112234556777777777 5899999996


Q ss_pred             HHHHhcCC
Q psy2401         241 EEEISDLN  248 (363)
Q Consensus       241 e~~i~el~  248 (363)
                      ..++.++.
T Consensus       153 ~~~v~e~f  160 (201)
T cd04107         153 GINIEEAM  160 (201)
T ss_pred             CCCHHHHH
Confidence            65555443

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.

>cd04175 Rap1 Rap1 subgroup

Probab=99.67  E-value=1.2e-15  Score=131.78  Aligned_cols=83  Identities=18%  Similarity=0.168  Sum_probs=57.7

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +.||+++|.+|||||||++++..... ..+++.++.+.....+.+++..               ..+++|||||......
T Consensus         1 ~~ki~~~G~~~~GKTsli~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~   64 (164)
T cd04175           1 EYKLVVLGSGGVGKSALTVQFVQGIF-VEKYDPTIEDSYRKQVEVDGQQ---------------CMLEILDTAGTEQFTA   64 (164)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhCCC-CcccCCcchheEEEEEEECCEE---------------EEEEEEECCCcccchh
Confidence            36899999999999999999986432 3445444443333445555532               5688999999754333


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                             .....++.+|++++|+|.+
T Consensus        65 -------~~~~~~~~~d~~ilv~d~~   83 (164)
T cd04175          65 -------MRDLYMKNGQGFVLVYSIT   83 (164)
T ss_pred             -------HHHHHHhhCCEEEEEEECC
Confidence                   2223558899999999984

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

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

Probab=99.67  E-value=1.3e-15  Score=129.57  Aligned_cols=89  Identities=27%  Similarity=0.314  Sum_probs=70.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      +++|+++|++|+|||||+|++++.. +..+++|++|.++..+.+.+.+                 ..+.+|||||+.+..
T Consensus         1 ~~~i~l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------~~~~i~DtpG~~~~~   63 (157)
T cd04164           1 GIKVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIGG-----------------IPVRLIDTAGIRETE   63 (157)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeCC-----------------EEEEEEECCCcCCCc
Confidence            5799999999999999999999875 4577889999888887777766                 578999999987654


Q ss_pred             Cccc-chhhHHHhhccccCEEEEEEecc
Q psy2401          81 SKGE-GLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~~~-~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .... ...+.....++.+|++++|+|++
T Consensus        64 ~~~~~~~~~~~~~~~~~~~~~v~v~d~~   91 (157)
T cd04164          64 DEIEKIGIERAREAIEEADLVLFVIDAS   91 (157)
T ss_pred             chHHHHHHHHHHHHHhhCCEEEEEEECC
Confidence            3211 11234556678999999999995

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.

>cd01866 Rab2 Rab2 subfamily

Probab=99.67  E-value=1.1e-15  Score=132.90  Aligned_cols=83  Identities=22%  Similarity=0.160  Sum_probs=60.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|++|||||||++++++........|..+.+.....+.+++..               ..+.+||+||..+.   
T Consensus         5 ~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~---   66 (168)
T cd01866           5 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQ---------------IKLQIWDTAGQESF---   66 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEE---------------EEEEEEECCCcHHH---
Confidence            689999999999999999999876544444444445555556666533               57899999995322   


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                          .......++.+|++++|+|+.
T Consensus        67 ----~~~~~~~~~~~d~il~v~d~~   87 (168)
T cd01866          67 ----RSITRSYYRGAAGALLVYDIT   87 (168)
T ss_pred             ----HHHHHHHhccCCEEEEEEECC
Confidence                223345668999999999984

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.67  E-value=1e-15  Score=131.50  Aligned_cols=83  Identities=27%  Similarity=0.206  Sum_probs=60.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|++|||||||++++++........|..+.+.....+.+++..               ..+.+||+||.....  
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~l~D~~G~~~~~--   63 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKR---------------VKLQIWDTAGQERFR--   63 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEE---------------EEEEEEECCChHHHH--
Confidence            589999999999999999999876655555655555555556665532               578999999954322  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           ......++.+|++++|+|+.
T Consensus        64 -----~~~~~~~~~~d~~ilv~d~~   83 (164)
T smart00175       64 -----SITSSYYRGAVGALLVYDIT   83 (164)
T ss_pred             -----HHHHHHhCCCCEEEEEEECC
Confidence                 12234458899999999984

Rab GTPases are implicated in vesicle trafficking.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.67  E-value=1.4e-15  Score=131.05  Aligned_cols=82  Identities=18%  Similarity=0.154  Sum_probs=55.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|++|||||||++++.+..... .++.++.+.....+.+++..               ..+.+|||||..+... 
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~---------------~~l~i~Dt~g~~~~~~-   63 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVD-DYDPTIEDSYRKQIEIDGEV---------------CLLDILDTAGQEEFSA-   63 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCc-ccCCchhhhEEEEEEECCEE---------------EEEEEEECCCcccchH-
Confidence            489999999999999999999864332 33333333333334444432               6789999999754322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        64 ------~~~~~~~~~~~~i~v~d~~   82 (164)
T smart00173       64 ------MRDQYMRTGEGFLLVYSIT   82 (164)
T ss_pred             ------HHHHHHhhCCEEEEEEECC
Confidence                  1223457899999999984

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

>cd01863 Rab18 Rab18 subfamily

Probab=99.66  E-value=2.1e-15  Score=129.63  Aligned_cols=83  Identities=24%  Similarity=0.195  Sum_probs=56.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|++|||||||+++|++........|..+.+.....+.+++..               ..+.+||+||...... 
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~l~D~~g~~~~~~-   64 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKK---------------VKLAIWDTAGQERFRT-   64 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEE---------------EEEEEEECCCchhhhh-
Confidence            489999999999999999999875443333322222223334444422               6789999999644322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        65 ------~~~~~~~~~d~~i~v~d~~   83 (161)
T cd01863          65 ------LTSSYYRGAQGVILVYDVT   83 (161)
T ss_pred             ------hhHHHhCCCCEEEEEEECC
Confidence                  2234458899999999984

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

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.66  E-value=9.8e-16  Score=152.93  Aligned_cols=89  Identities=35%  Similarity=0.458  Sum_probs=72.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      +.+|+++|+||||||||+|+|++. .+.++++|++|.++..+.+.+++                 .++.+|||||+.+..
T Consensus       203 g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~pgtTrd~~~~~i~~~g-----------------~~v~l~DTaG~~~~~  265 (442)
T TIGR00450       203 GFKLAIVGSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELNG-----------------ILIKLLDTAGIREHA  265 (442)
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcEEEEEEEEEEECC-----------------EEEEEeeCCCcccch
Confidence            479999999999999999999987 45789999999999999999988                 678999999986543


Q ss_pred             Ccccchh-hHHHhhccccCEEEEEEecc
Q psy2401          81 SKGEGLG-NKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~~~~l~-~~~l~~~~~aD~il~Vvda~  107 (363)
                      ...+..+ ......++.+|++++|+|++
T Consensus       266 ~~ie~~gi~~~~~~~~~aD~il~V~D~s  293 (442)
T TIGR00450       266 DFVERLGIEKSFKAIKQADLVIYVLDAS  293 (442)
T ss_pred             hHHHHHHHHHHHHHHhhCCEEEEEEECC
Confidence            3222121 24456779999999999985

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.

>cd04176 Rap2 Rap2 subgroup

Probab=99.66  E-value=2.3e-15  Score=129.71  Aligned_cols=82  Identities=23%  Similarity=0.175  Sum_probs=57.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||++.+........ ++.+..+.....+.+++..               ..+++|||||...+.. 
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~-~~~t~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~-   64 (163)
T cd04176           2 YKVVVLGSGGVGKSALTVQFVSGTFIEK-YDPTIEDFYRKEIEVDSSP---------------SVLEILDTAGTEQFAS-   64 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCC-CCCchhheEEEEEEECCEE---------------EEEEEEECCCcccccc-
Confidence            5899999999999999999987544322 3223323334456665532               5688999999755443 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                         +   ....++++|++++|+|++
T Consensus        65 ---~---~~~~~~~ad~~i~v~d~~   83 (163)
T cd04176          65 ---M---RDLYIKNGQGFIVVYSLV   83 (163)
T ss_pred             ---h---HHHHHhhCCEEEEEEECC
Confidence               1   223458899999999985

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

>cd04122 Rab14 Rab14 subfamily

Probab=99.66  E-value=4.1e-16  Score=135.10  Aligned_cols=152  Identities=20%  Similarity=0.223  Sum_probs=93.7

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCcee-ecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCT-IEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t-~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      .+||+++|++|||||||++++++.... ..+|.++ .+...-.+.+++..               ..+.+|||||.....
T Consensus         2 ~~ki~iiG~~~vGKTsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~   65 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQFTEKKFM-ADCPHTIGVEFGTRIIEVNGQK---------------IKLQIWDTAGQERFR   65 (166)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCC-CCCCcccceeEEEEEEEECCEE---------------EEEEEEECCCcHHHH
Confidence            479999999999999999999976443 2333222 11112234454432               678999999964322


Q ss_pred             CcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHH
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIE  160 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~  160 (363)
                      .       .....++++|++++|+|+++.                                                   
T Consensus        66 ~-------~~~~~~~~~~~~ilv~d~~~~---------------------------------------------------   87 (166)
T cd04122          66 A-------VTRSYYRGAAGALMVYDITRR---------------------------------------------------   87 (166)
T ss_pred             H-------HHHHHhcCCCEEEEEEECCCH---------------------------------------------------
Confidence            1       234566899999999998531                                                   


Q ss_pred             HHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHH
Q psy2401         161 LLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL  240 (363)
Q Consensus       161 ~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~  240 (363)
                        ..++.+..|+..                +..+ .....|+++++||.|.........+..++++.+.+.+++.+||+.
T Consensus        88 --~s~~~~~~~~~~----------------~~~~-~~~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~  148 (166)
T cd04122          88 --STYNHLSSWLTD----------------ARNL-TNPNTVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSAKT  148 (166)
T ss_pred             --HHHHHHHHHHHH----------------HHHh-CCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCEEEEEECCC
Confidence              111222222220                1101 114578999999999742112234566677777788999999995


Q ss_pred             HHHHhc
Q psy2401         241 EEEISD  246 (363)
Q Consensus       241 e~~i~e  246 (363)
                      .+++.+
T Consensus       149 ~~~i~e  154 (166)
T cd04122         149 GENVED  154 (166)
T ss_pred             CCCHHH
Confidence            544433

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

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.66  E-value=1.2e-15  Score=152.39  Aligned_cols=87  Identities=26%  Similarity=0.366  Sum_probs=71.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +|+++|+||||||||+|+|++.. +.++++|++|.+...+.+.+.+                 ..+.+|||||+......
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~~~-----------------~~~~liDTpG~~~~~~~   63 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWGG-----------------REFILIDTGGIEEDDDG   63 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceecCCCCcccCceEEEEEECC-----------------eEEEEEECCCCCCcchh
Confidence            58999999999999999999984 5688999999999999999988                 67999999998543221


Q ss_pred             -ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 -GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 -~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                       .+.+..+....++.+|++++|+|+.
T Consensus        64 ~~~~~~~~~~~~~~~ad~vl~vvD~~   89 (429)
T TIGR03594        64 LDKQIREQAEIAIEEADVILFVVDGR   89 (429)
T ss_pred             HHHHHHHHHHHHHhhCCEEEEEEeCC
Confidence             1233456677889999999999985

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.65  E-value=1.6e-15  Score=131.07  Aligned_cols=80  Identities=31%  Similarity=0.328  Sum_probs=59.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCcc----ccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCC
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKIS----AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~----~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      +|+++|++|||||||+++|++....    ....+.+|+..+.+.+.+++                 ..+.+|||||....
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-----------------~~~~l~Dt~G~~~~   63 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIGTIEVGN-----------------ARLKFWDLGGQESL   63 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceEEEEECC-----------------EEEEEEECCCChhh
Confidence            5899999999999999999875322    11223446666677777766                 78999999997543


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEecc
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ..       .....++.+|++++|+|++
T Consensus        64 ~~-------~~~~~~~~~~~~v~vvd~~   84 (167)
T cd04160          64 RS-------LWDKYYAECHAIIYVIDST   84 (167)
T ss_pred             HH-------HHHHHhCCCCEEEEEEECc
Confidence            22       3345578999999999984

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.

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.65  E-value=2e-15  Score=159.07  Aligned_cols=226  Identities=15%  Similarity=0.122  Sum_probs=155.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc---c---ccC------------CCceeecceeEEEEeCCcccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI---S---AEN------------YPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF   64 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~---~---~~~------------~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~   64 (363)
                      ++|+|+|++|+|||||+|+|.....   .   +.+            .+++|++.....+.+++                
T Consensus        11 rni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~----------------   74 (689)
T TIGR00484        11 RNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKG----------------   74 (689)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECC----------------
Confidence            5899999999999999999964211   1   111            35778888888888887                


Q ss_pred             ceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-h
Q psy2401          65 PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-Y  143 (363)
Q Consensus        65 ~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~  143 (363)
                       .++++|||||+.++..       .....++.+|++++|+|+.++..                .+++..+..+..... .
T Consensus        75 -~~i~liDTPG~~~~~~-------~~~~~l~~~D~~ilVvda~~g~~----------------~~~~~~~~~~~~~~~p~  130 (689)
T TIGR00484        75 -HRINIIDTPGHVDFTV-------EVERSLRVLDGAVAVLDAVGGVQ----------------PQSETVWRQANRYEVPR  130 (689)
T ss_pred             -eEEEEEECCCCcchhH-------HHHHHHHHhCEEEEEEeCCCCCC----------------hhHHHHHHHHHHcCCCE
Confidence             7899999999876432       45567789999999999964321                112333444443344 4


Q ss_pred             hhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEecc-cccc--CCCchHHH
Q psy2401         144 IDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFVAN-VKEN--GFKNNLLL  219 (363)
Q Consensus       144 ~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v~N-k~d~--~~~~~~~~  219 (363)
                      +..+||++..+    .+....++.+++.+.....+..+|++...  .+.++ +++..++..|-.. ..+.  ...+.+..
T Consensus       131 ivviNK~D~~~----~~~~~~~~~i~~~l~~~~~~~~ipis~~~--~~~~~id~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (689)
T TIGR00484       131 IAFVNKMDKTG----ANFLRVVNQIKQRLGANAVPIQLPIGAED--NFIGVIDLVEMKAYFFNGDKGTKAIEKEIPSDLL  204 (689)
T ss_pred             EEEEECCCCCC----CCHHHHHHHHHHHhCCCceeEEeccccCC--CceEEEECccceEEecccCCCceeeeccCCHHHH
Confidence            57788886543    23456778888888765555566777554  35554 5666666655321 1111  01234445


Q ss_pred             HHHHHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeC
Q psy2401         220 DQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTV  285 (363)
Q Consensus       220 ~~i~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~  285 (363)
                      +.+.++           .-++.+.+++.+++++++||++..++.+.+...+++......++|+|-.
T Consensus       205 ~~~~~~-----------~~~l~e~v~e~dd~lle~yle~~~~~~~~l~~~l~~~~~~~~~~PV~~g  259 (689)
T TIGR00484       205 EQAKEL-----------RENLVEAVAEFDEELMEKYLEGEELTIEEIKNAIRKGVLNCEFFPVLCG  259 (689)
T ss_pred             HHHHHH-----------HHHHHHHHHhcCHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCEEEEEec
Confidence            555554           5567788999999999999998888888898889988888999999965

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.

>cd04109 Rab28 Rab28 subfamily

Probab=99.65  E-value=1.1e-15  Score=138.66  Aligned_cols=84  Identities=18%  Similarity=0.178  Sum_probs=60.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++.+++........|+.+.+.....+.+++..              ...+++|||||...+.. 
T Consensus         1 ~Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~--------------~~~~~i~Dt~G~~~~~~-   65 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNL--------------NVTLQVWDIGGQSIGGK-   65 (215)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCC--------------EEEEEEEECCCcHHHHH-
Confidence            589999999999999999999876554445555555555556665421              16799999999543221 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        66 ------l~~~~~~~ad~iilV~D~t   84 (215)
T cd04109          66 ------MLDKYIYGAHAVFLVYDVT   84 (215)
T ss_pred             ------HHHHHhhcCCEEEEEEECC
Confidence                  2224468999999999985

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

>cd01894 EngA1 EngA1 subfamily

Probab=99.65  E-value=2e-15  Score=128.54  Aligned_cols=85  Identities=28%  Similarity=0.380  Sum_probs=66.8

Q ss_pred             EEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC-cc
Q psy2401           6 GLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS-KG   83 (363)
Q Consensus         6 ~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~-~~   83 (363)
                      +++|.+|||||||+|+|++.. ...+++|++|.+.....+.+.+                 ..+.+|||||+..... ..
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~-----------------~~~~i~DtpG~~~~~~~~~   63 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTPGVTRDRIYGEAEWGG-----------------REFILIDTGGIEPDDEGIS   63 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecCCCCceeCceeEEEEECC-----------------eEEEEEECCCCCCchhHHH
Confidence            589999999999999999874 4467888889888877777766                 6789999999876543 12


Q ss_pred             cchhhHHHhhccccCEEEEEEecc
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ..+.+.+...++.+|++++|+|+.
T Consensus        64 ~~~~~~~~~~~~~~d~ii~v~d~~   87 (157)
T cd01894          64 KEIREQAELAIEEADVILFVVDGR   87 (157)
T ss_pred             HHHHHHHHHHHHhCCEEEEEEecc
Confidence            223345556778999999999984

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.

>cd04127 Rab27A Rab27a subfamily

Probab=99.65  E-value=1.8e-15  Score=132.65  Aligned_cols=162  Identities=14%  Similarity=0.079  Sum_probs=93.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|++|||||||++++++........|....+.....+.+.......   .  ........+.+|||||.....  
T Consensus         5 ~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~---~--~~~~~~~~~~i~Dt~G~~~~~--   77 (180)
T cd04127           5 IKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGG---T--LGRGQRIHLQLWDTAGQERFR--   77 (180)
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccc---c--ccCCCEEEEEEEeCCChHHHH--
Confidence            689999999999999999999865443333322223333334333210000   0  000112578999999954321  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                           ......++++|++++|+|+.+.                                                     
T Consensus        78 -----~~~~~~~~~~~~~i~v~d~~~~-----------------------------------------------------   99 (180)
T cd04127          78 -----SLTTAFFRDAMGFLLIFDLTNE-----------------------------------------------------   99 (180)
T ss_pred             -----HHHHHHhCCCCEEEEEEECCCH-----------------------------------------------------
Confidence                 1233456899999999998421                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      +.+..+..|+..                +.........|+++|+||.|.........+..++++...+.+++++||+...
T Consensus       100 ~s~~~~~~~~~~----------------i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~  163 (180)
T cd04127         100 QSFLNVRNWMSQ----------------LQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKALADKYGIPYFETSAATGT  163 (180)
T ss_pred             HHHHHHHHHHHH----------------HHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHHHHHcCCeEEEEeCCCCC
Confidence            112222222221                1111112356899999999963211222345667777778899999999544


Q ss_pred             HHh
Q psy2401         243 EIS  245 (363)
Q Consensus       243 ~i~  245 (363)
                      ++.
T Consensus       164 ~v~  166 (180)
T cd04127         164 NVE  166 (180)
T ss_pred             CHH
Confidence            433

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

>cd04112 Rab26 Rab26 subfamily

Probab=99.65  E-value=2.3e-15  Score=133.91  Aligned_cols=83  Identities=18%  Similarity=0.161  Sum_probs=58.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceee-cceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTI-EPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~-~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .||+++|.+|||||||++.+++.......++.++. +.....+.+++..               .++++|||||......
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~   65 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVK---------------VKLQIWDTAGQERFRS   65 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEE---------------EEEEEEeCCCcHHHHH
Confidence            48999999999999999999987665544443332 2222345565543               6799999999533211


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                             .....++.+|++++|+|+.
T Consensus        66 -------~~~~~~~~ad~~i~v~D~~   84 (191)
T cd04112          66 -------VTHAYYRDAHALLLLYDIT   84 (191)
T ss_pred             -------hhHHHccCCCEEEEEEECC
Confidence                   2234568899999999984

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.

>cd04113 Rab4 Rab4 subfamily

Probab=99.65  E-value=1.6e-15  Score=130.40  Aligned_cols=83  Identities=24%  Similarity=0.202  Sum_probs=59.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|++|||||||+++|++........|..+.+.....+.+++..               ..+++||+||...... 
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~l~l~D~~G~~~~~~-   64 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKR---------------VKLQIWDTAGQERFRS-   64 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEE---------------EEEEEEECcchHHHHH-
Confidence            589999999999999999999875544444444444444455555532               5789999999643322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        65 ------~~~~~~~~~~~~i~v~d~~   83 (161)
T cd04113          65 ------VTRSYYRGAAGALLVYDIT   83 (161)
T ss_pred             ------hHHHHhcCCCEEEEEEECC
Confidence                  2234568899999999985

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

>cd04124 RabL2 RabL2 subfamily

Probab=99.65  E-value=5.5e-15  Score=127.65  Aligned_cols=83  Identities=17%  Similarity=0.131  Sum_probs=54.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||++++.+........|..........+.+++..               ..+++|||||...+.. 
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~-   64 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKT---------------ILVDFWDTAGQERFQT-   64 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEE---------------EEEEEEeCCCchhhhh-
Confidence            489999999999999999998764432222211111111223333322               6789999999654332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        65 ------~~~~~~~~~d~~i~v~d~~   83 (161)
T cd04124          65 ------MHASYYHKAHACILVFDVT   83 (161)
T ss_pred             ------hhHHHhCCCCEEEEEEECC
Confidence                  2234568999999999984

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

>cd01864 Rab19 Rab19 subfamily

Probab=99.64  E-value=3.1e-15  Score=129.34  Aligned_cols=83  Identities=22%  Similarity=0.183  Sum_probs=56.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|++|||||||++++.+........+..+.+.....+.+++..               ..+.+|||||.....  
T Consensus         4 ~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~l~i~D~~G~~~~~--   66 (165)
T cd01864           4 FKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKR---------------VKLQIWDTAGQERFR--   66 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEE---------------EEEEEEECCChHHHH--
Confidence            689999999999999999998754332222222223333445555532               578999999954321  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           ......++.+|++++|+|+.
T Consensus        67 -----~~~~~~~~~~d~~llv~d~~   86 (165)
T cd01864          67 -----TITQSYYRSANGAIIAYDIT   86 (165)
T ss_pred             -----HHHHHHhccCCEEEEEEECc
Confidence                 12334568899999999984

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.

>cd01895 EngA2 EngA2 subfamily

Probab=99.64  E-value=9.2e-15  Score=126.09  Aligned_cols=89  Identities=28%  Similarity=0.349  Sum_probs=68.7

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      +++|+++|.+|+|||||+|+|++.. ...++.|++|.......+...+                 ..+.+|||||+....
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------~~~~iiDtpG~~~~~   64 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDG-----------------KKYTLIDTAGIRRKG   64 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEECC-----------------eeEEEEECCCCcccc
Confidence            4789999999999999999999874 4567788888887777777766                 568899999987654


Q ss_pred             Ccccchh----hHHHhhccccCEEEEEEecc
Q psy2401          81 SKGEGLG----NKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~~~~l~----~~~l~~~~~aD~il~Vvda~  107 (363)
                      +....+.    ...+..++.+|++++|+|+.
T Consensus        65 ~~~~~~e~~~~~~~~~~~~~~d~vi~v~d~~   95 (174)
T cd01895          65 KVEEGIEKYSVLRTLKAIERADVVLLVIDAT   95 (174)
T ss_pred             chhccHHHHHHHHHHHHHhhcCeEEEEEeCC
Confidence            3322221    23345678999999999985

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.64  E-value=4.2e-15  Score=150.18  Aligned_cols=184  Identities=18%  Similarity=0.223  Sum_probs=121.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      ++|+++|+||||||||+|+|++.. ..++++|++|.++....+.+++                 .++.+|||||+.+...
T Consensus       212 ~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~-----------------~~~~l~DTaG~~~~~~  274 (472)
T PRK03003        212 RRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGG-----------------KTWRFVDTAGLRRRVK  274 (472)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECC-----------------EEEEEEECCCcccccc
Confidence            689999999999999999999984 4688999999999988888887                 5678999999865332


Q ss_pred             cccch--hh--HHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCch
Q psy2401          82 KGEGL--GN--KFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEH  157 (363)
Q Consensus        82 ~~~~l--~~--~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~  157 (363)
                      ...+.  ..  .....++.+|++++|+|+++...            .                                 
T Consensus       275 ~~~~~e~~~~~~~~~~i~~ad~vilV~Da~~~~s------------~---------------------------------  309 (472)
T PRK03003        275 QASGHEYYASLRTHAAIEAAEVAVVLIDASEPIS------------E---------------------------------  309 (472)
T ss_pred             ccchHHHHHHHHHHHHHhcCCEEEEEEeCCCCCC------------H---------------------------------
Confidence            21111  01  11245689999999999953210            0                                 


Q ss_pred             hHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchH---HHHHHHHHHhc-CCCcE
Q psy2401         158 SIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNL---LLDQLKIYAHN-QNIPI  233 (363)
Q Consensus       158 ~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~---~~~~i~~~~~~-~~~~~  233 (363)
                                                  .+...+..+ ....+|+++|+||.|+.. .+.   ..+.+.+.+.. ...++
T Consensus       310 ----------------------------~~~~~~~~~-~~~~~piIiV~NK~Dl~~-~~~~~~~~~~i~~~l~~~~~~~~  359 (472)
T PRK03003        310 ----------------------------QDQRVLSMV-IEAGRALVLAFNKWDLVD-EDRRYYLEREIDRELAQVPWAPR  359 (472)
T ss_pred             ----------------------------HHHHHHHHH-HHcCCCEEEEEECcccCC-hhHHHHHHHHHHHhcccCCCCCE
Confidence                                        000001101 114689999999999631 111   12233333322 23688


Q ss_pred             EEeeHHHHHHHhcCCHHHHHHHHh-hcCCCchhHHHHHHHHHHhCC
Q psy2401         234 IIICAKLEEEISDLNNIDKKFFLD-NLGLKETKLNDLIRASFSLLD  278 (363)
Q Consensus       234 i~~sa~~e~~i~el~~~~~~~~l~-~~~l~~~~l~~l~~~~~~~l~  278 (363)
                      +++||+...++.++.+...+.+-. ..-++.+.|++.++.+...-.
T Consensus       360 ~~~SAk~g~gv~~lf~~i~~~~~~~~~~i~t~~ln~~~~~~~~~~~  405 (472)
T PRK03003        360 VNISAKTGRAVDKLVPALETALESWDTRIPTGRLNAWLGELVAATP  405 (472)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHcCC
Confidence            999999999988876544433211 124456778888887775543

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.63  E-value=5.4e-15  Score=147.66  Aligned_cols=181  Identities=24%  Similarity=0.292  Sum_probs=119.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+++++|.+|+|||||+|+|++.. ..+++.|++|.++....+.+++                 ..+.+|||||+.+...
T Consensus       173 ~~v~ivG~~~~GKSsLin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~-----------------~~~~liDT~G~~~~~~  235 (429)
T TIGR03594       173 IKIAIIGRPNVGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFERNG-----------------KKYLLIDTAGIRRKGK  235 (429)
T ss_pred             eEEEEECCCCCCHHHHHHHHHCCCeeecCCCCCceECcEeEEEEECC-----------------cEEEEEECCCcccccc
Confidence            689999999999999999999874 5678999999999888888877                 5689999999976554


Q ss_pred             cccchh----hHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCch
Q psy2401          82 KGEGLG----NKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEH  157 (363)
Q Consensus        82 ~~~~l~----~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~  157 (363)
                      ....+.    .+.+..++.+|++++|+|+.++            ..                                  
T Consensus       236 ~~~~~e~~~~~~~~~~~~~ad~~ilV~D~~~~------------~~----------------------------------  269 (429)
T TIGR03594       236 VTEGVEKYSVLRTLKAIERADVVLLVLDATEG------------IT----------------------------------  269 (429)
T ss_pred             chhhHHHHHHHHHHHHHHhCCEEEEEEECCCC------------cc----------------------------------
Confidence            332221    2345678999999999998532            10                                  


Q ss_pred             hHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHh----c-CCCc
Q psy2401         158 SIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAH----N-QNIP  232 (363)
Q Consensus       158 ~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~----~-~~~~  232 (363)
                                                 ..+...++.. ....+|+++++||.|.. ...+..+.+.+.+.    . ...+
T Consensus       270 ---------------------------~~~~~~~~~~-~~~~~~iiiv~NK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~  320 (429)
T TIGR03594       270 ---------------------------EQDLRIAGLI-LEAGKALVIVVNKWDLV-KDEKTREEFKKELRRKLPFLDFAP  320 (429)
T ss_pred             ---------------------------HHHHHHHHHH-HHcCCcEEEEEECcccC-CCHHHHHHHHHHHHHhcccCCCCc
Confidence                                       0000011101 11468999999999964 12333333433332    2 2468


Q ss_pred             EEEeeHHHHHHHhcCCHHHHHHHHh-hcCCCchhHHHHHHHHHH
Q psy2401         233 IIIICAKLEEEISDLNNIDKKFFLD-NLGLKETKLNDLIRASFS  275 (363)
Q Consensus       233 ~i~~sa~~e~~i~el~~~~~~~~l~-~~~l~~~~l~~l~~~~~~  275 (363)
                      ++++||+...++.++.+...+.|-. ...++...+.+.++.+..
T Consensus       321 vi~~SA~~g~~v~~l~~~i~~~~~~~~~~i~t~~ln~~l~~~~~  364 (429)
T TIGR03594       321 IVFISALTGQGVDKLLDAIDEVYENANRRISTSKLNRVLEEAVA  364 (429)
T ss_pred             eEEEeCCCCCCHHHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHH
Confidence            9999999988887775544333221 122344566777775543

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.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.63  E-value=6.1e-15  Score=126.68  Aligned_cols=83  Identities=22%  Similarity=0.142  Sum_probs=55.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeC--CccccccccccccccccceeEEEEeeecccCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVP--DKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~--~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      +||+++|.+|+|||||++++++........|....+.....+.+.  +..               ..+++|||||.....
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~---------------~~~~i~D~~G~~~~~   65 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDED---------------VRLMLWDTAGQEEFD   65 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCE---------------EEEEEeeCCchHHHH
Confidence            589999999999999999999864433323333333323334443  221               679999999964322


Q ss_pred             CcccchhhHHHhhccccCEEEEEEecc
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .       .....++.+|++++|+|+.
T Consensus        66 ~-------~~~~~~~~~~~~v~v~d~~   85 (162)
T cd04106          66 A-------ITKAYYRGAQACILVFSTT   85 (162)
T ss_pred             H-------hHHHHhcCCCEEEEEEECC
Confidence            1       2334568999999999984

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

>cd01862 Rab7 Rab7 subfamily

Probab=99.63  E-value=6.1e-15  Score=127.82  Aligned_cols=83  Identities=24%  Similarity=0.208  Sum_probs=57.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|++|||||||++++++........+..+.++....+.+++..               .++++||+||...... 
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~~~D~~g~~~~~~-   64 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKL---------------VTLQIWDTAGQERFQS-   64 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEE---------------EEEEEEeCCChHHHHh-
Confidence            489999999999999999999875433322322323333345555532               6788999999643222 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        65 ------~~~~~~~~~d~~i~v~d~~   83 (172)
T cd01862          65 ------LGVAFYRGADCCVLVYDVT   83 (172)
T ss_pred             ------HHHHHhcCCCEEEEEEECC
Confidence                  2235568899999999984

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-

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.63  E-value=3.2e-15  Score=151.01  Aligned_cols=89  Identities=24%  Similarity=0.257  Sum_probs=71.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+|+|+|.||||||||+|+|++.. +.+++.|++|.+...+.+.+.+                 ..+.+|||||+.....
T Consensus        39 ~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~-----------------~~~~l~DT~G~~~~~~  101 (472)
T PRK03003         39 PVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNG-----------------RRFTVVDTGGWEPDAK  101 (472)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECC-----------------cEEEEEeCCCcCCcch
Confidence            589999999999999999999874 5678999999998888888887                 5689999999863222


Q ss_pred             c-ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          82 K-GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        82 ~-~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      . ...+..+...+++.||++|+|+|++.
T Consensus       102 ~~~~~~~~~~~~~~~~aD~il~VvD~~~  129 (472)
T PRK03003        102 GLQASVAEQAEVAMRTADAVLFVVDATV  129 (472)
T ss_pred             hHHHHHHHHHHHHHHhCCEEEEEEECCC
Confidence            1 11233345567889999999999953

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.63  E-value=6.9e-15  Score=126.48  Aligned_cols=83  Identities=22%  Similarity=0.129  Sum_probs=56.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|++|||||||+|++++........|..........+.+++..               ..+.+||+||..+... 
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~---------------~~~~i~D~~G~~~~~~-   65 (163)
T cd01860           2 FKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTT---------------VKFEIWDTAGQERYRS-   65 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEE---------------EEEEEEeCCchHHHHH-
Confidence            689999999999999999999875443222322222223345555532               6789999999543221 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        66 ------~~~~~~~~~~~~i~v~d~~   84 (163)
T cd01860          66 ------LAPMYYRGAAAAIVVYDIT   84 (163)
T ss_pred             ------HHHHHhccCCEEEEEEECc
Confidence                  1223568899999999984

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

>cd04121 Rab40 Rab40 subfamily

Probab=99.63  E-value=2.8e-15  Score=133.49  Aligned_cols=153  Identities=20%  Similarity=0.161  Sum_probs=99.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||+.++..........|..+.+...-.+.+++..               ..+++|||||...... 
T Consensus         7 ~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~---------------~~l~iwDt~G~~~~~~-   70 (189)
T cd04121           7 LKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRR---------------VKLQLWDTSGQGRFCT-   70 (189)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEE---------------EEEEEEeCCCcHHHHH-
Confidence            689999999999999999999754332111222333333445555543               6799999999754332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++.+|++++|+|.+..                                                     
T Consensus        71 ------l~~~~~~~ad~illVfD~t~~-----------------------------------------------------   91 (189)
T cd04121          71 ------IFRSYSRGAQGIILVYDITNR-----------------------------------------------------   91 (189)
T ss_pred             ------HHHHHhcCCCEEEEEEECcCH-----------------------------------------------------
Confidence                  223456899999999998531                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      ..++.++.|+++                +...  ....|+++++||.|+........+.+++++...+.+++.+||+...
T Consensus        92 ~Sf~~~~~w~~~----------------i~~~--~~~~piilVGNK~DL~~~~~v~~~~~~~~a~~~~~~~~e~SAk~g~  153 (189)
T cd04121          92 WSFDGIDRWIKE----------------IDEH--APGVPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNF  153 (189)
T ss_pred             HHHHHHHHHHHH----------------HHHh--CCCCCEEEEEECccchhccCCCHHHHHHHHHHcCCEEEEecCCCCC
Confidence            223333334331                1111  1357999999999964211223556778887788899999999665


Q ss_pred             HHhcCC
Q psy2401         243 EISDLN  248 (363)
Q Consensus       243 ~i~el~  248 (363)
                      ++.++.
T Consensus       154 ~V~~~F  159 (189)
T cd04121         154 NITESF  159 (189)
T ss_pred             CHHHHH
Confidence            555543

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

>cd04120 Rab12 Rab12 subfamily

Probab=99.63  E-value=3.6e-15  Score=134.13  Aligned_cols=163  Identities=17%  Similarity=0.116  Sum_probs=102.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||++.+..........|..+.+.....+.+++..               ..+++|||+|...+.. 
T Consensus         1 ~~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~---------------v~l~iwDtaGqe~~~~-   64 (202)
T cd04120           1 LQVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKK---------------IRLQIWDTAGQERFNS-   64 (202)
T ss_pred             CEEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEE---------------EEEEEEeCCCchhhHH-
Confidence            479999999999999999998765443223333344444556776643               6899999999754332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++++|++++|+|+++.                                                     
T Consensus        65 ------l~~~y~~~ad~iIlVfDvtd~-----------------------------------------------------   85 (202)
T cd04120          65 ------ITSAYYRSAKGIILVYDITKK-----------------------------------------------------   85 (202)
T ss_pred             ------HHHHHhcCCCEEEEEEECcCH-----------------------------------------------------
Confidence                  223556899999999998531                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcC-CCcEEEeeHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQ-NIPIIIICAKLE  241 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~-~~~~i~~sa~~e  241 (363)
                      +.++.+..|+.                .++.. .....|+++++||.|+........+..++++.+. +..++.+||+..
T Consensus        86 ~Sf~~l~~w~~----------------~i~~~-~~~~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~~etSAktg  148 (202)
T cd04120          86 ETFDDLPKWMK----------------MIDKY-ASEDAELLLVGNKLDCETDREISRQQGEKFAQQITGMRFCEASAKDN  148 (202)
T ss_pred             HHHHHHHHHHH----------------HHHHh-CCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCEEEEecCCCC
Confidence            12222222222                11111 1245799999999996421122233445555543 678999999977


Q ss_pred             HHHhcCCHHHHHHHHh
Q psy2401         242 EEISDLNNIDKKFFLD  257 (363)
Q Consensus       242 ~~i~el~~~~~~~~l~  257 (363)
                      .++.++........+.
T Consensus       149 ~gV~e~F~~l~~~~~~  164 (202)
T cd04120         149 FNVDEIFLKLVDDILK  164 (202)
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            7766665444444333

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

>PLN03118 Rab family protein; Provisional

Probab=99.63  E-value=5.4e-15  Score=133.65  Aligned_cols=83  Identities=24%  Similarity=0.235  Sum_probs=56.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+||+++|++|||||||+++|++.... ...|..+.+.....+.+++..               ..+.+|||||...+..
T Consensus        14 ~~kv~ivG~~~vGKTsli~~l~~~~~~-~~~~t~~~~~~~~~~~~~~~~---------------~~l~l~Dt~G~~~~~~   77 (211)
T PLN03118         14 SFKILLIGDSGVGKSSLLVSFISSSVE-DLAPTIGVDFKIKQLTVGGKR---------------LKLTIWDTAGQERFRT   77 (211)
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCCCC-CcCCCceeEEEEEEEEECCEE---------------EEEEEEECCCchhhHH
Confidence            379999999999999999999986432 112222222223344555432               5789999999754432


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                             .....++.+|++++|+|++
T Consensus        78 -------~~~~~~~~~d~~vlv~D~~   96 (211)
T PLN03118         78 -------LTSSYYRNAQGIILVYDVT   96 (211)
T ss_pred             -------HHHHHHhcCCEEEEEEECC
Confidence                   2234568899999999985

>cd04123 Rab21 Rab21 subfamily

Probab=99.62  E-value=8e-15  Score=125.43  Aligned_cols=83  Identities=22%  Similarity=0.193  Sum_probs=56.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|++|+|||||+|++.+........+.++.......+.+.+..               ..+.+||+||...... 
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~D~~g~~~~~~-   64 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKR---------------IDLAIWDTAGQERYHA-   64 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEECCEE---------------EEEEEEECCchHHHHH-
Confidence            489999999999999999999865443333333333333445544422               5789999999643222 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                         +..   ..++.+|++++|+|++
T Consensus        65 ---~~~---~~~~~~~~~i~v~d~~   83 (162)
T cd04123          65 ---LGP---IYYRDADGAILVYDIT   83 (162)
T ss_pred             ---hhH---HHhccCCEEEEEEECC
Confidence               112   2347899999999985

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

>cd04158 ARD1 ARD1 subfamily

Probab=99.62  E-value=2.9e-15  Score=130.50  Aligned_cols=77  Identities=21%  Similarity=0.268  Sum_probs=56.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      ||+++|.+|||||||++++++.... .  +..|..+....+.+.+                 .++.+|||||......  
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~-~--~~~T~~~~~~~~~~~~-----------------~~i~l~Dt~G~~~~~~--   58 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFM-Q--PIPTIGFNVETVEYKN-----------------LKFTIWDVGGKHKLRP--   58 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCC-C--cCCcCceeEEEEEECC-----------------EEEEEEECCCChhcch--
Confidence            6899999999999999999986321 2  2334445555555544                 7899999999754322  


Q ss_pred             cchhhHHHhhccccCEEEEEEecc
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           .....++.+|++++|+|++
T Consensus        59 -----~~~~~~~~ad~ii~V~D~s   77 (169)
T cd04158          59 -----LWKHYYLNTQAVVFVVDSS   77 (169)
T ss_pred             -----HHHHHhccCCEEEEEEeCC
Confidence                 3345668999999999985

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

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.62  E-value=9.6e-15  Score=146.18  Aligned_cols=180  Identities=22%  Similarity=0.274  Sum_probs=117.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+|+++|+||+|||||+|+|++. ...+++.|++|.+.....+.+.+                 ..+.+|||||+.+..+
T Consensus       174 ~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~~-----------------~~~~lvDT~G~~~~~~  236 (435)
T PRK00093        174 IKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERDG-----------------QKYTLIDTAGIRRKGK  236 (435)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEECC-----------------eeEEEEECCCCCCCcc
Confidence            68999999999999999999987 46788999999988777777766                 5689999999876554


Q ss_pred             cccchh----hHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCch
Q psy2401          82 KGEGLG----NKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEH  157 (363)
Q Consensus        82 ~~~~l~----~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~  157 (363)
                      ....+.    ...+..++.+|++++|+|+..+.            .                                  
T Consensus       237 ~~~~~e~~~~~~~~~~~~~ad~~ilViD~~~~~------------~----------------------------------  270 (435)
T PRK00093        237 VTEGVEKYSVIRTLKAIERADVVLLVIDATEGI------------T----------------------------------  270 (435)
T ss_pred             hhhHHHHHHHHHHHHHHHHCCEEEEEEeCCCCC------------C----------------------------------
Confidence            433221    23456788999999999995321            0                                  


Q ss_pred             hHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHh----c-CCCc
Q psy2401         158 SIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAH----N-QNIP  232 (363)
Q Consensus       158 ~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~----~-~~~~  232 (363)
                                                 ..+...+. +.....+|+++++||.|..  ..+..+.+.+.+.    . ...+
T Consensus       271 ---------------------------~~~~~i~~-~~~~~~~~~ivv~NK~Dl~--~~~~~~~~~~~~~~~l~~~~~~~  320 (435)
T PRK00093        271 ---------------------------EQDLRIAG-LALEAGRALVIVVNKWDLV--DEKTMEEFKKELRRRLPFLDYAP  320 (435)
T ss_pred             ---------------------------HHHHHHHH-HHHHcCCcEEEEEECccCC--CHHHHHHHHHHHHHhcccccCCC
Confidence                                       00000010 1011468999999999964  2222333332222    1 2468


Q ss_pred             EEEeeHHHHHHHhcCCHHHHHHHHhh-cCCCchhHHHHHHHHHH
Q psy2401         233 IIIICAKLEEEISDLNNIDKKFFLDN-LGLKETKLNDLIRASFS  275 (363)
Q Consensus       233 ~i~~sa~~e~~i~el~~~~~~~~l~~-~~l~~~~l~~l~~~~~~  275 (363)
                      ++++||+...++.++.+...+-|-+. .-+....+.+.++.+..
T Consensus       321 i~~~SA~~~~gv~~l~~~i~~~~~~~~~~i~t~~ln~~l~~~~~  364 (435)
T PRK00093        321 IVFISALTGQGVDKLLEAIDEAYENANRRISTSVLNRVLEEAVE  364 (435)
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHHHHHcCcCChHHHHHHHHHHHH
Confidence            99999998888877654433222111 12334566777775543

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.62  E-value=6.8e-15  Score=129.29  Aligned_cols=86  Identities=30%  Similarity=0.291  Sum_probs=65.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC--ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK--ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~--~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      .-|+++|++|||||||+|+|++++  +++|..||.|..++.-.  +.+                  .+.++|+||+.--.
T Consensus        25 ~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~--~~~------------------~~~lVDlPGYGyAk   84 (200)
T COG0218          25 PEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFE--VDD------------------ELRLVDLPGYGYAK   84 (200)
T ss_pred             cEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEE--ecC------------------cEEEEeCCCccccc
Confidence            469999999999999999999986  89999999999988544  333                  37899999986321


Q ss_pred             ------CcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          81 ------SKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        81 ------~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                            ..+..+..+++..-.+-.++++++|+.+
T Consensus        85 v~k~~~e~w~~~i~~YL~~R~~L~~vvlliD~r~  118 (200)
T COG0218          85 VPKEVKEKWKKLIEEYLEKRANLKGVVLLIDARH  118 (200)
T ss_pred             CCHHHHHHHHHHHHHHHhhchhheEEEEEEECCC
Confidence                  1122333455555455788999999854

>cd00154 Rab Rab family

Probab=99.62  E-value=8.9e-15  Score=123.96  Aligned_cols=83  Identities=22%  Similarity=0.165  Sum_probs=59.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|++|||||||+|++++........|..+.+.....+..++..               ..+.+||+||.....  
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~l~D~~g~~~~~--   63 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKT---------------VKLQIWDTAGQERFR--   63 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEE---------------EEEEEEecCChHHHH--
Confidence            489999999999999999999876665555544444444445544322               678999999974322  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           ......++++|++++|+|+.
T Consensus        64 -----~~~~~~~~~~d~ii~v~d~~   83 (159)
T cd00154          64 -----SITPSYYRGAHGAILVYDIT   83 (159)
T ss_pred             -----HHHHHHhcCCCEEEEEEECC
Confidence                 23345568899999999985

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

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.62  E-value=5.9e-15  Score=147.71  Aligned_cols=89  Identities=26%  Similarity=0.323  Sum_probs=72.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+|+++|.||||||||+|+|++.. +.++++|++|.+...+.+.+.+                 ..+.+|||||+.....
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~~-----------------~~~~liDT~G~~~~~~   64 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLG-----------------REFILIDTGGIEPDDD   64 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeCCCCCCcccceEEEEEECC-----------------cEEEEEECCCCCCcch
Confidence            689999999999999999999984 4688999999999999999988                 6799999999976222


Q ss_pred             -cccchhhHHHhhccccCEEEEEEeccc
Q psy2401          82 -KGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        82 -~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                       ....+..+...+++.+|++++|+|+.+
T Consensus        65 ~~~~~~~~~~~~~~~~ad~il~vvd~~~   92 (435)
T PRK00093         65 GFEKQIREQAELAIEEADVILFVVDGRA   92 (435)
T ss_pred             hHHHHHHHHHHHHHHhCCEEEEEEECCC
Confidence             112233455677899999999999853

>cd04117 Rab15 Rab15 subfamily

Probab=99.61  E-value=1.4e-14  Score=125.16  Aligned_cols=83  Identities=20%  Similarity=0.193  Sum_probs=57.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|++|||||||++.+++........|....+.....+.+++.+               ..+++||+||...... 
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~l~i~D~~g~~~~~~-   64 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIK---------------VRIQIWDTAGQERYQT-   64 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEE---------------EEEEEEeCCCcHhHHh-
Confidence            489999999999999999999765543333433323333445555533               6789999999654322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|..
T Consensus        65 ------~~~~~~~~~~~~i~v~d~~   83 (161)
T cd04117          65 ------ITKQYYRRAQGIFLVYDIS   83 (161)
T ss_pred             ------hHHHHhcCCcEEEEEEECC
Confidence                  2234568999999999984

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.61  E-value=1.2e-14  Score=126.60  Aligned_cols=84  Identities=20%  Similarity=0.190  Sum_probs=57.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+++|++|||||||++++++........|....+.....+.+++..               ..+++|||||..+... 
T Consensus         3 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~-   66 (170)
T cd04115           3 FKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGER---------------IKVQLWDTAGQERFRK-   66 (170)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeE---------------EEEEEEeCCChHHHHH-
Confidence            689999999999999999999765433333333333344455565533               6789999999643221 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                        .   .....++++|++++|+|+.
T Consensus        67 --~---~~~~~~~~~d~~i~v~d~~   86 (170)
T cd04115          67 --S---MVQHYYRNVHAVVFVYDVT   86 (170)
T ss_pred             --h---hHHHhhcCCCEEEEEEECC
Confidence              0   1223458899999999985

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

>cd04144 Ras2 Ras2 subfamily

Probab=99.61  E-value=8e-15  Score=130.32  Aligned_cols=81  Identities=22%  Similarity=0.162  Sum_probs=55.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      ||+++|.+|||||||++++++.... ..++.++.......+.+++..               ..+++|||||......  
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~-~~~~~t~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~--   62 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFV-ETYDPTIEDSYRKQVVVDGQP---------------CMLEVLDTAGQEEYTA--   62 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCC-ccCCCchHhhEEEEEEECCEE---------------EEEEEEECCCchhhHH--
Confidence            6899999999999999999875432 334444433333344555532               5689999999644332  


Q ss_pred             cchhhHHHhhccccCEEEEEEecc
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           .....++.+|++++|+|++
T Consensus        63 -----~~~~~~~~ad~~ilv~d~~   81 (190)
T cd04144          63 -----LRDQWIREGEGFILVYSIT   81 (190)
T ss_pred             -----HHHHHHHhCCEEEEEEECC
Confidence                 2224568899999999984

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.

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.61  E-value=1.4e-14  Score=124.29  Aligned_cols=82  Identities=18%  Similarity=0.126  Sum_probs=55.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|++|||||||+++++..... ..+.+++.+.......+++..               ..+.+||+||...... 
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~D~~g~~~~~~-   63 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFV-EDYEPTKADSYRKKVVLDGED---------------VQLNILDTAGQEDYAA-   63 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCc-cccCCcchhhEEEEEEECCEE---------------EEEEEEECCChhhhhH-
Confidence            48999999999999999999975332 344444433333334444432               5789999999754322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        64 ------~~~~~~~~~~~~i~v~d~~   82 (164)
T cd04139          64 ------IRDNYHRSGEGFLLVFSIT   82 (164)
T ss_pred             ------HHHHHhhcCCEEEEEEECC
Confidence                  2224558889999999974

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

>cd04116 Rab9 Rab9 subfamily

Probab=99.61  E-value=1.4e-14  Score=125.86  Aligned_cols=83  Identities=23%  Similarity=0.171  Sum_probs=58.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++++++........|..+.+.....+.+++..               ..+++||+||...... 
T Consensus         6 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~l~i~D~~G~~~~~~-   69 (170)
T cd04116           6 LKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHF---------------VTLQIWDTAGQERFRS-   69 (170)
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeE---------------EEEEEEeCCChHHHHH-
Confidence            689999999999999999999765544444433333333445555543               6789999999643222 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|..
T Consensus        70 ------~~~~~~~~~d~~i~v~d~~   88 (170)
T cd04116          70 ------LRTPFYRGSDCCLLTFAVD   88 (170)
T ss_pred             ------hHHHHhcCCCEEEEEEECC
Confidence                  2224568899999999984

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.61  E-value=1.1e-14  Score=125.94  Aligned_cols=82  Identities=17%  Similarity=0.216  Sum_probs=56.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      ||+++|++|||||||++++..... ...++.++.......+.+++..               ..+++|||||......  
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~---------------~~~~i~D~~g~~~~~~--   62 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRF-IGEYDPNLESLYSRQVTIDGEQ---------------VSLEILDTAGQQQADT--   62 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCcc-ccccCCChHHhceEEEEECCEE---------------EEEEEEECCCCccccc--
Confidence            689999999999999999986433 3445544433333445555532               5789999999764211  


Q ss_pred             cchhhHHHhhccccCEEEEEEecc
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                          ......++.+|++++|+|+.
T Consensus        63 ----~~~~~~~~~~d~~i~v~d~~   82 (165)
T cd04146          63 ----EQLERSIRWADGFVLVYSIT   82 (165)
T ss_pred             ----chHHHHHHhCCEEEEEEECC
Confidence                12334568899999999985

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

>PRK00007 elongation factor G; Reviewed

Probab=99.61  E-value=7.9e-15  Score=154.42  Aligned_cols=226  Identities=16%  Similarity=0.121  Sum_probs=153.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHH---cCCcc---cc------------CCCceeecceeEEEEeCCcccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALT---KLKIS---AE------------NYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF   64 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt---~~~~~---~~------------~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~   64 (363)
                      ++|+|+|++|+|||||+++|+   |..-.   +.            ..+++|++.....+.+.+                
T Consensus        11 rni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~----------------   74 (693)
T PRK00007         11 RNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKD----------------   74 (693)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECC----------------
Confidence            489999999999999999996   32111   22            246788888888888877                


Q ss_pred             ceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-h
Q psy2401          65 PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-Y  143 (363)
Q Consensus        65 ~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~  143 (363)
                       .+++++||||+.++       ..+....++.+|++++|+|+..+.                ..+++..+..+....+ +
T Consensus        75 -~~~~liDTPG~~~f-------~~ev~~al~~~D~~vlVvda~~g~----------------~~qt~~~~~~~~~~~~p~  130 (693)
T PRK00007         75 -HRINIIDTPGHVDF-------TIEVERSLRVLDGAVAVFDAVGGV----------------EPQSETVWRQADKYKVPR  130 (693)
T ss_pred             -eEEEEEeCCCcHHH-------HHHHHHHHHHcCEEEEEEECCCCc----------------chhhHHHHHHHHHcCCCE
Confidence             78999999997643       235677889999999999986542                1123445555555555 4


Q ss_pred             hhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEecc----ccccCCCchHH
Q psy2401         144 IDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFVAN----VKENGFKNNLL  218 (363)
Q Consensus       144 ~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v~N----k~d~~~~~~~~  218 (363)
                      +..+||+++.+    .+....++++++.+........+|++...  .+.++ +++..+..++-..    +......+...
T Consensus       131 iv~vNK~D~~~----~~~~~~~~~i~~~l~~~~~~~~ipisa~~--~f~g~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (693)
T PRK00007        131 IAFVNKMDRTG----ADFYRVVEQIKDRLGANPVPIQLPIGAED--DFKGVVDLVKMKAIIWNEADLGATFEYEEIPADL  204 (693)
T ss_pred             EEEEECCCCCC----CCHHHHHHHHHHHhCCCeeeEEecCccCC--cceEEEEcceeeeeecccCCCCCcceEccCCHHH
Confidence            67899996543    22456778888888764444455666443  33333 4444444444210    00100013334


Q ss_pred             HHHHHHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeC
Q psy2401         219 LDQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTV  285 (363)
Q Consensus       219 ~~~i~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~  285 (363)
                      .+.+.++           ..++-+.+++.+++++++||++..++.+.+...+++......++|+|-.
T Consensus       205 ~~~~~~~-----------~~~l~e~v~e~dd~lle~yle~~~l~~~~l~~~l~~~~~~~~~~Pv~~g  260 (693)
T PRK00007        205 KDKAEEY-----------REKLIEAAAEADEELMEKYLEGEELTEEEIKAALRKATIANEIVPVLCG  260 (693)
T ss_pred             HHHHHHH-----------HHHHHHHHHccCHHHHHHHhCcCCCCHHHHHHHHHHHHhcCcEEEEEec
Confidence            4444444           4457788899999999999999889999999999988889999999954

>cd00879 Sar1 Sar1 subfamily

Probab=99.60  E-value=1e-14  Score=129.21  Aligned_cols=79  Identities=19%  Similarity=0.316  Sum_probs=59.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      ..+|+++|++|||||||++++++.... .  ...|..+..+.+.+++                 ..+.+||+||..... 
T Consensus        19 ~~ki~ilG~~~~GKStLi~~l~~~~~~-~--~~~T~~~~~~~i~~~~-----------------~~~~l~D~~G~~~~~-   77 (190)
T cd00879          19 EAKILFLGLDNAGKTTLLHMLKDDRLA-Q--HVPTLHPTSEELTIGN-----------------IKFKTFDLGGHEQAR-   77 (190)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCc-c--cCCccCcceEEEEECC-----------------EEEEEEECCCCHHHH-
Confidence            368999999999999999999986432 1  2236667777888776                 678999999964321 


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            ......++.+|++++|+|++
T Consensus        78 ------~~~~~~~~~ad~iilV~D~~   97 (190)
T cd00879          78 ------RLWKDYFPEVDGIVFLVDAA   97 (190)
T ss_pred             ------HHHHHHhccCCEEEEEEECC
Confidence                  13345668999999999985

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.

>PLN03108 Rab family protein; Provisional

Probab=99.60  E-value=6.8e-15  Score=133.05  Aligned_cols=153  Identities=16%  Similarity=0.158  Sum_probs=97.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|++|||||||++++++........|....+...+.+.+++..               ..+++|||||...... 
T Consensus         7 ~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~---------------i~l~l~Dt~G~~~~~~-   70 (210)
T PLN03108          7 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKP---------------IKLQIWDTAGQESFRS-   70 (210)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEE---------------EEEEEEeCCCcHHHHH-
Confidence            589999999999999999999875554444443444445566776643               5688999999653221 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++.+|++++|+|+...                                                     
T Consensus        71 ------~~~~~~~~ad~~vlv~D~~~~-----------------------------------------------------   91 (210)
T PLN03108         71 ------ITRSYYRGAAGALLVYDITRR-----------------------------------------------------   91 (210)
T ss_pred             ------HHHHHhccCCEEEEEEECCcH-----------------------------------------------------
Confidence                  334556889999999998421                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      ..++.+.+|+..                +... .....|+++++||.|.........+..++++..++.+++.+||+...
T Consensus        92 ~s~~~l~~~~~~----------------~~~~-~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~  154 (210)
T PLN03108         92 ETFNHLASWLED----------------ARQH-ANANMTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQ  154 (210)
T ss_pred             HHHHHHHHHHHH----------------HHHh-cCCCCcEEEEEECccCccccCCCHHHHHHHHHHcCCEEEEEeCCCCC
Confidence            111112222210                0001 11467999999999964211223455666667778899999998655


Q ss_pred             HHhcC
Q psy2401         243 EISDL  247 (363)
Q Consensus       243 ~i~el  247 (363)
                      ++.++
T Consensus       155 ~v~e~  159 (210)
T PLN03108        155 NVEEA  159 (210)
T ss_pred             CHHHH
Confidence            55443

>KOG1191|consensus

Probab=99.60  E-value=2.3e-15  Score=146.63  Aligned_cols=89  Identities=27%  Similarity=0.411  Sum_probs=76.2

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccC-C
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVS-G   79 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~-~   79 (363)
                      +++|+|+|+||+|||||+|+|++. .+.+++.||||.+.....++++|                 .++.++||+|+-+ .
T Consensus       268 gl~iaIvGrPNvGKSSLlNaL~~~drsIVSpv~GTTRDaiea~v~~~G-----------------~~v~L~DTAGiRe~~  330 (531)
T KOG1191|consen  268 GLQIAIVGRPNVGKSSLLNALSREDRSIVSPVPGTTRDAIEAQVTVNG-----------------VPVRLSDTAGIREES  330 (531)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHhcCCceEeCCCCCcchhhheeEeecCC-----------------eEEEEEecccccccc
Confidence            578999999999999999999998 57799999999999999999999                 8899999999987 2


Q ss_pred             CCcccchh-hHHHhhccccCEEEEEEecc
Q psy2401          80 ASKGEGLG-NKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        80 ~~~~~~l~-~~~l~~~~~aD~il~Vvda~  107 (363)
                      ...-+.++ ++....++.+|++++|+|+-
T Consensus       331 ~~~iE~~gI~rA~k~~~~advi~~vvda~  359 (531)
T KOG1191|consen  331 NDGIEALGIERARKRIERADVILLVVDAE  359 (531)
T ss_pred             CChhHHHhHHHHHHHHhhcCEEEEEeccc
Confidence            22223332 46677889999999999993

>PRK12739 elongation factor G; Reviewed

Probab=99.60  E-value=8e-15  Score=154.45  Aligned_cols=226  Identities=15%  Similarity=0.135  Sum_probs=150.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC---c---ccc------------CCCceeecceeEEEEeCCcccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK---I---SAE------------NYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF   64 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~---~---~~~------------~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~   64 (363)
                      ++|+|+|++|+|||||+++|+...   .   .+.            ..+++|++.....+.+++                
T Consensus         9 rni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~----------------   72 (691)
T PRK12739          9 RNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKG----------------   72 (691)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECC----------------
Confidence            589999999999999999996421   1   112            146788888888888877                


Q ss_pred             ceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-h
Q psy2401          65 PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-Y  143 (363)
Q Consensus        65 ~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~  143 (363)
                       .+++++||||+.+       +.......++.+|++++|+|+.++.                ..+++.++..+....+ .
T Consensus        73 -~~i~liDTPG~~~-------f~~e~~~al~~~D~~ilVvDa~~g~----------------~~qt~~i~~~~~~~~~p~  128 (691)
T PRK12739         73 -HRINIIDTPGHVD-------FTIEVERSLRVLDGAVAVFDAVSGV----------------EPQSETVWRQADKYGVPR  128 (691)
T ss_pred             -EEEEEEcCCCHHH-------HHHHHHHHHHHhCeEEEEEeCCCCC----------------CHHHHHHHHHHHHcCCCE
Confidence             7899999999864       2336778889999999999996532                1223444555544444 4


Q ss_pred             hhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEecc----ccccCCCchHH
Q psy2401         144 IDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFVAN----VKENGFKNNLL  218 (363)
Q Consensus       144 ~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v~N----k~d~~~~~~~~  218 (363)
                      +..+||+++.+.    +....++++++.+........+|++...  .+.+. ++...+..++-.+    +.+....+...
T Consensus       129 iv~iNK~D~~~~----~~~~~~~~i~~~l~~~~~~~~iPis~~~--~f~g~vd~~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (691)
T PRK12739        129 IVFVNKMDRIGA----DFFRSVEQIKDRLGANAVPIQLPIGAED--DFKGVIDLIKMKAIIWDDETLGAKYEEEDIPADL  202 (691)
T ss_pred             EEEEECCCCCCC----CHHHHHHHHHHHhCCCceeEEecccccc--cceEEEEcchhhhhhccCCCCCCeeEEcCCCHHH
Confidence            678999965432    2456778888877754444455665443  23322 3333333322111    01110013333


Q ss_pred             HHHHHHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeC
Q psy2401         219 LDQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTV  285 (363)
Q Consensus       219 ~~~i~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~  285 (363)
                      .+.+.++           .-++-+.+++.+++++++||++.+++.+.+...+++......++|+|-.
T Consensus       203 ~~~~~~~-----------~~~l~e~v~e~dd~lle~yl~~~~~~~~~l~~~l~~~~~~~~~~Pv~~g  258 (691)
T PRK12739        203 KEKAEEY-----------REKLIEAVAEVDEELMEKYLEGEEITEEEIKAAIRKATINMEFFPVLCG  258 (691)
T ss_pred             HHHHHHH-----------HHHHHHhhhhcCHHHHHHHhccCCCCHHHHHHHHHHHHHcCCEEEEEec
Confidence            4444443           4457778889999999999999999999999999999999999999854

>cd04125 RabA_like RabA-like subfamily

Probab=99.60  E-value=2.1e-14  Score=127.14  Aligned_cols=83  Identities=20%  Similarity=0.160  Sum_probs=57.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||++++++........|..+.+.....+.+++..               ..+.+|||||...... 
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~i~Dt~g~~~~~~-   64 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKI---------------IKLQIWDTNGQERFRS-   64 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEE---------------EEEEEEECCCcHHHHh-
Confidence            489999999999999999999865543233333333333445555532               6789999999643221 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        65 ------~~~~~~~~~d~iilv~d~~   83 (188)
T cd04125          65 ------LNNSYYRGAHGYLLVYDVT   83 (188)
T ss_pred             ------hHHHHccCCCEEEEEEECc
Confidence                  2345568999999999984

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.

>cd04177 RSR1 RSR1 subgroup

Probab=99.60  E-value=2.4e-14  Score=124.29  Aligned_cols=82  Identities=18%  Similarity=0.202  Sum_probs=55.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.||||||||++++.+.... ..++.++.......+.+++..               ..+++|||||...+.. 
T Consensus         2 ~ki~liG~~~~GKTsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~-   64 (168)
T cd04177           2 YKIVVLGAGGVGKSALTVQFVQNVFI-ESYDPTIEDSYRKQVEIDGRQ---------------CDLEILDTAGTEQFTA-   64 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCC-cccCCcchheEEEEEEECCEE---------------EEEEEEeCCCcccchh-
Confidence            68999999999999999999975432 223323322223334454432               5789999999765433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                         +.+   ..++.+|++++|+|..
T Consensus        65 ---~~~---~~~~~~~~~vlv~~~~   83 (168)
T cd04177          65 ---MRE---LYIKSGQGFLLVYSVT   83 (168)
T ss_pred             ---hhH---HHHhhCCEEEEEEECC
Confidence               222   3347799999999984

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

>cd04111 Rab39 Rab39 subfamily

Probab=99.60  E-value=1.8e-14  Score=130.40  Aligned_cols=83  Identities=24%  Similarity=0.225  Sum_probs=56.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeC-CccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVP-DKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~-~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +||+++|.+|||||||++.+++........|..+.+.....+.+. +..               ..+++|||||......
T Consensus         3 ~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~---------------~~l~i~Dt~G~~~~~~   67 (211)
T cd04111           3 FRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVR---------------IKLQLWDTAGQERFRS   67 (211)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCE---------------EEEEEEeCCcchhHHH
Confidence            699999999999999999999865433333433333333334443 221               6799999999643221


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                             .....++++|++++|+|.+
T Consensus        68 -------~~~~~~~~~d~iilv~D~~   86 (211)
T cd04111          68 -------ITRSYYRNSVGVLLVFDIT   86 (211)
T ss_pred             -------HHHHHhcCCcEEEEEEECC
Confidence                   2234568899999999984

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.

>cd04148 RGK RGK subfamily

Probab=99.60  E-value=2.4e-14  Score=130.54  Aligned_cols=168  Identities=15%  Similarity=0.150  Sum_probs=100.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceee-cceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTI-EPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~-~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .||+++|.+|||||||++++++.......++.+.. +.....+.+++..               ..+.+|||||...   
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~---------------~~l~i~Dt~G~~~---   62 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEE---------------STLVVIDHWEQEM---   62 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEE---------------EEEEEEeCCCcch---
Confidence            48999999999999999999765443223322211 2333445555532               6799999999751   


Q ss_pred             cccchhhHHHhhcc-ccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHH
Q psy2401          82 KGEGLGNKFLAHIR-ETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIE  160 (363)
Q Consensus        82 ~~~~l~~~~l~~~~-~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~  160 (363)
                         .+...   .++ .+|++++|+|+.+..                                                  
T Consensus        63 ---~~~~~---~~~~~ad~iilV~d~td~~--------------------------------------------------   86 (221)
T cd04148          63 ---WTEDS---CMQYQGDAFVVVYSVTDRS--------------------------------------------------   86 (221)
T ss_pred             ---HHHhH---HhhcCCCEEEEEEECCCHH--------------------------------------------------
Confidence               11112   234 899999999985310                                                  


Q ss_pred             HHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHH
Q psy2401         161 LLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL  240 (363)
Q Consensus       161 ~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~  240 (363)
                         .++.+.+++.                .+........+|+++|+||.|.........+..+++....+.+++++||+ 
T Consensus        87 ---S~~~~~~~~~----------------~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~SA~-  146 (221)
T cd04148          87 ---SFERASELRI----------------QLRRNRQLEDRPIILVGNKSDLARSREVSVQEGRACAVVFDCKFIETSAG-  146 (221)
T ss_pred             ---HHHHHHHHHH----------------HHHHhcCCCCCCEEEEEEChhccccceecHHHHHHHHHHcCCeEEEecCC-
Confidence               1111111111                11111122578999999999963211112233445555567789999998 


Q ss_pred             HHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeC
Q psy2401         241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTV  285 (363)
Q Consensus       241 e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~  285 (363)
                                           +..+++++++.+.+.+.+-+-.+.
T Consensus       147 ---------------------~~~gv~~l~~~l~~~~~~~~~~~~  170 (221)
T cd04148         147 ---------------------LQHNVDELLEGIVRQIRLRRDSKE  170 (221)
T ss_pred             ---------------------CCCCHHHHHHHHHHHHHhhhcccc
Confidence                                 456677777777766665555543

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

>cd04140 ARHI_like ARHI subfamily

Probab=99.60  E-value=2.9e-14  Score=123.48  Aligned_cols=82  Identities=17%  Similarity=0.172  Sum_probs=53.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||++++++........| ++.......+...+..               ..+.+|||||...... 
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~-t~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~-   64 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIP-TIEDTYRQVISCSKNI---------------CTLQITDTTGSHQFPA-   64 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCC-cchheEEEEEEECCEE---------------EEEEEEECCCCCcchH-
Confidence            6899999999999999999998654322222 1111111122333321               6789999999754332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|..
T Consensus        65 ------~~~~~~~~~~~~ilv~d~~   83 (165)
T cd04140          65 ------MQRLSISKGHAFILVYSVT   83 (165)
T ss_pred             ------HHHHHhhcCCEEEEEEECC
Confidence                  1223457899999999985

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

>PLN03110 Rab GTPase; Provisional

Probab=99.60  E-value=1.6e-14  Score=131.26  Aligned_cols=83  Identities=23%  Similarity=0.177  Sum_probs=61.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|++|||||||++++++........|....+.....+.+++..               ..+++|||||...... 
T Consensus        13 ~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~---------------~~l~l~Dt~G~~~~~~-   76 (216)
T PLN03110         13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKT---------------VKAQIWDTAGQERYRA-   76 (216)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEE---------------EEEEEEECCCcHHHHH-
Confidence            689999999999999999999876554445544455555667776643               6799999999643222 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|..
T Consensus        77 ------~~~~~~~~~~~~ilv~d~~   95 (216)
T PLN03110         77 ------ITSAYYRGAVGALLVYDIT   95 (216)
T ss_pred             ------HHHHHhCCCCEEEEEEECC
Confidence                  3335568999999999984

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.59  E-value=1.4e-14  Score=153.15  Aligned_cols=88  Identities=24%  Similarity=0.252  Sum_probs=71.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+|+|+|+||||||||||+|++.. +.++++|++|.+...+...+.+                 ..+.+|||||+.....
T Consensus       276 ~~V~IvG~~nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~~-----------------~~~~liDT~G~~~~~~  338 (712)
T PRK09518        276 GVVAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAG-----------------TDFKLVDTGGWEADVE  338 (712)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEECC-----------------EEEEEEeCCCcCCCCc
Confidence            579999999999999999999874 5688999999998888888877                 6789999999864322


Q ss_pred             c-ccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 K-GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~-~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      . ...+.++....++.+|++++|+|+.
T Consensus       339 ~~~~~~~~~~~~~~~~aD~iL~VvDa~  365 (712)
T PRK09518        339 GIDSAIASQAQIAVSLADAVVFVVDGQ  365 (712)
T ss_pred             cHHHHHHHHHHHHHHhCCEEEEEEECC
Confidence            1 1223445566789999999999985

>cd04163 Era Era subfamily

Probab=99.59  E-value=3.2e-14  Score=121.49  Aligned_cols=88  Identities=33%  Similarity=0.416  Sum_probs=64.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc-cccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI-SAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~-~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      ++|+++|++|||||||+|++++... ..++.+.++.....+.....+                 ..+.+|||||+.....
T Consensus         4 ~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------~~~~liDtpG~~~~~~   66 (168)
T cd04163           4 GFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIYTDDD-----------------AQIIFVDTPGIHKPKK   66 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCceEeccCCCCceeceEEEEEEcCC-----------------eEEEEEECCCCCcchH
Confidence            6899999999999999999998743 355566666665555544443                 5689999999875443


Q ss_pred             c-ccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 K-GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~-~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      . ...+.......++.+|++++|+|+.
T Consensus        67 ~~~~~~~~~~~~~~~~~d~i~~v~d~~   93 (168)
T cd04163          67 KLGERMVKAAWSALKDVDLVLFVVDAS   93 (168)
T ss_pred             HHHHHHHHHHHHHHHhCCEEEEEEECC
Confidence            2 1222234456678899999999985

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.

>cd04110 Rab35 Rab35 subfamily

Probab=99.59  E-value=1.2e-14  Score=130.30  Aligned_cols=83  Identities=24%  Similarity=0.219  Sum_probs=56.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||++.+.+........|....+.....+.+++..               ..+.+||+||...... 
T Consensus         7 ~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~l~l~D~~G~~~~~~-   70 (199)
T cd04110           7 FKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGER---------------VKLQIWDTAGQERFRT-   70 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEE---------------EEEEEEeCCCchhHHH-
Confidence            689999999999999999999865433333322223333344444432               5788999999643222 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        71 ------~~~~~~~~a~~iilv~D~~   89 (199)
T cd04110          71 ------ITSTYYRGTHGVIVVYDVT   89 (199)
T ss_pred             ------HHHHHhCCCcEEEEEEECC
Confidence                  3345668899999999984

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

>PTZ00369 Ras-like protein; Provisional

Probab=99.59  E-value=2.3e-14  Score=127.22  Aligned_cols=83  Identities=16%  Similarity=0.138  Sum_probs=55.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||++++.+..... .+..++.......+.+++..               ..+++|||||..+... 
T Consensus         6 ~Ki~iiG~~~~GKTsLi~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~-   68 (189)
T PTZ00369          6 YKLVVVGGGGVGKSALTIQFIQNHFID-EYDPTIEDSYRKQCVIDEET---------------CLLDILDTAGQEEYSA-   68 (189)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCc-CcCCchhhEEEEEEEECCEE---------------EEEEEEeCCCCccchh-
Confidence            689999999999999999999754322 22222211122344555532               5788999999755433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                         +   ....++.+|++++|+|+++
T Consensus        69 ---l---~~~~~~~~d~iilv~D~s~   88 (189)
T PTZ00369         69 ---M---RDQYMRTGQGFLCVYSITS   88 (189)
T ss_pred             ---h---HHHHhhcCCEEEEEEECCC
Confidence               2   2235578999999999853

>cd01666 TGS_DRG_C TGS_DRG_C: DRG (developmentally regulated GTP-binding protein) represents a family of GTP-binding proteins that includes two members, DRG1 and DRG2

Probab=99.59  E-value=1.7e-15  Score=113.48  Aligned_cols=70  Identities=26%  Similarity=0.341  Sum_probs=61.6

Q ss_pred             CEEEEeCCC----CceEEEeecCCCCHHHhhhhhhcchhcccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCC
Q psy2401         279 LRTYFTVGK----KEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDG  354 (363)
Q Consensus       279 li~~ft~g~----~e~raw~~~~g~ta~~~A~~IHsD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dg  354 (363)
                      ||+|||+.+    |..++.++++|||+.|+|.+||+||.+.|.+|.||+-          .++..| +|+ |.+|+|+||
T Consensus         1 lirvytk~~g~~~d~~~~liL~~GaTV~D~a~~iH~di~~~f~~A~v~g~----------s~~~~g-q~V-gl~~~L~d~   68 (75)
T cd01666           1 LIRVYTKPKGQEPDFDEPVILRRGSTVEDVCNKIHKDLVKQFKYALVWGS----------SVKHSP-QRV-GLDHVLEDE   68 (75)
T ss_pred             CEEEEeCCCCCCCCCCCCEEECCCCCHHHHHHHHHHHHHHhCCeeEEecc----------CCcCCC-eEC-CCCCEecCC
Confidence            689999954    6689999999999999999999999999999999973          465545 556 999999999


Q ss_pred             CEEEEE
Q psy2401         355 DILNFL  360 (363)
Q Consensus       355 dii~~~  360 (363)
                      |||+|-
T Consensus        69 DvVeI~   74 (75)
T cd01666          69 DVVQIV   74 (75)
T ss_pred             CEEEEe
Confidence            999984

DRG1 and DRG2 have a C-terminal TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) with a predominantly beta-sheet structure. The function of TGS is unknown but its presence in two types of regulatory proteins (the DRG GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.59  E-value=2.5e-14  Score=125.24  Aligned_cols=82  Identities=16%  Similarity=0.132  Sum_probs=55.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||++.+.+........| +...-....+.+++..               ..+++|||||...... 
T Consensus         3 ~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~-t~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~-   65 (172)
T cd04141           3 YKIVMLGAGGVGKSAVTMQFISHSFPDYHDP-TIEDAYKQQARIDNEP---------------ALLDILDTAGQAEFTA-   65 (172)
T ss_pred             eEEEEECCCCCcHHHHHHHHHhCCCCCCcCC-cccceEEEEEEECCEE---------------EEEEEEeCCCchhhHH-
Confidence            6899999999999999999987544322222 1111112234555533               6789999999754332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|..
T Consensus        66 ------l~~~~~~~~d~~ilv~d~~   84 (172)
T cd04141          66 ------MRDQYMRCGEGFIICYSVT   84 (172)
T ss_pred             ------HhHHHhhcCCEEEEEEECC
Confidence                  2224568899999999985

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

>cd00876 Ras Ras family

Probab=99.59  E-value=2.2e-14  Score=122.43  Aligned_cols=81  Identities=22%  Similarity=0.146  Sum_probs=58.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      ||+++|++|||||||++++++.. ..+.++.++.+.......+++..               ..+++||+||.....   
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~l~D~~g~~~~~---   61 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGT-FVEEYDPTIEDSYRKTIVVDGET---------------YTLDILDTAGQEEFS---   61 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCC-CCcCcCCChhHeEEEEEEECCEE---------------EEEEEEECCChHHHH---
Confidence            68999999999999999999865 44555555555555556555422               678999999965421   


Q ss_pred             cchhhHHHhhccccCEEEEEEecc
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                          ......++.+|++++|+|..
T Consensus        62 ----~~~~~~~~~~~~~i~v~d~~   81 (160)
T cd00876          62 ----AMRDLYIRQGDGFILVYSIT   81 (160)
T ss_pred             ----HHHHHHHhcCCEEEEEEECC
Confidence                12234567899999999984

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

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.59  E-value=5e-15  Score=133.78  Aligned_cols=81  Identities=20%  Similarity=0.150  Sum_probs=59.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC-Ccccc------------------------------CCCceeecceeEEEEeCCcccc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL-KISAE------------------------------NYPFCTIEPNIGIIEVPDKRLK   52 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~-~~~~~------------------------------~~p~~t~~~~~g~v~~~~~~~~   52 (363)
                      +|+++|++|+|||||+++|+.. .+..+                              ..+++|+++....+.+++    
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~----   76 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTPK----   76 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecCC----
Confidence            6899999999999999999754 22111                              115667777776666665    


Q ss_pred             ccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          53 HLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        53 ~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                                   .++.++||||+.++       .......++.+|++++|+|+..
T Consensus        77 -------------~~~~liDTpG~~~~-------~~~~~~~~~~ad~~llVvD~~~  112 (208)
T cd04166          77 -------------RKFIIADTPGHEQY-------TRNMVTGASTADLAILLVDARK  112 (208)
T ss_pred             -------------ceEEEEECCcHHHH-------HHHHHHhhhhCCEEEEEEECCC
Confidence                         67899999997432       2345566789999999999853

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.

>cd01669 TGS_Ygr210_C TGS_Ygr210_C: The C-terminal TGS domain of Ygr210 GTP-binding protein which is a member of Obg-like family of GTPases, and present in archaea

Probab=99.59  E-value=1.7e-15  Score=113.93  Aligned_cols=64  Identities=33%  Similarity=0.624  Sum_probs=53.1

Q ss_pred             CEEEEeCCCCc-----------eEEEeecCCCCHHHhhhhhhcchhcccEEEEEecccccccccChhhHhhcCceeecCC
Q psy2401         279 LRTYFTVGKKE-----------IRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGK  347 (363)
Q Consensus       279 li~~ft~g~~e-----------~raw~~~~g~ta~~~A~~IHsD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk  347 (363)
                      ++|||++. ++           .+||++++|+||.|+|+.||+||.++|++|.+              +| .|  +.+|+
T Consensus         1 ~~~v~pv~-~~~~~~~~~~~~~~d~~~l~~GaTv~D~A~~IHtdi~~~f~~Ai~--------------~k-~~--~~vg~   62 (76)
T cd01669           1 MIVVYPVE-DENKLTDKEGNVLPDAFLLPKGSTARDLAYAIHTDIGDGFLHAID--------------AR-TG--RRVGE   62 (76)
T ss_pred             CccEEecc-cCCcccCCCCCCccceEEECCCCCHHHHHHHHHHHHHhcceeeEE--------------ee-CC--EEeCC
Confidence            57899972 21           37999999999999999999999999999963              23 23  35599


Q ss_pred             CeeeeCCCEEEEE
Q psy2401         348 KYLVEDGDILNFL  360 (363)
Q Consensus       348 ~y~v~dgdii~~~  360 (363)
                      +|+|+|||||+|-
T Consensus        63 ~~~L~dgDvV~Ii   75 (76)
T cd01669          63 DYELKHRDVIKIV   75 (76)
T ss_pred             CcEecCCCEEEEe
Confidence            9999999999984

Several Obg-like 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. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.

>cd04114 Rab30 Rab30 subfamily

Probab=99.59  E-value=3.5e-14  Score=122.90  Aligned_cols=83  Identities=22%  Similarity=0.191  Sum_probs=59.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+++++|++|||||||++++++........|..+.+.....+.+.+..               ..+.+||+||...... 
T Consensus         8 ~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~~~D~~g~~~~~~-   71 (169)
T cd04114           8 FKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEK---------------IKLQIWDTAGQERFRS-   71 (169)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEE---------------EEEEEEECCCcHHHHH-
Confidence            689999999999999999999755444444444444555556666633               5688999999643222 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        72 ------~~~~~~~~~d~~i~v~d~~   90 (169)
T cd04114          72 ------ITQSYYRSANALILTYDIT   90 (169)
T ss_pred             ------HHHHHhcCCCEEEEEEECc
Confidence                  2335568899999999984

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.

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.59  E-value=3.2e-14  Score=124.30  Aligned_cols=82  Identities=20%  Similarity=0.133  Sum_probs=58.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      ||+++|.+|||||||++++.+........|....+.....+.+.+..               ..+++|||||..++..  
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~--   64 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVP---------------FSLQLWDTAGQERFKC--   64 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEE---------------EEEEEEeCCChHHHHh--
Confidence            79999999999999999999865543333433334434455555543               6799999999754332  


Q ss_pred             cchhhHHHhhccccCEEEEEEecc
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           .....++.+|++++|+|+.
T Consensus        65 -----~~~~~~~~ad~~ilv~d~~   83 (170)
T cd04108          65 -----IASTYYRGAQAIIIVFDLT   83 (170)
T ss_pred             -----hHHHHhcCCCEEEEEEECc
Confidence                 2235568999999999984

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

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.58  E-value=2.3e-14  Score=123.75  Aligned_cols=78  Identities=22%  Similarity=0.287  Sum_probs=54.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++++...... ...|  |...+...+...+                 .++.+|||||..+... 
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~-~~~p--t~g~~~~~~~~~~-----------------~~~~l~D~~G~~~~~~-   59 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIP--TIGFNVETVEYKN-----------------ISFTVWDVGGQDKIRP-   59 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCc-ccCC--CCCcceEEEEECC-----------------EEEEEEECCCCHhHHH-
Confidence            58999999999999999999754332 2233  3333333444443                 7799999999743221 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        60 ------~~~~~~~~ad~~i~v~D~~   78 (159)
T cd04150          60 ------LWRHYFQNTQGLIFVVDSN   78 (159)
T ss_pred             ------HHHHHhcCCCEEEEEEeCC
Confidence                  2335579999999999985

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

>cd01890 LepA LepA subfamily

Probab=99.58  E-value=3.3e-14  Score=124.37  Aligned_cols=84  Identities=17%  Similarity=0.162  Sum_probs=55.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcccc---------------CCCceeecceeEEEEe---CCcccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAE---------------NYPFCTIEPNIGIIEV---PDKRLKHLNNIVKTKKIF   64 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~---------------~~p~~t~~~~~g~v~~---~~~~~~~l~~~~~~~~~~   64 (363)
                      ++|+++|++|+|||||+++|++....+.               ...++|..+....+.+   ++.               
T Consensus         1 rni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~---------------   65 (179)
T cd01890           1 RNFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQ---------------   65 (179)
T ss_pred             CcEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCC---------------
Confidence            4799999999999999999987421110               0123343333333333   221               


Q ss_pred             ceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          65 PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        65 ~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ...+++|||||+.++..       .....++.+|++++|+|++.
T Consensus        66 ~~~~~l~Dt~G~~~~~~-------~~~~~~~~ad~~i~v~D~~~  102 (179)
T cd01890          66 EYLLNLIDTPGHVDFSY-------EVSRSLAACEGALLLVDATQ  102 (179)
T ss_pred             cEEEEEEECCCChhhHH-------HHHHHHHhcCeEEEEEECCC
Confidence            16789999999865432       44456788999999999853

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.58  E-value=2.9e-14  Score=150.73  Aligned_cols=181  Identities=18%  Similarity=0.200  Sum_probs=118.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+|+++|+||||||||+|+|++.. ..++++|+||.++....+.+++                 .++.+|||||+.+...
T Consensus       451 ~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~-----------------~~~~liDTaG~~~~~~  513 (712)
T PRK09518        451 RRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDG-----------------EDWLFIDTAGIKRRQH  513 (712)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEECC-----------------CEEEEEECCCcccCcc
Confidence            689999999999999999999985 4578999999999988888887                 5678999999865433


Q ss_pred             cccch---h-hHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCch
Q psy2401          82 KGEGL---G-NKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEH  157 (363)
Q Consensus        82 ~~~~l---~-~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~  157 (363)
                      ...+.   . .+....++.+|++++|+|+++...                                              
T Consensus       514 ~~~~~e~~~~~r~~~~i~~advvilViDat~~~s----------------------------------------------  547 (712)
T PRK09518        514 KLTGAEYYSSLRTQAAIERSELALFLFDASQPIS----------------------------------------------  547 (712)
T ss_pred             cchhHHHHHHHHHHHHhhcCCEEEEEEECCCCCC----------------------------------------------
Confidence            22111   0 122345788999999999953210                                              


Q ss_pred             hHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhc-----CCCc
Q psy2401         158 SIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHN-----QNIP  232 (363)
Q Consensus       158 ~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~-----~~~~  232 (363)
                                                 ..+...+... ....+|+++|+||.|+.  ..+..+.+++.+..     ...+
T Consensus       548 ---------------------------~~~~~i~~~~-~~~~~piIiV~NK~DL~--~~~~~~~~~~~~~~~l~~~~~~~  597 (712)
T PRK09518        548 ---------------------------EQDLKVMSMA-VDAGRALVLVFNKWDLM--DEFRRQRLERLWKTEFDRVTWAR  597 (712)
T ss_pred             ---------------------------HHHHHHHHHH-HHcCCCEEEEEEchhcC--ChhHHHHHHHHHHHhccCCCCCC
Confidence                                       0000001001 11468999999999963  22222333322221     1346


Q ss_pred             EEEeeHHHHHHHhcCCHHHHHHHHh-hcCCCchhHHHHHHHHHHh
Q psy2401         233 IIIICAKLEEEISDLNNIDKKFFLD-NLGLKETKLNDLIRASFSL  276 (363)
Q Consensus       233 ~i~~sa~~e~~i~el~~~~~~~~l~-~~~l~~~~l~~l~~~~~~~  276 (363)
                      ++++||+...++.++.+...+.+.. ...++.+.+++.++++...
T Consensus       598 ii~iSAktg~gv~~L~~~i~~~~~~~~~~i~T~~Ln~~l~~~~~~  642 (712)
T PRK09518        598 RVNLSAKTGWHTNRLAPAMQEALESWDQRIPTGKLNAFLGKIQAE  642 (712)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhcccCChHHHHHHHHHHHhh
Confidence            7999999998888876544443332 1234455788888876643

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.58  E-value=2.8e-14  Score=126.12  Aligned_cols=83  Identities=17%  Similarity=0.221  Sum_probs=54.7

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCC-ccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD-KRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~-~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      ..||+++|++|||||||++++...... ..+|........-.+.+.+ ..               ..+.+|||||.....
T Consensus         3 ~~kv~~vG~~~~GKTsli~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~---------------~~l~l~Dt~G~~~~~   66 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRLKFNEFV-NTVPTKGFNTEKIKVSLGNSKG---------------ITFHFWDVGGQEKLR   66 (183)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCcC-CcCCccccceeEEEeeccCCCc---------------eEEEEEECCCcHhHH
Confidence            468999999999999999999875432 3344322222222222211 11               679999999964322


Q ss_pred             CcccchhhHHHhhccccCEEEEEEecc
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .       .....++++|++++|+|++
T Consensus        67 ~-------~~~~~~~~~d~ii~v~D~~   86 (183)
T cd04152          67 P-------LWKSYTRCTDGIVFVVDSV   86 (183)
T ss_pred             H-------HHHHHhccCCEEEEEEECC
Confidence            1       2334568999999999985

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.

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

Probab=99.58  E-value=1e-14  Score=128.35  Aligned_cols=85  Identities=26%  Similarity=0.242  Sum_probs=59.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC--ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK--ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~--~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      .+|+++|++|+|||||+|+|++..  ..+++.+++|.++....+  +                  ..+.+|||||+....
T Consensus        19 ~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~--~------------------~~~~liDtpG~~~~~   78 (179)
T TIGR03598        19 PEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEV--N------------------DGFRLVDLPGYGYAK   78 (179)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEe--C------------------CcEEEEeCCCCcccc
Confidence            689999999999999999999874  456778888776553322  1                  248899999986432


Q ss_pred             Ccc------cchhhHHHhhccccCEEEEEEecc
Q psy2401          81 SKG------EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~~------~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ...      ..+...++.....+|++++|+|+.
T Consensus        79 ~~~~~~~~~~~~~~~~l~~~~~~~~ii~vvd~~  111 (179)
T TIGR03598        79 VSKEEKEKWQKLIEEYLEKRENLKGVVLLMDIR  111 (179)
T ss_pred             CChhHHHHHHHHHHHHHHhChhhcEEEEEecCC
Confidence            211      112223444444578999999984

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.

>cd04154 Arl2 Arl2 subfamily

Probab=99.58  E-value=2.6e-14  Score=124.86  Aligned_cols=78  Identities=22%  Similarity=0.311  Sum_probs=53.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+++|++|||||||++++++.... ...|  |.......+.+++                 ..+.+|||||...... 
T Consensus        15 ~kv~ivG~~~~GKTsL~~~l~~~~~~-~~~~--t~g~~~~~~~~~~-----------------~~l~l~D~~G~~~~~~-   73 (173)
T cd04154          15 MRILILGLDNAGKTTILKKLLGEDID-TISP--TLGFQIKTLEYEG-----------------YKLNIWDVGGQKTLRP-   73 (173)
T ss_pred             cEEEEECCCCCCHHHHHHHHccCCCC-CcCC--ccccceEEEEECC-----------------EEEEEEECCCCHHHHH-
Confidence            68999999999999999999986321 1111  2222333444443                 6789999999653221 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        74 ------~~~~~~~~~d~~i~v~d~~   92 (173)
T cd04154          74 ------YWRNYFESTDALIWVVDSS   92 (173)
T ss_pred             ------HHHHHhCCCCEEEEEEECC
Confidence                  2334568999999999985

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.

>cd04118 Rab24 Rab24 subfamily

Probab=99.57  E-value=5.6e-14  Score=124.80  Aligned_cols=83  Identities=16%  Similarity=0.120  Sum_probs=56.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeec-ceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIE-PNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~-~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +||+++|.+|||||||++++++.....+++..+... .....+.+++..               ..+++||+||......
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~l~i~D~~G~~~~~~   65 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERV---------------VTLGIWDTAGSERYEA   65 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEE---------------EEEEEEECCCchhhhh
Confidence            589999999999999999999876554444332211 122345666543               5788999999644322


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                          +   ....++.+|++++|+|+.
T Consensus        66 ----~---~~~~~~~~d~iilv~d~~   84 (193)
T cd04118          66 ----M---SRIYYRGAKAAIVCYDLT   84 (193)
T ss_pred             ----h---hHhhcCCCCEEEEEEECC
Confidence                1   123457899999999984

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

>PRK04213 GTP-binding protein; Provisional

Probab=99.57  E-value=7.8e-14  Score=124.76  Aligned_cols=84  Identities=24%  Similarity=0.262  Sum_probs=58.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+++|++|||||||+|+|++....++..|++|..+..  +.+                   ..+.+|||||+......
T Consensus        10 ~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~t~~~~~--~~~-------------------~~~~l~Dt~G~~~~~~~   68 (201)
T PRK04213         10 PEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGVTRKPNH--YDW-------------------GDFILTDLPGFGFMSGV   68 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCccCCCCceeeCceE--Eee-------------------cceEEEeCCcccccccc
Confidence            689999999999999999999988778888988877542  222                   24789999997432211


Q ss_pred             c----cchh---hHHH-hhccccCEEEEEEecc
Q psy2401          83 G----EGLG---NKFL-AHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~----~~l~---~~~l-~~~~~aD~il~Vvda~  107 (363)
                      .    +.+.   ..++ ..+..+|++++|+|+.
T Consensus        69 ~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~  101 (201)
T PRK04213         69 PKEVQEKIKDEIVRYIEDNADRILAAVLVVDGK  101 (201)
T ss_pred             CHHHHHHHHHHHHHHHHhhhhhheEEEEEEeCc
Confidence            1    1111   1122 2345678999999874

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.57  E-value=3.1e-14  Score=123.05  Aligned_cols=75  Identities=20%  Similarity=0.285  Sum_probs=52.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+++|++|+|||||+|+|++...         .....+.+.+.+                 .  .+|||||+..... 
T Consensus         2 ~~i~~iG~~~~GKstl~~~l~~~~~---------~~~~~~~v~~~~-----------------~--~~iDtpG~~~~~~-   52 (158)
T PRK15467          2 KRIAFVGAVGAGKTTLFNALQGNYT---------LARKTQAVEFND-----------------K--GDIDTPGEYFSHP-   52 (158)
T ss_pred             cEEEEECCCCCCHHHHHHHHcCCCc---------cCccceEEEECC-----------------C--CcccCCccccCCH-
Confidence            4899999999999999999998431         112334445543                 1  2699999854322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                        .+.+.+...++.+|++++|+|+..
T Consensus        53 --~~~~~~~~~~~~ad~il~v~d~~~   76 (158)
T PRK15467         53 --RWYHALITTLQDVDMLIYVHGAND   76 (158)
T ss_pred             --HHHHHHHHHHhcCCEEEEEEeCCC
Confidence              122344566789999999999853

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.57  E-value=1.7e-14  Score=148.88  Aligned_cols=81  Identities=35%  Similarity=0.521  Sum_probs=65.4

Q ss_pred             eCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc--ccch
Q psy2401           9 GLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK--GEGL   86 (363)
Q Consensus         9 G~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~--~~~l   86 (363)
                      |.||||||||+|+|++....++++|++|.+...+.+.+++                 .++++|||||..+....  .+.+
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~~-----------------~~i~lvDtPG~~~~~~~s~~e~v   63 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQG-----------------EDIEIVDLPGIYSLTTFSLEEEV   63 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEECC-----------------eEEEEEECCCccccCccchHHHH
Confidence            8999999999999999988899999999999999999887                 67899999999765432  1222


Q ss_pred             hhHHHhhccccCEEEEEEecc
Q psy2401          87 GNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        87 ~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .+.++. .+.+|++++|+|++
T Consensus        64 ~~~~l~-~~~aDvvI~VvDat   83 (591)
T TIGR00437        64 ARDYLL-NEKPDLVVNVVDAS   83 (591)
T ss_pred             HHHHHh-hcCCCEEEEEecCC
Confidence            233322 35789999999984

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.

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

Probab=99.57  E-value=2.6e-14  Score=124.26  Aligned_cols=81  Identities=15%  Similarity=0.118  Sum_probs=52.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEE--EeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGII--EVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v--~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      .||+++|.+|||||||+++++.........|  |........  ..++..               ..+.+|||||.....
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~--t~~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~   63 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVA--TLGVEVHPLDFHTNRGK---------------IRFNVWDTAGQEKFG   63 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCC--ceeeEEEEEEEEECCEE---------------EEEEEEECCCChhhc
Confidence            4899999999999999999986433222222  222222222  222221               678999999975433


Q ss_pred             CcccchhhHHHhhccccCEEEEEEecc
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .    +.+   ..++.+|++++|+|++
T Consensus        64 ~----~~~---~~~~~~d~~i~v~d~~   83 (166)
T cd00877          64 G----LRD---GYYIGGQCAIIMFDVT   83 (166)
T ss_pred             c----ccH---HHhcCCCEEEEEEECC
Confidence            2    222   3457899999999985

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.57  E-value=6.7e-14  Score=129.75  Aligned_cols=82  Identities=12%  Similarity=0.157  Sum_probs=57.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||++++.+..... .|..|+.+.....+.+++..               ..+++|||+|...+.. 
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~-~y~pTi~d~~~k~~~i~~~~---------------~~l~I~Dt~G~~~~~~-   63 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRFEE-QYTPTIEDFHRKLYSIRGEV---------------YQLDILDTSGNHPFPA-   63 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCCCC-CCCCChhHhEEEEEEECCEE---------------EEEEEEECCCChhhhH-
Confidence            489999999999999999998754433 34334434444556666643               6789999999654322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                         +   ....++.+|++++|+|+.
T Consensus        64 ---~---~~~~~~~ad~iIlVfdv~   82 (247)
T cd04143          64 ---M---RRLSILTGDVFILVFSLD   82 (247)
T ss_pred             ---H---HHHHhccCCEEEEEEeCC
Confidence               1   112457899999999985

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.57  E-value=6.1e-14  Score=120.82  Aligned_cols=83  Identities=20%  Similarity=0.303  Sum_probs=53.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCcee-ecceeEEEEeC-CccccccccccccccccceeEEEEeeecccCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCT-IEPNIGIIEVP-DKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t-~~~~~g~v~~~-~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      +||+++|.+|||||||++++.... ....+++.++ .+...-.+.+. +.+               .++.+|||||....
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~   65 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNT---------------VELFIFDSAGQELY   65 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCE---------------EEEEEEECCCHHHH
Confidence            489999999999999999998642 2233343222 22222233333 222               67999999996332


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEecc
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .    .+   ....++.+|++++|+|.+
T Consensus        66 ~----~~---~~~~~~~~d~ii~v~d~~   86 (164)
T cd04101          66 S----DM---VSNYWESPSVFILVYDVS   86 (164)
T ss_pred             H----HH---HHHHhCCCCEEEEEEECc
Confidence            1    12   234558899999999984

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.

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.57  E-value=4.1e-14  Score=120.02  Aligned_cols=78  Identities=24%  Similarity=0.350  Sum_probs=55.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      .|+++|++|||||||+|+|++........|  |...+...+..++                 ..+.+||+||.....   
T Consensus         1 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~--t~~~~~~~~~~~~-----------------~~~~~~D~~g~~~~~---   58 (159)
T cd04159           1 EITLVGLQNSGKTTLVNVIAGGQFSEDTIP--TVGFNMRKVTKGN-----------------VTLKVWDLGGQPRFR---   58 (159)
T ss_pred             CEEEEcCCCCCHHHHHHHHccCCCCcCccC--CCCcceEEEEECC-----------------EEEEEEECCCCHhHH---
Confidence            389999999999999999999755444444  3334434444443                 679999999964322   


Q ss_pred             cchhhHHHhhccccCEEEEEEecc
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                          ......++.+|++++|+|+.
T Consensus        59 ----~~~~~~~~~~d~ii~v~d~~   78 (159)
T cd04159          59 ----SMWERYCRGVNAIVYVVDAA   78 (159)
T ss_pred             ----HHHHHHHhcCCEEEEEEECC
Confidence                12334568899999999984

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.

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

Probab=99.57  E-value=4.4e-14  Score=123.87  Aligned_cols=82  Identities=21%  Similarity=0.127  Sum_probs=55.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|++|||||||++.+++........| ++.......+.+.+..               ..+.+|||||..+... 
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~-t~~~~~~~~~~~~~~~---------------~~~~l~D~~g~~~~~~-   64 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYP-TIENTFSKIIRYKGQD---------------YHLEIVDTAGQDEYSI-   64 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccCc-chhhhEEEEEEECCEE---------------EEEEEEECCChHhhHH-
Confidence            6899999999999999999998654333333 3333334445554422               5688999999754321 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            ........+|++++|+|++
T Consensus        65 ------~~~~~~~~~~~~i~v~d~~   83 (180)
T cd04137          65 ------LPQKYSIGIHGYILVYSVT   83 (180)
T ss_pred             ------HHHHHHhhCCEEEEEEECC
Confidence                  1123457799999999985

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

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.57  E-value=4.4e-14  Score=123.70  Aligned_cols=78  Identities=27%  Similarity=0.307  Sum_probs=57.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+++|++|||||||++++++.... ...|  |..++...+.+.+                 .++.+|||||.....  
T Consensus        16 ~kv~~~G~~~~GKTsl~~~l~~~~~~-~~~~--t~~~~~~~~~~~~-----------------~~~~l~D~~G~~~~~--   73 (174)
T cd04153          16 YKVIIVGLDNAGKTTILYQFLLGEVV-HTSP--TIGSNVEEIVYKN-----------------IRFLMWDIGGQESLR--   73 (174)
T ss_pred             cEEEEECCCCCCHHHHHHHHccCCCC-CcCC--ccccceEEEEECC-----------------eEEEEEECCCCHHHH--
Confidence            68999999999999999999875432 2222  4445555556554                 789999999975322  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           +.....++.+|++++|+|++
T Consensus        74 -----~~~~~~~~~~d~vi~V~D~s   93 (174)
T cd04153          74 -----SSWNTYYTNTDAVILVIDST   93 (174)
T ss_pred             -----HHHHHHhhcCCEEEEEEECC
Confidence                 23345678999999999985

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.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.56  E-value=2.8e-14  Score=122.37  Aligned_cols=78  Identities=21%  Similarity=0.341  Sum_probs=53.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      +|+++|++|||||||++++++.... ...|  |.......+.+++.                ..+.+|||||.....   
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~-~~~~--t~~~~~~~~~~~~~----------------~~l~i~D~~G~~~~~---   58 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELV-TTIP--TVGFNVEMLQLEKH----------------LSLTVWDVGGQEKMR---   58 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCcc-cccC--ccCcceEEEEeCCc----------------eEEEEEECCCCHhHH---
Confidence            5899999999999999999986432 2223  22223333443321                579999999974322   


Q ss_pred             cchhhHHHhhccccCEEEEEEecc
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                          ......++.+|++++|+|++
T Consensus        59 ----~~~~~~~~~~~~iv~v~D~~   78 (160)
T cd04156          59 ----TVWKCYLENTDGLVYVVDSS   78 (160)
T ss_pred             ----HHHHHHhccCCEEEEEEECC
Confidence                23345578899999999985

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

>cd01889 SelB_euk SelB subfamily

Probab=99.56  E-value=5.9e-14  Score=124.90  Aligned_cols=96  Identities=19%  Similarity=0.222  Sum_probs=63.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC-------CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeec
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL-------KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAG   75 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~-------~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpG   75 (363)
                      .+|+++|++|+|||||+++|++.       ....+..+++|.+.....+.+......   ............+.+|||||
T Consensus         1 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~i~DtpG   77 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHL---RELINPGEENLQITLVDCPG   77 (192)
T ss_pred             CeEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccc---cccccccccCceEEEEECCC
Confidence            47999999999999999999973       122334567787777666666421000   00000001126789999999


Q ss_pred             ccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          76 LVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        76 l~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ..       .+.+.+...++.+|++++|+|+..
T Consensus        78 ~~-------~~~~~~~~~~~~~d~vi~VvD~~~  103 (192)
T cd01889          78 HA-------SLIRTIIGGAQIIDLMLLVVDATK  103 (192)
T ss_pred             cH-------HHHHHHHHHHhhCCEEEEEEECCC
Confidence            73       234566667788999999999853

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

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.56  E-value=5.4e-14  Score=123.50  Aligned_cols=81  Identities=21%  Similarity=0.268  Sum_probs=56.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccC----------------CCceeecceeEEEEeCCcccccccccccccccccee
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAEN----------------YPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAI   67 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~----------------~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~   67 (363)
                      +|+++|.+|||||||+|+|++.......                .++.|.......+.+.+                 ..
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------~~   63 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWPD-----------------RR   63 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeCC-----------------EE
Confidence            5899999999999999999976333221                12334444444444433                 67


Q ss_pred             EEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          68 IKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        68 i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      +.+|||||....       .+.....++.+|++++|+|+++
T Consensus        64 ~~liDtpG~~~~-------~~~~~~~~~~~d~~i~v~d~~~   97 (189)
T cd00881          64 VNFIDTPGHEDF-------SSEVIRGLSVSDGAILVVDANE   97 (189)
T ss_pred             EEEEeCCCcHHH-------HHHHHHHHHhcCEEEEEEECCC
Confidence            999999997532       2345566789999999999853

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.

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

Probab=99.56  E-value=4.9e-14  Score=124.69  Aligned_cols=78  Identities=19%  Similarity=0.293  Sum_probs=59.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+++|++|||||||++.+++....  .+ ..|..++.+.+.+.+                 .++.++|+||...... 
T Consensus        18 ~~i~ivG~~~~GKTsli~~l~~~~~~--~~-~~t~~~~~~~~~~~~-----------------~~~~~~D~~G~~~~~~-   76 (184)
T smart00178       18 AKILFLGLDNAGKTTLLHMLKNDRLA--QH-QPTQHPTSEELAIGN-----------------IKFTTFDLGGHQQARR-   76 (184)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCc--cc-CCccccceEEEEECC-----------------EEEEEEECCCCHHHHH-
Confidence            68999999999999999999986432  11 225666667777766                 6789999999753221 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            ....+++++|++++|+|++
T Consensus        77 ------~~~~~~~~ad~ii~vvD~~   95 (184)
T smart00178       77 ------LWKDYFPEVNGIVYLVDAY   95 (184)
T ss_pred             ------HHHHHhCCCCEEEEEEECC
Confidence                  3335668999999999985

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.56  E-value=8.4e-14  Score=124.60  Aligned_cols=81  Identities=17%  Similarity=0.159  Sum_probs=56.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      ||+++|.+|||||||++++++.... ..++.++.......+.+.+..               ..+++||+||......  
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~---------------~~l~i~D~~G~~~~~~--   62 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFE-PKYRRTVEEMHRKEYEVGGVS---------------LTLDILDTSGSYSFPA--   62 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCC-ccCCCchhhheeEEEEECCEE---------------EEEEEEECCCchhhhH--
Confidence            6899999999999999999986433 334444434444455665532               5789999999754322  


Q ss_pred             cchhhHHHhhccccCEEEEEEecc
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                        +   ....++.+|++++|+|+.
T Consensus        63 --~---~~~~~~~ad~vilv~d~~   81 (198)
T cd04147          63 --M---RKLSIQNSDAFALVYAVD   81 (198)
T ss_pred             --H---HHHHhhcCCEEEEEEECC
Confidence              1   123558899999999984

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.

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

Probab=99.55  E-value=9e-14  Score=123.93  Aligned_cols=83  Identities=22%  Similarity=0.167  Sum_probs=57.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcC-CccccC---------------CCceeecceeEEEEeCCccccccccccccccccc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKL-KISAEN---------------YPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFP   65 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~---------------~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~   65 (363)
                      .++|+++|.+|||||||+++|++. ......               ..++|.......+.+.+                 
T Consensus         2 ~r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~-----------------   64 (194)
T cd01891           2 IRNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKD-----------------   64 (194)
T ss_pred             ccEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECC-----------------
Confidence            368999999999999999999863 111111               13344444444444444                 


Q ss_pred             eeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          66 AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        66 ~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ..+++|||||..++.       ......++.+|++++|+|+++
T Consensus        65 ~~~~l~DtpG~~~~~-------~~~~~~~~~~d~~ilV~d~~~  100 (194)
T cd01891          65 TKINIVDTPGHADFG-------GEVERVLSMVDGVLLLVDASE  100 (194)
T ss_pred             EEEEEEECCCcHHHH-------HHHHHHHHhcCEEEEEEECCC
Confidence            679999999976432       244566789999999999953

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

>cd04128 Spg1 Spg1p

Probab=99.55  E-value=9.3e-14  Score=122.86  Aligned_cols=83  Identities=13%  Similarity=0.173  Sum_probs=57.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++.+.+........|....+.....+.+++..               ..+++|||+|...... 
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~---------------~~l~iwDt~G~~~~~~-   64 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTE---------------ITFSIWDLGGQREFIN-   64 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEE---------------EEEEEEeCCCchhHHH-
Confidence            589999999999999999998764433223322222222345666543               6799999999754332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++++|++++|+|++
T Consensus        65 ------~~~~~~~~a~~iilv~D~t   83 (182)
T cd04128          65 ------MLPLVCNDAVAILFMFDLT   83 (182)
T ss_pred             ------hhHHHCcCCCEEEEEEECc
Confidence                  2224568999999999985

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

>cd04151 Arl1 Arl1 subfamily

Probab=99.55  E-value=6.3e-14  Score=120.35  Aligned_cols=77  Identities=22%  Similarity=0.311  Sum_probs=54.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      ||+++|++|||||||+++|+..... ...|  |...+...+.+.+                 .++++|||||......  
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~-~~~~--t~~~~~~~~~~~~-----------------~~~~i~Dt~G~~~~~~--   58 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVV-TTIP--TIGFNVETVTYKN-----------------LKFQVWDLGGQTSIRP--   58 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCc-CcCC--ccCcCeEEEEECC-----------------EEEEEEECCCCHHHHH--
Confidence            6899999999999999999765332 2223  4444444454444                 6799999999754322  


Q ss_pred             cchhhHHHhhccccCEEEEEEecc
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           .....++.+|++++|+|++
T Consensus        59 -----~~~~~~~~~~~ii~v~d~~   77 (158)
T cd04151          59 -----YWRCYYSNTDAIIYVVDST   77 (158)
T ss_pred             -----HHHHHhcCCCEEEEEEECC
Confidence                 3345568899999999985

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.

>cd04157 Arl6 Arl6 subfamily

Probab=99.55  E-value=5.5e-14  Score=120.57  Aligned_cols=79  Identities=20%  Similarity=0.199  Sum_probs=53.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      +|+++|++|||||||++++++.......+. .|.......+...+                 ..+++|||||......  
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~-~t~g~~~~~~~~~~-----------------~~~~l~Dt~G~~~~~~--   60 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIV-PTVGFNVESFEKGN-----------------LSFTAFDMSGQGKYRG--   60 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceec-CccccceEEEEECC-----------------EEEEEEECCCCHhhHH--
Confidence            589999999999999999998543222221 12222222333333                 6799999999754322  


Q ss_pred             cchhhHHHhhccccCEEEEEEecc
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           .....++.+|++++|+|++
T Consensus        61 -----~~~~~~~~~d~ii~v~D~~   79 (162)
T cd04157          61 -----LWEHYYKNIQGIIFVIDSS   79 (162)
T ss_pred             -----HHHHHHccCCEEEEEEeCC
Confidence                 2234568899999999985

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

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

Probab=99.55  E-value=1.1e-13  Score=119.48  Aligned_cols=83  Identities=20%  Similarity=0.133  Sum_probs=60.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCC-ccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD-KRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~-~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .|+++|++|||||||+|+|++........+++|.+.....+.... ..               ..+.+|||||.....  
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~---------------~~~~iiDtpG~~~~~--   64 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKI---------------PGITFIDTPGHEAFT--   64 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcccccccCCCeEEeeccEEEecccCCc---------------ceEEEEeCCCcHHHH--
Confidence            589999999999999999998766655666777766555555531 01               578999999964321  


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                           ......++.+|++++|+|+++
T Consensus        65 -----~~~~~~~~~~d~il~v~d~~~   85 (168)
T cd01887          65 -----NMRARGASLTDIAILVVAADD   85 (168)
T ss_pred             -----HHHHHHHhhcCEEEEEEECCC
Confidence                 122234578999999999953

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.

>KOG0084|consensus

Probab=99.54  E-value=2.8e-14  Score=123.97  Aligned_cols=152  Identities=19%  Similarity=0.180  Sum_probs=107.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||.|+|.+|||||.|+..+.+.....+-....-++.....+.+++++               .++++|||+|..++.+ 
T Consensus        10 FKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~---------------iKlQIWDTAGQERFrt-   73 (205)
T KOG0084|consen   10 FKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKT---------------IKLQIWDTAGQERFRT-   73 (205)
T ss_pred             EEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceE---------------EEEEeeeccccHHHhh-
Confidence            699999999999999999998855443333333445556677888876               7899999999866554 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .+.++.|+|++||+|.|...                                                     .
T Consensus        74 ------it~syYR~ahGii~vyDiT~-----------------------------------------------------~   94 (205)
T KOG0084|consen   74 ------ITSSYYRGAHGIIFVYDITK-----------------------------------------------------Q   94 (205)
T ss_pred             ------hhHhhccCCCeEEEEEEccc-----------------------------------------------------H
Confidence                  66788899999999999853                                                     1


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCc-EEEeeHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIP-IIIICAKLE  241 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~-~i~~sa~~e  241 (363)
                      ..++.+..|+.+                ++.+ -....|.++|+||.|+.....-..+..+++..+++.+ ++.+||+.-
T Consensus        95 ~SF~~v~~Wi~E----------------i~~~-~~~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~~~~~~~f~ETSAK~~  157 (205)
T KOG0084|consen   95 ESFNNVKRWIQE----------------IDRY-ASENVPKLLVGNKCDLTEKRVVSTEEAQEFADELGIPIFLETSAKDS  157 (205)
T ss_pred             HHhhhHHHHHHH----------------hhhh-ccCCCCeEEEeeccccHhheecCHHHHHHHHHhcCCcceeecccCCc
Confidence            334455555552                1112 1134689999999997432222345667777788888 999999965


Q ss_pred             HHHhc
Q psy2401         242 EEISD  246 (363)
Q Consensus       242 ~~i~e  246 (363)
                      .++.+
T Consensus       158 ~NVe~  162 (205)
T KOG0084|consen  158 TNVED  162 (205)
T ss_pred             cCHHH
Confidence            55443

>cd04149 Arf6 Arf6 subfamily

Probab=99.54  E-value=6.6e-14  Score=122.06  Aligned_cols=78  Identities=18%  Similarity=0.230  Sum_probs=53.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+++|++|||||||+++|+..... ...|  |...+...+...+                 ..+++|||||...... 
T Consensus        10 ~kv~i~G~~~~GKTsli~~l~~~~~~-~~~~--t~g~~~~~~~~~~-----------------~~~~l~Dt~G~~~~~~-   68 (168)
T cd04149          10 MRILMLGLDAAGKTTILYKLKLGQSV-TTIP--TVGFNVETVTYKN-----------------VKFNVWDVGGQDKIRP-   68 (168)
T ss_pred             cEEEEECcCCCCHHHHHHHHccCCCc-cccC--CcccceEEEEECC-----------------EEEEEEECCCCHHHHH-
Confidence            68999999999999999999864321 2223  2222233333333                 6799999999753221 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        69 ------~~~~~~~~a~~ii~v~D~t   87 (168)
T cd04149          69 ------LWRHYYTGTQGLIFVVDSA   87 (168)
T ss_pred             ------HHHHHhccCCEEEEEEeCC
Confidence                  2234568999999999985

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

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

Probab=99.54  E-value=1.1e-13  Score=118.68  Aligned_cols=78  Identities=21%  Similarity=0.250  Sum_probs=55.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      ||+++|++|||||||++++++.... ..  ..|.......+.+.+                 ..+.+||+||......  
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~~-~~--~~t~~~~~~~~~~~~-----------------~~~~i~D~~G~~~~~~--   58 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEVV-TT--IPTIGFNVETVEYKN-----------------VSFTVWDVGGQDKIRP--   58 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCCC-CC--CCCcCcceEEEEECC-----------------EEEEEEECCCChhhHH--
Confidence            6899999999999999999987521 11  223334444455544                 6799999999754322  


Q ss_pred             cchhhHHHhhccccCEEEEEEeccc
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                           .....++.+|++++|+|++.
T Consensus        59 -----~~~~~~~~~~~~i~v~D~~~   78 (158)
T cd00878          59 -----LWKHYYENTNGIIFVVDSSD   78 (158)
T ss_pred             -----HHHHHhccCCEEEEEEECCC
Confidence                 23345578999999999953

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

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.54  E-value=9.7e-14  Score=144.18  Aligned_cols=227  Identities=15%  Similarity=0.091  Sum_probs=171.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC---cc---------ccCC------CceeecceeEEEEeCCcccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK---IS---------AENY------PFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF   64 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~---~~---------~~~~------p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~   64 (363)
                      ++|||+||..+|||||..+|.-..   .+         ..++      .+.|+......+.|.+.               
T Consensus        11 RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~~~~---------------   75 (697)
T COG0480          11 RNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFWKGD---------------   75 (697)
T ss_pred             eEEEEEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEEcCc---------------
Confidence            689999999999999999996321   11         1111      36677777677777741               


Q ss_pred             ceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-h
Q psy2401          65 PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-Y  143 (363)
Q Consensus        65 ~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~  143 (363)
                       ..|+++||||.+++..       +..+.+|.+|+++.|+|+-++.                ..++|.+|+.+..... |
T Consensus        76 -~~iNlIDTPGHVDFt~-------EV~rslrvlDgavvVvdaveGV----------------~~QTEtv~rqa~~~~vp~  131 (697)
T COG0480          76 -YRINLIDTPGHVDFTI-------EVERSLRVLDGAVVVVDAVEGV----------------EPQTETVWRQADKYGVPR  131 (697)
T ss_pred             -eEEEEeCCCCccccHH-------HHHHHHHhhcceEEEEECCCCe----------------eecHHHHHHHHhhcCCCe
Confidence             6899999999998876       6778889999999999996654                3456899998888776 6


Q ss_pred             hhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEe-ccccccCCCchHHHHH
Q psy2401         144 IDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFV-ANVKENGFKNNLLLDQ  221 (363)
Q Consensus       144 ~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v-~Nk~d~~~~~~~~~~~  221 (363)
                      +.++|||++.+    .++..+.++++..|.....+.++|+..++  .+.++ +++..+.+.+- ....+....|.+..+.
T Consensus       132 i~fiNKmDR~~----a~~~~~~~~l~~~l~~~~~~v~~pIg~~~--~f~g~idl~~~~~~~~~~~~~~~~~~ip~~~~~~  205 (697)
T COG0480         132 ILFVNKMDRLG----ADFYLVVEQLKERLGANPVPVQLPIGAEE--EFEGVIDLVEMKAVAFGDGAKYEWIEIPADLKEI  205 (697)
T ss_pred             EEEEECccccc----cChhhhHHHHHHHhCCCceeeeccccCcc--ccCceeEhhhcCeEEEcCCcccceeeCCHHHHhH
Confidence            89999996554    46778889999999886666777888755  46654 67777777776 3333321124333333


Q ss_pred             HHHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeC
Q psy2401         222 LKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTV  285 (363)
Q Consensus       222 i~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~  285 (363)
                      ..++           +..+.+.+++.+++.++.||++..++.+.+.+.+++......+++++..
T Consensus       206 ~~e~-----------r~~~~e~i~e~de~l~e~yl~g~e~~~~~i~~~i~~~~~~~~~~pvl~g  258 (697)
T COG0480         206 AEEA-----------REKLLEALAEFDEELMEKYLEGEEPTEEEIKKALRKGTIAGKIVPVLCG  258 (697)
T ss_pred             HHHH-----------HHHHHHHHhhcCHHHHHHHhcCCCccHHHHHHHHHHhhhccceeeEEee
Confidence            3344           6778888999999999999999988889999999988888889988876

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.53  E-value=1.1e-13  Score=122.84  Aligned_cols=85  Identities=28%  Similarity=0.277  Sum_probs=58.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC--ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK--ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~--~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      ++|+++|++|||||||+|+|++..  ...++.+++|..+....  + +                 .++.+|||||+....
T Consensus        25 ~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~--~-~-----------------~~l~l~DtpG~~~~~   84 (196)
T PRK00454         25 PEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFE--V-N-----------------DKLRLVDLPGYGYAK   84 (196)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEe--c-C-----------------CeEEEeCCCCCCCcC
Confidence            689999999999999999999863  55677777776544322  1 2                 468999999975422


Q ss_pred             Ccc------cchhhHHHhhccccCEEEEEEecc
Q psy2401          81 SKG------EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~~------~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ...      ..+...++.....++++++|+|+.
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~  117 (196)
T PRK00454         85 VSKEEKEKWQKLIEEYLRTRENLKGVVLLIDSR  117 (196)
T ss_pred             CCchHHHHHHHHHHHHHHhCccceEEEEEEecC
Confidence            111      112233444555667888999874

>cd00880 Era_like Era (E

Probab=99.53  E-value=2.3e-13  Score=114.64  Aligned_cols=86  Identities=22%  Similarity=0.300  Sum_probs=67.3

Q ss_pred             EEeCCCCcHHHHHHHHHcCCcc-ccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcccc
Q psy2401           7 LIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEG   85 (363)
Q Consensus         7 lvG~~g~GKSTL~n~Lt~~~~~-~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~   85 (363)
                      ++|++|||||||+|+|++.... .++.+++|..+........+.                ..+.+|||||+.........
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~Dt~g~~~~~~~~~~   64 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELGPL----------------GPVVLIDTPGIDEAGGLGRE   64 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEecCC----------------CcEEEEECCCCCccccchhh
Confidence            5899999999999999987544 778888888888777666531                57999999999876654443


Q ss_pred             hhhHHHhhccccCEEEEEEeccc
Q psy2401          86 LGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        86 l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ........++.+|++++|+|+..
T Consensus        65 ~~~~~~~~~~~~d~il~v~~~~~   87 (163)
T cd00880          65 REELARRVLERADLILFVVDADL   87 (163)
T ss_pred             HHHHHHHHHHhCCEEEEEEeCCC
Confidence            33455567789999999999953

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

>cd01892 Miro2 Miro2 subfamily

Probab=99.53  E-value=1.7e-13  Score=119.54  Aligned_cols=83  Identities=17%  Similarity=0.167  Sum_probs=57.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCcee-ecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCT-IEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t-~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .||+++|.+|||||||++++++....+.+|..|+ .......+.+++..               ..+.+||++|......
T Consensus         5 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~---------------~~l~~~d~~g~~~~~~   69 (169)
T cd01892           5 FLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQE---------------KYLILREVGEDEVAIL   69 (169)
T ss_pred             EEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeE---------------EEEEEEecCCcccccc
Confidence            6899999999999999999998765424443333 22223446666643               5688999998754432


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                             .....++.+|++++|+|++
T Consensus        70 -------~~~~~~~~~d~~llv~d~~   88 (169)
T cd01892          70 -------LNDAELAACDVACLVYDSS   88 (169)
T ss_pred             -------cchhhhhcCCEEEEEEeCC
Confidence                   1123458999999999984

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.

>KOG0092|consensus

Probab=99.53  E-value=1.9e-13  Score=118.40  Aligned_cols=151  Identities=20%  Similarity=0.186  Sum_probs=101.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .|++|+|..|||||||+-+.....+...--|.+-...-.-.+.+++..               .++.+|||+|..++.+.
T Consensus         6 ~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~---------------ikfeIWDTAGQERy~sl   70 (200)
T KOG0092|consen    6 FKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNT---------------IKFEIWDTAGQERYHSL   70 (200)
T ss_pred             EEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcE---------------EEEEEEEcCCccccccc
Confidence            689999999999999999988765443222222222223345666543               78999999999876553


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                      ..       .+.|+|+++|+|.|+.+                                                     .
T Consensus        71 ap-------MYyRgA~AAivvYDit~-----------------------------------------------------~   90 (200)
T KOG0092|consen   71 AP-------MYYRGANAAIVVYDITD-----------------------------------------------------E   90 (200)
T ss_pred             cc-------ceecCCcEEEEEEeccc-----------------------------------------------------H
Confidence            32       56699999999999842                                                     2


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEE--EeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPII--FVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL  240 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i--~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~  240 (363)
                      +.+++++.|+.+                   +......-++  +|+||+|+........++.+.++.+.|..++.+||++
T Consensus        91 ~SF~~aK~Wvke-------------------L~~~~~~~~vialvGNK~DL~~~R~V~~~ea~~yAe~~gll~~ETSAKT  151 (200)
T KOG0092|consen   91 ESFEKAKNWVKE-------------------LQRQASPNIVIALVGNKADLLERREVEFEEAQAYAESQGLLFFETSAKT  151 (200)
T ss_pred             HHHHHHHHHHHH-------------------HHhhCCCCeEEEEecchhhhhhcccccHHHHHHHHHhcCCEEEEEeccc
Confidence            445556665542                   1111122233  3789999742234567888899999999999999996


Q ss_pred             HHHHhcC
Q psy2401         241 EEEISDL  247 (363)
Q Consensus       241 e~~i~el  247 (363)
                      ..++.++
T Consensus       152 g~Nv~~i  158 (200)
T KOG0092|consen  152 GENVNEI  158 (200)
T ss_pred             ccCHHHH
Confidence            6555444

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.52  E-value=8.9e-14  Score=120.69  Aligned_cols=78  Identities=23%  Similarity=0.298  Sum_probs=53.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      +|+++|++|||||||++.+++........|  |.......+...+                 .++.+||+||......  
T Consensus         1 ~i~ivG~~~vGKTsli~~~~~~~~~~~~~p--t~g~~~~~i~~~~-----------------~~l~i~Dt~G~~~~~~--   59 (164)
T cd04162           1 QILVLGLDGAGKTSLLHSLSSERSLESVVP--TTGFNSVAIPTQD-----------------AIMELLEIGGSQNLRK--   59 (164)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCcccccc--cCCcceEEEeeCC-----------------eEEEEEECCCCcchhH--
Confidence            479999999999999999997643322222  2222222233322                 6899999999754332  


Q ss_pred             cchhhHHHhhccccCEEEEEEecc
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           ....+++++|++++|+|++
T Consensus        60 -----~~~~~~~~ad~ii~V~D~t   78 (164)
T cd04162          60 -----YWKRYLSGSQGLIFVVDSA   78 (164)
T ss_pred             -----HHHHHHhhCCEEEEEEECC
Confidence                 3335679999999999985

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.

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.52  E-value=1.4e-13  Score=121.63  Aligned_cols=79  Identities=22%  Similarity=0.280  Sum_probs=54.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||.++|.+|||||||++.++..... ...|  |...+...+...+                 ..+++||+||.....  
T Consensus        18 ~ki~ivG~~~~GKTsl~~~l~~~~~~-~~~p--t~g~~~~~~~~~~-----------------~~~~i~D~~Gq~~~~--   75 (181)
T PLN00223         18 MRILMVGLDAAGKTTILYKLKLGEIV-TTIP--TIGFNVETVEYKN-----------------ISFTVWDVGGQDKIR--   75 (181)
T ss_pred             cEEEEECCCCCCHHHHHHHHccCCCc-cccC--CcceeEEEEEECC-----------------EEEEEEECCCCHHHH--
Confidence            68999999999999999999864322 2222  3333333344444                 679999999964321  


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                           ......++++|++++|+|+++
T Consensus        76 -----~~~~~~~~~a~~iI~V~D~s~   96 (181)
T PLN00223         76 -----PLWRHYFQNTQGLIFVVDSND   96 (181)
T ss_pred             -----HHHHHHhccCCEEEEEEeCCc
Confidence                 223345689999999999853

>KOG0078|consensus

Probab=99.52  E-value=9.4e-14  Score=122.27  Aligned_cols=164  Identities=20%  Similarity=0.104  Sum_probs=115.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +|+.++|.+|||||+++-++....+..+.....-++.....+.+++.+               ..+++|||+|..++.. 
T Consensus        13 ~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~---------------i~lQiWDtaGQerf~t-   76 (207)
T KOG0078|consen   13 FKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKK---------------IKLQIWDTAGQERFRT-   76 (207)
T ss_pred             EEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeE---------------EEEEEEEcccchhHHH-
Confidence            689999999999999999998754443333333455556667777755               7899999999876554 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .+.+++|.|+.+++|+|....                                                     
T Consensus        77 ------i~~sYyrgA~gi~LvyDitne-----------------------------------------------------   97 (207)
T KOG0078|consen   77 ------ITTAYYRGAMGILLVYDITNE-----------------------------------------------------   97 (207)
T ss_pred             ------HHHHHHhhcCeeEEEEEccch-----------------------------------------------------
Confidence                  667888999999999998531                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      ..++.+..|++.                ++... -...|.++|+||.|.........++-++++.++|..++.+||+...
T Consensus        98 ~Sfeni~~W~~~----------------I~e~a-~~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~G~~F~EtSAk~~~  160 (207)
T KOG0078|consen   98 KSFENIRNWIKN----------------IDEHA-SDDVVKILVGNKCDLEEKRQVSKERGEALAREYGIKFFETSAKTNF  160 (207)
T ss_pred             HHHHHHHHHHHH----------------HHhhC-CCCCcEEEeeccccccccccccHHHHHHHHHHhCCeEEEccccCCC
Confidence            122333333331                11111 1367889999999975322334566777788899999999999988


Q ss_pred             HHhcCCHHHHHHHHhh
Q psy2401         243 EISDLNNIDKKFFLDN  258 (363)
Q Consensus       243 ~i~el~~~~~~~~l~~  258 (363)
                      +|.+..-.+.++.+..
T Consensus       161 NI~eaF~~La~~i~~k  176 (207)
T KOG0078|consen  161 NIEEAFLSLARDILQK  176 (207)
T ss_pred             CHHHHHHHHHHHHHhh
Confidence            8877655555555543

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.52  E-value=2.6e-13  Score=119.11  Aligned_cols=82  Identities=20%  Similarity=0.247  Sum_probs=55.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||++.+...... .+|..|........+.+++..               ..+++|||||..+... 
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~-   64 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISYTTNKFP-SEYVPTVFDNYAVTVMIGGEP---------------YTLGLFDTAGQEDYDR-   64 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCC-CCCCCceeeeeEEEEEECCEE---------------EEEEEEECCCccchhh-
Confidence            58999999999999999999975543 233222222222234555532               6789999999765432 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                         +   ....++.+|++++|+|+.
T Consensus        65 ---~---~~~~~~~a~~~ilv~d~~   83 (175)
T cd01874          65 ---L---RPLSYPQTDVFLVCFSVV   83 (175)
T ss_pred             ---h---hhhhcccCCEEEEEEECC
Confidence               1   123568999999999985

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.52  E-value=1.9e-13  Score=124.48  Aligned_cols=83  Identities=14%  Similarity=-0.004  Sum_probs=54.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||+++++.........|....+.....+..++..               ..+.+|||||...+.. 
T Consensus        14 ~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~-   77 (219)
T PLN03071         14 FKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGK---------------IRFYCWDTAGQEKFGG-   77 (219)
T ss_pred             eEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeE---------------EEEEEEECCCchhhhh-
Confidence            699999999999999999987654332222211111122223333322               6799999999765432 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                         +   ....++.+|++|+|+|.+
T Consensus        78 ---~---~~~~~~~~~~~ilvfD~~   96 (219)
T PLN03071         78 ---L---RDGYYIHGQCAIIMFDVT   96 (219)
T ss_pred             ---h---hHHHcccccEEEEEEeCC
Confidence               1   123468999999999985

>cd00157 Rho Rho (Ras homology) family

Probab=99.52  E-value=4.9e-13  Score=115.72  Aligned_cols=82  Identities=21%  Similarity=0.191  Sum_probs=55.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|++|||||||+++|++........|.. .+.....+..++..               ..+++||+||.......
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~-~~~~~~~~~~~~~~---------------~~l~~~D~~g~~~~~~~   64 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTV-FDNYSATVTVDGKQ---------------VNLGLWDTAGQEEYDRL   64 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCce-eeeeEEEEEECCEE---------------EEEEEEeCCCccccccc
Confidence            589999999999999999999875533333322 12222333444422               57899999997654221


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                             ....++.+|++++|+|+.
T Consensus        65 -------~~~~~~~~~~~i~v~d~~   82 (171)
T cd00157          65 -------RPLSYPNTDVFLICFSVD   82 (171)
T ss_pred             -------chhhcCCCCEEEEEEECC
Confidence                   112347899999999984

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

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

Probab=99.52  E-value=2.4e-13  Score=119.23  Aligned_cols=78  Identities=19%  Similarity=0.237  Sum_probs=53.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||++.+..... ....|  |...+...+.+.+                 ..+.+|||||...... 
T Consensus        14 ~ki~l~G~~~~GKTsL~~~~~~~~~-~~~~~--t~~~~~~~~~~~~-----------------~~l~l~D~~G~~~~~~-   72 (175)
T smart00177       14 MRILMVGLDAAGKTTILYKLKLGES-VTTIP--TIGFNVETVTYKN-----------------ISFTVWDVGGQDKIRP-   72 (175)
T ss_pred             cEEEEEcCCCCCHHHHHHHHhcCCC-CCcCC--ccccceEEEEECC-----------------EEEEEEECCCChhhHH-
Confidence            6899999999999999999964332 12223  3233333344433                 6799999999754322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        73 ------~~~~~~~~ad~ii~v~D~t   91 (175)
T smart00177       73 ------LWRHYYTNTQGLIFVVDSN   91 (175)
T ss_pred             ------HHHHHhCCCCEEEEEEECC
Confidence                  2234468999999999985

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).

>PRK13351 elongation factor G; Reviewed

Probab=99.52  E-value=1.6e-13  Score=144.82  Aligned_cols=225  Identities=17%  Similarity=0.151  Sum_probs=149.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc---c---------ccC------CCceeecceeEEEEeCCcccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI---S---------AEN------YPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF   64 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~---~---------~~~------~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~   64 (363)
                      .+|+++|+.|+|||||+++|+....   .         ..+      ..+.|+......+.+.+                
T Consensus         9 rni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~~~----------------   72 (687)
T PRK13351          9 RNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWDN----------------   72 (687)
T ss_pred             cEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEECC----------------
Confidence            5899999999999999999974311   0         111      12445555556666665                


Q ss_pred             ceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-h
Q psy2401          65 PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-Y  143 (363)
Q Consensus        65 ~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~  143 (363)
                       ..+++|||||..++.       ......++.+|++++|+|+.++..                ..++..|..+..... .
T Consensus        73 -~~i~liDtPG~~df~-------~~~~~~l~~aD~~ilVvd~~~~~~----------------~~~~~~~~~~~~~~~p~  128 (687)
T PRK13351         73 -HRINLIDTPGHIDFT-------GEVERSLRVLDGAVVVFDAVTGVQ----------------PQTETVWRQADRYGIPR  128 (687)
T ss_pred             -EEEEEEECCCcHHHH-------HHHHHHHHhCCEEEEEEeCCCCCC----------------HHHHHHHHHHHhcCCCE
Confidence             789999999986533       245567799999999999964321                112333434433334 3


Q ss_pred             hhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEec-cc----cccCCCchH
Q psy2401         144 IDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFVA-NV----KENGFKNNL  217 (363)
Q Consensus       144 ~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v~-Nk----~d~~~~~~~  217 (363)
                      +..+||+++.+    .+...+++++++.|.....+.++|+..+.  .+.++ ++...+...+-. +.    ...+ .+..
T Consensus       129 iiviNK~D~~~----~~~~~~~~~i~~~l~~~~~~~~~P~~~~~--~~~g~id~~~~~~~~~~~~~~~~~~~~~~-~~~~  201 (687)
T PRK13351        129 LIFINKMDRVG----ADLFKVLEDIEERFGKRPLPLQLPIGSED--GFEGVVDLITEPELHFSEGDGGSTVEEGP-IPEE  201 (687)
T ss_pred             EEEEECCCCCC----CCHHHHHHHHHHHHCCCeEEEEeccccCC--ceEEEEECccceEEecccCCCCCceEEcc-CCHH
Confidence            56788886543    34667889999999876666666776544  34445 444444443321 10    0011 2344


Q ss_pred             HHHHHHHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeC
Q psy2401         218 LLDQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTV  285 (363)
Q Consensus       218 ~~~~i~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~  285 (363)
                      ..+.+.++           ..++-+.+++.+++++++||++..++.+.+...++.++..-.++|+|..
T Consensus       202 ~~~~~~~~-----------~~~l~e~~~~~d~~lle~~l~~~~l~~~~l~~~~~~~~~~~~~~PV~~g  258 (687)
T PRK13351        202 LLEEVEEA-----------REKLIEALAEFDDELLELYLEGEELSAEQLRAPLREGTRSGHLVPVLFG  258 (687)
T ss_pred             HHHHHHHH-----------HHHHHHHHHhcCHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCEEEEEec
Confidence            45555444           3456777889999999999998888888999999988888899999965

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.51  E-value=1.7e-13  Score=119.21  Aligned_cols=77  Identities=19%  Similarity=0.184  Sum_probs=54.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      +|+++|++|||||||++.+++. .....  ..|...+...+.+.+                 ..+++||+||.....   
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~-~~~~~--~~t~g~~~~~~~~~~-----------------~~~~i~D~~G~~~~~---   57 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGE-IPKKV--APTVGFTPTKLRLDK-----------------YEVCIFDLGGGANFR---   57 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCC-CCccc--cCcccceEEEEEECC-----------------EEEEEEECCCcHHHH---
Confidence            4899999999999999999985 21111  123344444555544                 679999999964322   


Q ss_pred             cchhhHHHhhccccCEEEEEEecc
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                          .....+++++|++++|+|++
T Consensus        58 ----~~~~~~~~~a~~ii~V~D~s   77 (167)
T cd04161          58 ----GIWVNYYAEAHGLVFVVDSS   77 (167)
T ss_pred             ----HHHHHHHcCCCEEEEEEECC
Confidence                23456779999999999985

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.

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

Probab=99.51  E-value=3e-13  Score=117.72  Aligned_cols=80  Identities=20%  Similarity=0.158  Sum_probs=53.5

Q ss_pred             EEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCccc
Q psy2401           5 CGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGE   84 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~   84 (363)
                      |+++|.+|||||||++++.+........|. ........+.+++..               ..+.+|||||.......  
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~~--   62 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYVPT-VFENYSADVEVDGKP---------------VELGLWDTAGQEDYDRL--   62 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCCCc-EEeeeeEEEEECCEE---------------EEEEEEECCCCcccchh--
Confidence            579999999999999999986543332232 222222334444432               57899999997543321  


Q ss_pred             chhhHHHhhccccCEEEEEEecc
Q psy2401          85 GLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        85 ~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           ....++.+|++++|+|++
T Consensus        63 -----~~~~~~~~d~~ilv~d~~   80 (174)
T smart00174       63 -----RPLSYPDTDVFLICFSVD   80 (174)
T ss_pred             -----chhhcCCCCEEEEEEECC
Confidence                 113457899999999984

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

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

Probab=99.51  E-value=7.2e-14  Score=124.07  Aligned_cols=82  Identities=23%  Similarity=0.272  Sum_probs=59.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcccc------------------CCCceeecceeEEEE--eCCcccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAE------------------NYPFCTIEPNIGIIE--VPDKRLKHLNNIVKTKK   62 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~------------------~~p~~t~~~~~g~v~--~~~~~~~~l~~~~~~~~   62 (363)
                      ++|+++|+.++|||||+++|+.......                  ...+.|.+.......  ..+              
T Consensus         4 ~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~~~~~--------------   69 (188)
T PF00009_consen    4 RNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEKNENN--------------   69 (188)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEBTESS--------------
T ss_pred             EEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccccccc--------------
Confidence            5799999999999999999985421110                  113445555555555  333              


Q ss_pred             ccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          63 IFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        63 ~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                         ..++++||||..+       +.......++.+|++++|||+.+
T Consensus        70 ---~~i~~iDtPG~~~-------f~~~~~~~~~~~D~ailvVda~~  105 (188)
T PF00009_consen   70 ---RKITLIDTPGHED-------FIKEMIRGLRQADIAILVVDAND  105 (188)
T ss_dssp             ---EEEEEEEESSSHH-------HHHHHHHHHTTSSEEEEEEETTT
T ss_pred             ---cceeecccccccc-------eeecccceecccccceeeeeccc
Confidence               7899999999753       33466677899999999999954

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 ....

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.51  E-value=1.4e-13  Score=121.54  Aligned_cols=82  Identities=20%  Similarity=0.167  Sum_probs=54.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeC-CccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVP-DKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~-~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +||+++|.+|||||||++++.+........| ++.......+... +..               ..+.+|||||......
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~~~-t~~~~~~~~i~~~~~~~---------------~~l~i~Dt~G~~~~~~   64 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEYVP-TVFENYVTNIQGPNGKI---------------IELALWDTAGQEEYDR   64 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCCCCC-eeeeeeEEEEEecCCcE---------------EEEEEEECCCchhHHH
Confidence            5899999999999999999998654322222 2222222234443 221               5789999999643221


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                             .....++.+|++++|+|++
T Consensus        65 -------~~~~~~~~ad~ii~v~d~~   83 (187)
T cd04132          65 -------LRPLSYPDVDVLLICYAVD   83 (187)
T ss_pred             -------HHHHhCCCCCEEEEEEECC
Confidence                   1223568899999999985

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.

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.51  E-value=1.1e-13  Score=140.96  Aligned_cols=156  Identities=18%  Similarity=0.138  Sum_probs=100.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC---Ccccc-------------CC------CceeecceeEEEEeCCcccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL---KISAE-------------NY------PFCTIEPNIGIIEVPDKRLKHLNNIVKT   60 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~---~~~~~-------------~~------p~~t~~~~~g~v~~~~~~~~~l~~~~~~   60 (363)
                      ++|+|+|++|+|||||+++|+..   ....+             ++      .+.|+......+.+++            
T Consensus        11 Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~------------   78 (526)
T PRK00741         11 RTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRD------------   78 (526)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECC------------
Confidence            58999999999999999999632   11111             11      1222333333444444            


Q ss_pred             ccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHH
Q psy2401          61 KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAIL  140 (363)
Q Consensus        61 ~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~  140 (363)
                           .++++|||||..++..       .....++.+|++++|+|+.++.                ....+..+..+...
T Consensus        79 -----~~inliDTPG~~df~~-------~~~~~l~~aD~aIlVvDa~~gv----------------~~~t~~l~~~~~~~  130 (526)
T PRK00741         79 -----CLINLLDTPGHEDFSE-------DTYRTLTAVDSALMVIDAAKGV----------------EPQTRKLMEVCRLR  130 (526)
T ss_pred             -----EEEEEEECCCchhhHH-------HHHHHHHHCCEEEEEEecCCCC----------------CHHHHHHHHHHHhc
Confidence                 7899999999865432       5566778999999999996431                11234444444333


Q ss_pred             Hh-hhhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEE
Q psy2401         141 EK-YIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIF  204 (363)
Q Consensus       141 ~~-~~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~  204 (363)
                      .. .+..+||+++.+    .+..++++++++.|.....+...|++.++  .++++ ++++.+.+.|
T Consensus       131 ~iPiiv~iNK~D~~~----a~~~~~l~~i~~~l~~~~~p~~~Pig~~~--~f~Gvvdl~~~~~~~~  190 (526)
T PRK00741        131 DTPIFTFINKLDRDG----REPLELLDEIEEVLGIACAPITWPIGMGK--RFKGVYDLYNDEVELY  190 (526)
T ss_pred             CCCEEEEEECCcccc----cCHHHHHHHHHHHhCCCCeeEEeccccCC--ceeEEEEeecceeeec
Confidence            44 357889985433    23567788888888876667777887665  56666 6666666555

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

Probab=99.50  E-value=2.5e-13  Score=116.70  Aligned_cols=148  Identities=20%  Similarity=0.244  Sum_probs=94.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      ||+++|.+|||||||++.+.+........|....+.....+..++..               ..+++||++|.....   
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~l~i~D~~g~~~~~---   62 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKP---------------VNLEIWDTSGQERFD---   62 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEE---------------EEEEEEEETTSGGGH---
T ss_pred             CEEEECCCCCCHHHHHHHHHhhccccccccccccccccccccccccc---------------ccccccccccccccc---
Confidence            79999999999999999999865443333322234445556666543               789999999853221   


Q ss_pred             cchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHHH
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLK  163 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~~  163 (363)
                       .+   ....++++|++++|+|..+.                                                     +
T Consensus        63 -~~---~~~~~~~~~~~ii~fd~~~~-----------------------------------------------------~   85 (162)
T PF00071_consen   63 -SL---RDIFYRNSDAIIIVFDVTDE-----------------------------------------------------E   85 (162)
T ss_dssp             -HH---HHHHHTTESEEEEEEETTBH-----------------------------------------------------H
T ss_pred             -cc---cccccccccccccccccccc-----------------------------------------------------c
Confidence             11   12345889999999998421                                                     2


Q ss_pred             HHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHHH
Q psy2401         164 LLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEEE  243 (363)
Q Consensus       164 ~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~~  243 (363)
                      .++.+..|++                .+..+.. ...|+++++||.|......-..++.++++.+++.+++.+||+...+
T Consensus        86 S~~~~~~~~~----------------~i~~~~~-~~~~iivvg~K~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~  148 (162)
T PF00071_consen   86 SFENLKKWLE----------------EIQKYKP-EDIPIIVVGNKSDLSDEREVSVEEAQEFAKELGVPYFEVSAKNGEN  148 (162)
T ss_dssp             HHHTHHHHHH----------------HHHHHST-TTSEEEEEEETTTGGGGSSSCHHHHHHHHHHTTSEEEEEBTTTTTT
T ss_pred             cccccccccc----------------ccccccc-ccccceeeeccccccccccchhhHHHHHHHHhCCEEEEEECCCCCC
Confidence            2233333332                1121211 3579999999999642112234567777888889999999985433

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 ....

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.50  E-value=3.3e-13  Score=119.24  Aligned_cols=79  Identities=22%  Similarity=0.282  Sum_probs=55.0

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      ..||+++|++|||||||++.+...... ...|  |...+...+...+                 ..+.+|||||..... 
T Consensus        17 ~~kv~lvG~~~vGKTsli~~~~~~~~~-~~~~--T~~~~~~~~~~~~-----------------~~~~l~D~~G~~~~~-   75 (182)
T PTZ00133         17 EVRILMVGLDAAGKTTILYKLKLGEVV-TTIP--TIGFNVETVEYKN-----------------LKFTMWDVGGQDKLR-   75 (182)
T ss_pred             ccEEEEEcCCCCCHHHHHHHHhcCCcc-ccCC--ccccceEEEEECC-----------------EEEEEEECCCCHhHH-
Confidence            368999999999999999999754322 1223  3334444455444                 679999999964322 


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            ......++.+|++++|+|++
T Consensus        76 ------~~~~~~~~~ad~iI~v~D~t   95 (182)
T PTZ00133         76 ------PLWRHYYQNTNGLIFVVDSN   95 (182)
T ss_pred             ------HHHHHHhcCCCEEEEEEeCC
Confidence                  12334568999999999985

>KOG0080|consensus

Probab=99.50  E-value=1.9e-13  Score=114.89  Aligned_cols=170  Identities=16%  Similarity=0.111  Sum_probs=110.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||.+||.+|+|||||+-.++...+....-.....+.....+.+++.+               .++.+|||+|..++.. 
T Consensus        12 ~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~---------------~KlaiWDTAGqErFRt-   75 (209)
T KOG0080|consen   12 FKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKR---------------LKLAIWDTAGQERFRT-   75 (209)
T ss_pred             EEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCce---------------EEEEEEeccchHhhhc-
Confidence            799999999999999999998764432221223345556678888876               7899999999877665 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            ..-++.|.|..+|+|.|....                                                     
T Consensus        76 ------LTpSyyRgaqGiIlVYDVT~R-----------------------------------------------------   96 (209)
T KOG0080|consen   76 ------LTPSYYRGAQGIILVYDVTSR-----------------------------------------------------   96 (209)
T ss_pred             ------cCHhHhccCceeEEEEEccch-----------------------------------------------------
Confidence                  233566999999999998531                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      +++.++.-|+.+                +..|.--...-.++|+||.|......--.++=.+++++++.-++.+||+..+
T Consensus        97 dtf~kLd~W~~E----------------ld~Ystn~diikmlVgNKiDkes~R~V~reEG~kfAr~h~~LFiE~SAkt~~  160 (209)
T KOG0080|consen   97 DTFVKLDIWLKE----------------LDLYSTNPDIIKMLVGNKIDKESERVVDREEGLKFARKHRCLFIECSAKTRE  160 (209)
T ss_pred             hhHHhHHHHHHH----------------HHhhcCCccHhHhhhcccccchhcccccHHHHHHHHHhhCcEEEEcchhhhc
Confidence            111111122221                1112111112224589999964211112233345667778889999999999


Q ss_pred             HHhcCCHHHHHHHHhhcCCCc
Q psy2401         243 EISDLNNIDKKFFLDNLGLKE  263 (363)
Q Consensus       243 ~i~el~~~~~~~~l~~~~l~~  263 (363)
                      ++..-.+|+.++.++..++.+
T Consensus       161 ~V~~~FeelveKIi~tp~l~~  181 (209)
T KOG0080|consen  161 NVQCCFEELVEKIIETPSLWE  181 (209)
T ss_pred             cHHHHHHHHHHHHhcCcchhh
Confidence            988888888887777665544

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.50  E-value=4.3e-13  Score=138.07  Aligned_cols=84  Identities=20%  Similarity=0.198  Sum_probs=65.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +.+|+++|++|+|||||+++|.+.......+++.|.+.....+.+++.                ..+.+|||||...+..
T Consensus        87 ~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~----------------~~i~~iDTPGhe~F~~  150 (587)
T TIGR00487        87 PPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDG----------------KMITFLDTPGHEAFTS  150 (587)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCC----------------cEEEEEECCCCcchhh
Confidence            468999999999999999999987766667788887776666666552                3789999999765433


Q ss_pred             cccchhhHHHhhccccCEEEEEEeccc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                             .....++.+|++++|+|+.+
T Consensus       151 -------~r~rga~~aDiaILVVda~d  170 (587)
T TIGR00487       151 -------MRARGAKVTDIVVLVVAADD  170 (587)
T ss_pred             -------HHHhhhccCCEEEEEEECCC
Confidence                   22345688999999999853

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.

>cd04135 Tc10 TC10 subfamily

Probab=99.49  E-value=8.8e-13  Score=114.77  Aligned_cols=82  Identities=21%  Similarity=0.251  Sum_probs=55.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|++|+|||||++++++.... ..+..+..+.....+.+++..               ..+.+|||||.......
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~~   64 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYANDAFP-EEYVPTVFDHYAVSVTVGGKQ---------------YLLGLYDTAGQEDYDRL   64 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCC-CCCCCceeeeeEEEEEECCEE---------------EEEEEEeCCCccccccc
Confidence            58999999999999999999986543 222222222223345555532               56889999997654332


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ..       ..++.+|++++|+|..
T Consensus        65 ~~-------~~~~~~~~~ilv~~~~   82 (174)
T cd04135          65 RP-------LSYPMTDVFLICFSVV   82 (174)
T ss_pred             cc-------ccCCCCCEEEEEEECC
Confidence            11       2357899999999984

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

>cd04126 Rab20 Rab20 subfamily

Probab=99.49  E-value=3.1e-13  Score=123.07  Aligned_cols=78  Identities=24%  Similarity=0.237  Sum_probs=53.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++.+.+.... ...|  |+........+..                 ..+.+|||||...+.. 
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~-~~~~--Tig~~~~~~~~~~-----------------~~l~iwDt~G~e~~~~-   59 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFK-DTVS--TVGGAFYLKQWGP-----------------YNISIWDTAGREQFHG-   59 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCC-CCCC--ccceEEEEEEeeE-----------------EEEEEEeCCCcccchh-
Confidence            58999999999999999999986543 1222  3222222222221                 6789999999754332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                         +..   ..++.+|++|+|+|++
T Consensus        60 ---l~~---~~~~~ad~~IlV~Dvt   78 (220)
T cd04126          60 ---LGS---MYCRGAAAVILTYDVS   78 (220)
T ss_pred             ---hHH---HHhccCCEEEEEEECC
Confidence               222   3468999999999985

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

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

Probab=99.49  E-value=2.7e-13  Score=122.00  Aligned_cols=98  Identities=19%  Similarity=0.089  Sum_probs=55.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc---ccCCCceeecceeEEEEeCCc---c---cc-----cccc--cc---ccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS---AENYPFCTIEPNIGIIEVPDK---R---LK-----HLNN--IV---KTKKI   63 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~---~~~~p~~t~~~~~g~v~~~~~---~---~~-----~l~~--~~---~~~~~   63 (363)
                      .+||++|++|+|||||+.+|++....   ..-..+.|.........+.-.   +   ..     ....  .+   .+...
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETK   80 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCccc
Confidence            47999999999999999999874211   011112222222222222100   0   00     0000  00   00011


Q ss_pred             cceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecc
Q psy2401          64 FPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        64 ~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ...++.+|||||..       .+...++..++.+|++++|+|+.
T Consensus        81 ~~~~i~~iDtPG~~-------~~~~~~~~~~~~~D~~llVvd~~  117 (203)
T cd01888          81 LVRHVSFVDCPGHE-------ILMATMLSGAAVMDGALLLIAAN  117 (203)
T ss_pred             cccEEEEEECCChH-------HHHHHHHHhhhcCCEEEEEEECC
Confidence            12579999999953       24457778888999999999995

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

>cd04133 Rop_like Rop subfamily

Probab=99.49  E-value=7e-13  Score=116.71  Aligned_cols=82  Identities=18%  Similarity=0.238  Sum_probs=56.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .|++++|.+|+|||||+..+..........| |........+.+++..               ..+++|||+|..++...
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~-Ti~~~~~~~~~~~~~~---------------v~l~i~Dt~G~~~~~~~   65 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIP-TVFDNFSANVSVDGNT---------------VNLGLWDTAGQEDYNRL   65 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCC-cceeeeEEEEEECCEE---------------EEEEEEECCCCcccccc
Confidence            5899999999999999999997655333223 2112122234455433               67999999997654432


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .       ...++++|++++|+|..
T Consensus        66 ~-------~~~~~~a~~~ilvyd~~   83 (176)
T cd04133          66 R-------PLSYRGADVFVLAFSLI   83 (176)
T ss_pred             c-------hhhcCCCcEEEEEEEcC
Confidence            1       23568999999999985

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,

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.48  E-value=3.1e-13  Score=124.02  Aligned_cols=82  Identities=18%  Similarity=0.149  Sum_probs=55.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||++.+.+........|... ......+.+++..               ..+++|||+|...+.. 
T Consensus        14 ~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~-~~~~~~i~~~~~~---------------v~l~iwDTaG~e~~~~-   76 (232)
T cd04174          14 CKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVF-ENYTAGLETEEQR---------------VELSLWDTSGSPYYDN-   76 (232)
T ss_pred             EEEEEECCCCCcHHHHHHHHhcCCCCCCcCCcee-eeeEEEEEECCEE---------------EEEEEEeCCCchhhHH-
Confidence            6899999999999999999997644322223211 1112234555543               6799999999643322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++++|++++|+|++
T Consensus        77 ------~~~~~~~~ad~vIlVyDit   95 (232)
T cd04174          77 ------VRPLCYSDSDAVLLCFDIS   95 (232)
T ss_pred             ------HHHHHcCCCcEEEEEEECC
Confidence                  2224568999999999985

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.

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.48  E-value=1e-12  Score=113.51  Aligned_cols=76  Identities=18%  Similarity=0.093  Sum_probs=51.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++.+....... .++. +.......+.+++..               ..+.+|||+|...    
T Consensus         1 ~ki~vvG~~gvGKTsli~~~~~~~f~~-~~~~-~~~~~~~~i~~~~~~---------------~~l~i~D~~g~~~----   59 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSYVQ-LESP-EGGRFKKEVLVDGQS---------------HLLLIRDEGGAPD----   59 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhCCCCC-CCCC-CccceEEEEEECCEE---------------EEEEEEECCCCCc----
Confidence            489999999999999999877543321 1221 112223446666632               6789999999732    


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           .   ...+.+|++++|+|.+
T Consensus        60 -----~---~~~~~~~~~ilv~d~~   76 (158)
T cd04103          60 -----A---QFASWVDAVIFVFSLE   76 (158)
T ss_pred             -----h---hHHhcCCEEEEEEECC
Confidence                 1   2347799999999985

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.

>cd04131 Rnd Rnd subfamily

Probab=99.48  E-value=2.9e-13  Score=119.27  Aligned_cols=82  Identities=17%  Similarity=0.180  Sum_probs=55.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++.+.+........| |........+.+++..               ..+++|||||...+.. 
T Consensus         2 ~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~-t~~~~~~~~~~~~~~~---------------~~l~iwDt~G~~~~~~-   64 (178)
T cd04131           2 CKIVVVGDVQCGKTALLQVFAKDCYPETYVP-TVFENYTASFEIDEQR---------------IELSLWDTSGSPYYDN-   64 (178)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCcCCCCcCC-ceEEEEEEEEEECCEE---------------EEEEEEECCCchhhhh-
Confidence            5899999999999999999998644322222 2111112234555543               6799999999654322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                         +   ....++++|++++|+|.+
T Consensus        65 ---~---~~~~~~~a~~~ilvfdit   83 (178)
T cd04131          65 ---V---RPLCYPDSDAVLICFDIS   83 (178)
T ss_pred             ---c---chhhcCCCCEEEEEEECC
Confidence               1   123568999999999985

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.

>cd01893 Miro1 Miro1 subfamily

Probab=99.48  E-value=1e-12  Score=113.95  Aligned_cols=81  Identities=26%  Similarity=0.287  Sum_probs=53.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||++++++.... ..+|.++ ....-...+.+..               ..+++|||||...... 
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~-~~~~~~~-~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~-   62 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFP-ENVPRVL-PEITIPADVTPER---------------VPTTIVDTSSRPQDRA-   62 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCC-ccCCCcc-cceEeeeeecCCe---------------EEEEEEeCCCchhhhH-
Confidence            38999999999999999999986442 2244322 1111112233322               6789999999753221 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        63 ------~~~~~~~~ad~~ilv~d~~   81 (166)
T cd01893          63 ------NLAAEIRKANVICLVYSVD   81 (166)
T ss_pred             ------HHhhhcccCCEEEEEEECC
Confidence                  3344568899999999984

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.

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.48  E-value=8.4e-13  Score=116.81  Aligned_cols=83  Identities=18%  Similarity=0.183  Sum_probs=55.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+||+++|.+|||||||++.+....... .|..|........+.+++..               ..+++|||+|...+..
T Consensus         5 ~~KivvvGd~~vGKTsli~~~~~~~f~~-~~~pT~~~~~~~~~~~~~~~---------------~~l~iwDtaG~e~~~~   68 (182)
T cd04172           5 KCKIVVVGDSQCGKTALLHVFAKDCFPE-NYVPTVFENYTASFEIDTQR---------------IELSLWDTSGSPYYDN   68 (182)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCCCCC-ccCCceeeeeEEEEEECCEE---------------EEEEEEECCCchhhHh
Confidence            3689999999999999999999754432 22222211112234555533               6799999999644322


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                             .....++++|++++|+|.+
T Consensus        69 -------~~~~~~~~ad~~ilvyDit   87 (182)
T cd04172          69 -------VRPLSYPDSDAVLICFDIS   87 (182)
T ss_pred             -------hhhhhcCCCCEEEEEEECC
Confidence                   1124568999999999985

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

>KOG0098|consensus

Probab=99.47  E-value=2.9e-13  Score=116.57  Aligned_cols=154  Identities=16%  Similarity=0.149  Sum_probs=106.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +|+.++|..|||||.|+...+...+..-.-...-++.....+.+++++               .++++|||+|...+.+ 
T Consensus         7 fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~---------------IKlqiwDtaGqe~frs-   70 (216)
T KOG0098|consen    7 FKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQ---------------IKLQIWDTAGQESFRS-   70 (216)
T ss_pred             EEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCce---------------EEEEEEecCCcHHHHH-
Confidence            689999999999999999999865432222222233444467888865               7899999999876554 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            -..++.|.|-.+|+|.|...                                                     .
T Consensus        71 ------v~~syYr~a~GalLVydit~-----------------------------------------------------r   91 (216)
T KOG0098|consen   71 ------VTRSYYRGAAGALLVYDITR-----------------------------------------------------R   91 (216)
T ss_pred             ------HHHHHhccCcceEEEEEccc-----------------------------------------------------h
Confidence                  34466699999999999832                                                     2


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      +.+..+.+||++                ++... -.+--+++++||+|+.....--.++-+.+++++|..++.+||++.+
T Consensus        92 ~sF~hL~~wL~D----------------~rq~~-~~NmvImLiGNKsDL~~rR~Vs~EEGeaFA~ehgLifmETSakt~~  154 (216)
T KOG0098|consen   92 ESFNHLTSWLED----------------ARQHS-NENMVIMLIGNKSDLEARREVSKEEGEAFAREHGLIFMETSAKTAE  154 (216)
T ss_pred             hhHHHHHHHHHH----------------HHHhc-CCCcEEEEEcchhhhhccccccHHHHHHHHHHcCceeehhhhhhhh
Confidence            344445555542                11111 1344456679999975322334567888999999999999999988


Q ss_pred             HHhcCC
Q psy2401         243 EISDLN  248 (363)
Q Consensus       243 ~i~el~  248 (363)
                      ++.|+.
T Consensus       155 ~VEEaF  160 (216)
T KOG0098|consen  155 NVEEAF  160 (216)
T ss_pred             hHHHHH
Confidence            876653

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.47  E-value=7.1e-13  Score=139.77  Aligned_cols=83  Identities=19%  Similarity=0.177  Sum_probs=66.7

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +..|+++|+.|+|||||+++|.+..+..+.+++.|.+.....+.+++                 ..++||||||...+..
T Consensus       290 ~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~~-----------------~~ItfiDTPGhe~F~~  352 (787)
T PRK05306        290 PPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETNG-----------------GKITFLDTPGHEAFTA  352 (787)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEECC-----------------EEEEEEECCCCccchh
Confidence            46799999999999999999998766666778888777766777766                 6799999999866533


Q ss_pred             cccchhhHHHhhccccCEEEEEEeccc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                             .....++.+|++++|+|+.+
T Consensus       353 -------m~~rga~~aDiaILVVdAdd  372 (787)
T PRK05306        353 -------MRARGAQVTDIVVLVVAADD  372 (787)
T ss_pred             -------HHHhhhhhCCEEEEEEECCC
Confidence                   33355688999999999853

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.47  E-value=1.2e-12  Score=114.34  Aligned_cols=82  Identities=22%  Similarity=0.245  Sum_probs=57.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +|++++|.+|+|||||++.+.+... ..+++.++.+.....+.+++..               ..+++|||||.......
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~~   64 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGY-PTEYVPTAFDNFSVVVLVDGKP---------------VRLQLCDTAGQDEFDKL   64 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCC-CCCCCCceeeeeeEEEEECCEE---------------EEEEEEECCCChhhccc
Confidence            4899999999999999999987543 3344444433333445555532               67899999997544332


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .       -..++.+|++++|+|+.
T Consensus        65 ~-------~~~~~~a~~~i~v~d~~   82 (173)
T cd04130          65 R-------PLCYPDTDVFLLCFSVV   82 (173)
T ss_pred             c-------ccccCCCcEEEEEEECC
Confidence            1       13458899999999985

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,

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.47  E-value=2e-13  Score=136.24  Aligned_cols=81  Identities=21%  Similarity=0.179  Sum_probs=61.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccc-------------------------------cCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISA-------------------------------ENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~-------------------------------~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      ++|+++|++|+|||||+++|+.....+                               .-.+++|++.....+.+++   
T Consensus         7 ~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~~~---   83 (425)
T PRK12317          7 LNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFETDK---   83 (425)
T ss_pred             EEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEecCC---
Confidence            679999999999999999998431111                               0147888888877777766   


Q ss_pred             cccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecc
Q psy2401          52 KHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        52 ~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                                    .++.+|||||+.++.       ..+...++.+|++++|+|+.
T Consensus        84 --------------~~i~liDtpG~~~~~-------~~~~~~~~~aD~~ilVvDa~  118 (425)
T PRK12317         84 --------------YYFTIVDCPGHRDFV-------KNMITGASQADAAVLVVAAD  118 (425)
T ss_pred             --------------eEEEEEECCCcccch-------hhHhhchhcCCEEEEEEEcc
Confidence                          789999999974432       24455678899999999995

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.47  E-value=1.8e-13  Score=122.39  Aligned_cols=82  Identities=23%  Similarity=0.212  Sum_probs=59.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc----------------ccCCCceeecceeEEEEeCCccccccccccccccccce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS----------------AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA   66 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~----------------~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~   66 (363)
                      ++|+++|++++|||||+++|++....                ..-.+++|++.....+.+.+                 .
T Consensus         3 ~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~-----------------~   65 (195)
T cd01884           3 VNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYETAN-----------------R   65 (195)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEecCCC-----------------e
Confidence            68999999999999999999863100                01134556555444444433                 6


Q ss_pred             eEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          67 IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        67 ~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ++.++||||+.+       +.......++.+|++++|||+..
T Consensus        66 ~i~~iDtPG~~~-------~~~~~~~~~~~~D~~ilVvda~~  100 (195)
T cd01884          66 HYAHVDCPGHAD-------YIKNMITGAAQMDGAILVVSATD  100 (195)
T ss_pred             EEEEEECcCHHH-------HHHHHHHHhhhCCEEEEEEECCC
Confidence            789999999753       33466778889999999999853

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.

>cd04155 Arl3 Arl3 subfamily

Probab=99.47  E-value=5.9e-13  Score=115.74  Aligned_cols=78  Identities=26%  Similarity=0.285  Sum_probs=54.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+++|++|||||||+++|++..... ..|  |...+...+.+.+                 ..+.+||+||.....  
T Consensus        15 ~~v~i~G~~g~GKStLl~~l~~~~~~~-~~~--t~g~~~~~i~~~~-----------------~~~~~~D~~G~~~~~--   72 (173)
T cd04155          15 PRILILGLDNAGKTTILKQLASEDISH-ITP--TQGFNIKTVQSDG-----------------FKLNVWDIGGQRAIR--   72 (173)
T ss_pred             cEEEEEccCCCCHHHHHHHHhcCCCcc-cCC--CCCcceEEEEECC-----------------EEEEEEECCCCHHHH--
Confidence            689999999999999999999853211 111  2222333566655                 678999999964321  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           ......++.+|++++|+|+.
T Consensus        73 -----~~~~~~~~~~~~ii~v~D~~   92 (173)
T cd04155          73 -----PYWRNYFENTDCLIYVIDSA   92 (173)
T ss_pred             -----HHHHHHhcCCCEEEEEEeCC
Confidence                 23345568899999999985

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.

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.47  E-value=7.7e-13  Score=118.26  Aligned_cols=88  Identities=16%  Similarity=0.094  Sum_probs=66.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccC--CCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAEN--YPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~--~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      ++|+|+|.||||||||+|+|+|.....+.  .+++|..++.+...+.+                 .++.++||||+.+..
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~~-----------------~~i~viDTPG~~d~~   63 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVWDG-----------------RRVNVIDTPGLFDTS   63 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEECC-----------------eEEEEEECcCCCCcc
Confidence            47999999999999999999998543333  46788888888888877                 679999999998754


Q ss_pred             Ccccch----hhHHHhhccccCEEEEEEecc
Q psy2401          81 SKGEGL----GNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~~~~l----~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ...+.+    .+.+......+|++++|+++.
T Consensus        64 ~~~~~~~~~i~~~~~~~~~g~~~illVi~~~   94 (196)
T cd01852          64 VSPEQLSKEIVRCLSLSAPGPHAFLLVVPLG   94 (196)
T ss_pred             CChHHHHHHHHHHHHhcCCCCEEEEEEEECC
Confidence            322222    222233346789999999984

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).

>KOG0394|consensus

Probab=99.47  E-value=3.7e-13  Score=115.69  Aligned_cols=167  Identities=19%  Similarity=0.180  Sum_probs=109.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||.|+|.+|+|||||+|.+...+...........+.....+.++++.               ..+++|||+|..++.+.
T Consensus        10 LKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~---------------vtlQiWDTAGQERFqsL   74 (210)
T KOG0394|consen   10 LKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRS---------------VTLQIWDTAGQERFQSL   74 (210)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeE---------------EEEEEEecccHHHhhhc
Confidence            689999999999999999999765543333333444555667787754               89999999999888875


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                      +-       .-.|.+|..++|.|.....          ..+.++..+.|                               
T Consensus        75 g~-------aFYRgaDcCvlvydv~~~~----------Sfe~L~~Wr~E-------------------------------  106 (210)
T KOG0394|consen   75 GV-------AFYRGADCCVLVYDVNNPK----------SFENLENWRKE-------------------------------  106 (210)
T ss_pred             cc-------ceecCCceEEEEeecCChh----------hhccHHHHHHH-------------------------------
Confidence            42       3449999999999973210          01111111110                               


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCC--chHHHHHHHHHHhcC-CCcEEEeeHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFK--NNLLLDQLKIYAHNQ-NIPIIIICAK  239 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~--~~~~~~~i~~~~~~~-~~~~i~~sa~  239 (363)
                              .|.+..     |            .-....|.|+++||.|.+..  .....++.++|+.++ ++|++.+|||
T Consensus       107 --------Fl~qa~-----~------------~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipyfEtSAK  161 (210)
T KOG0394|consen  107 --------FLIQAS-----P------------QDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPYFETSAK  161 (210)
T ss_pred             --------HHHhcC-----C------------CCCCcccEEEEcccccCCCCccceeeHHHHHHHHHhcCCceeEEeccc
Confidence                    011100     0            11146799999999997631  234567888999876 5899999999


Q ss_pred             HHHHHhcCCHHHHHHHHh
Q psy2401         240 LEEEISDLNNIDKKFFLD  257 (363)
Q Consensus       240 ~e~~i~el~~~~~~~~l~  257 (363)
                      -..++.+..++-...-|+
T Consensus       162 ~~~NV~~AFe~ia~~aL~  179 (210)
T KOG0394|consen  162 EATNVDEAFEEIARRALA  179 (210)
T ss_pred             ccccHHHHHHHHHHHHHh
Confidence            766665554443333333

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.46  E-value=4.1e-13  Score=113.13  Aligned_cols=74  Identities=20%  Similarity=0.236  Sum_probs=48.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|++|||||||+|++++....   ++     ++ ..+.+.                    ..+|||||....   
T Consensus         1 ~kv~liG~~~vGKSsL~~~l~~~~~~---~~-----~t-~~~~~~--------------------~~~iDt~G~~~~---   48 (142)
T TIGR02528         1 KRIMFIGSVGCGKTTLTQALQGEEIL---YK-----KT-QAVEYN--------------------DGAIDTPGEYVE---   48 (142)
T ss_pred             CeEEEECCCCCCHHHHHHHHcCCccc---cc-----cc-eeEEEc--------------------CeeecCchhhhh---
Confidence            38999999999999999999985421   11     11 112221                    258999997321   


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ...+.+.....++++|++++|+|+.+
T Consensus        49 ~~~~~~~~~~~~~~ad~vilv~d~~~   74 (142)
T TIGR02528        49 NRRLYSALIVTAADADVIALVQSATD   74 (142)
T ss_pred             hHHHHHHHHHHhhcCCEEEEEecCCC
Confidence            11112233345789999999999853

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.46  E-value=8.4e-13  Score=111.15  Aligned_cols=82  Identities=30%  Similarity=0.285  Sum_probs=61.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|++|||||||+|+|++.....+..|+++.+.....+.+++..               ..+.+||+||..+... 
T Consensus         2 ~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~D~~G~~~~~~-   65 (161)
T TIGR00231         2 IKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKT---------------YKFNLLDTAGQEDYRA-   65 (161)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEE---------------EEEEEEECCCcccchH-
Confidence            689999999999999999999988667777888887777667776632               5688999999544322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEec
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRC  106 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda  106 (363)
                         +   .....+.++.++.++|.
T Consensus        66 ---~---~~~~~~~~~~~i~~~d~   83 (161)
T TIGR00231        66 ---I---RRLYYRAVESSLRVFDI   83 (161)
T ss_pred             ---H---HHHHHhhhhEEEEEEEE
Confidence               1   12233567777777776

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.

>cd01875 RhoG RhoG subfamily

Probab=99.46  E-value=1.3e-12  Score=116.30  Aligned_cols=82  Identities=23%  Similarity=0.246  Sum_probs=54.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++.+..........|... ......+.+++..               ..+++|||||...+.. 
T Consensus         4 ~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~-~~~~~~~~~~~~~---------------~~l~i~Dt~G~e~~~~-   66 (191)
T cd01875           4 IKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVF-DNYSAQTAVDGRT---------------VSLNLWDTAGQEEYDR-   66 (191)
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceE-eeeEEEEEECCEE---------------EEEEEEECCCchhhhh-
Confidence            7999999999999999999987544322222111 1111223444433               6799999999754432 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                         +   ....++++|++++|+|+.
T Consensus        67 ---l---~~~~~~~a~~~ilvydit   85 (191)
T cd01875          67 ---L---RTLSYPQTNVFIICFSIA   85 (191)
T ss_pred             ---h---hhhhccCCCEEEEEEECC
Confidence               1   123468999999999985

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.46  E-value=1.9e-12  Score=113.55  Aligned_cols=82  Identities=21%  Similarity=0.231  Sum_probs=54.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||+..+..........| +......-.+.+++..               ..+++|||||.......
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~-t~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~~   65 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIP-TVFDNYSANVMVDGKP---------------VNLGLWDTAGQEDYDRL   65 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCcCCC-cceeeeEEEEEECCEE---------------EEEEEEECCCchhhhhh
Confidence            6899999999999999999987544322223 2211112233444432               67899999996543321


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                             ....++.+|++|+|+|++
T Consensus        66 -------~~~~~~~~d~~ilv~d~~   83 (174)
T cd01871          66 -------RPLSYPQTDVFLICFSLV   83 (174)
T ss_pred             -------hhhhcCCCCEEEEEEECC
Confidence                   123568899999999985

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

>cd04134 Rho3 Rho3 subfamily

Probab=99.45  E-value=9.2e-13  Score=117.00  Aligned_cols=82  Identities=21%  Similarity=0.173  Sum_probs=53.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++.+++........|... ......+.+++.+               ..+++|||||...... 
T Consensus         1 ~kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~-~~~~~~i~~~~~~---------------~~l~i~Dt~G~~~~~~-   63 (189)
T cd04134           1 RKVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVF-ENYVHDIFVDGLH---------------IELSLWDTAGQEEFDR-   63 (189)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCccCCcce-eeeEEEEEECCEE---------------EEEEEEECCCChhccc-
Confidence            5899999999999999999998644322122111 1112233444432               6789999999754332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                         +..   ..++.+|++++|+|.+
T Consensus        64 ---l~~---~~~~~a~~~ilv~dv~   82 (189)
T cd04134          64 ---LRS---LSYADTDVIMLCFSVD   82 (189)
T ss_pred             ---ccc---ccccCCCEEEEEEECC
Confidence               111   2458899999999985

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.

>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.45  E-value=2e-12  Score=113.59  Aligned_cols=79  Identities=27%  Similarity=0.307  Sum_probs=58.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|.++|++||||||+++.|....... .  ..|...+...+.+.+                 ..+.+||++|...... 
T Consensus        15 ~~ililGl~~sGKTtll~~l~~~~~~~-~--~pT~g~~~~~i~~~~-----------------~~~~~~d~gG~~~~~~-   73 (175)
T PF00025_consen   15 IKILILGLDGSGKTTLLNRLKNGEISE-T--IPTIGFNIEEIKYKG-----------------YSLTIWDLGGQESFRP-   73 (175)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHSSSEEE-E--EEESSEEEEEEEETT-----------------EEEEEEEESSSGGGGG-
T ss_pred             EEEEEECCCccchHHHHHHhhhccccc-c--CcccccccceeeeCc-----------------EEEEEEeccccccccc-
Confidence            689999999999999999998743221 2  225566666777777                 7899999999643322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                            ....+++.+|++++|||+++
T Consensus        74 ------~w~~y~~~~~~iIfVvDssd   93 (175)
T PF00025_consen   74 ------LWKSYFQNADGIIFVVDSSD   93 (175)
T ss_dssp             ------GGGGGHTTESEEEEEEETTG
T ss_pred             ------cceeeccccceeEEEEeccc
Confidence                  22245578999999999963

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 ....

>KOG0087|consensus

Probab=99.45  E-value=1.1e-12  Score=115.31  Aligned_cols=152  Identities=18%  Similarity=0.137  Sum_probs=113.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||++||.+|+|||-|+...+...+.....+..-+++....+.++++.               ...++|||+|..++..-
T Consensus        15 FKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~---------------vkaqIWDTAGQERyrAi   79 (222)
T KOG0087|consen   15 FKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKT---------------VKAQIWDTAGQERYRAI   79 (222)
T ss_pred             EEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcE---------------EEEeeecccchhhhccc
Confidence            689999999999999999999988877777766777777778888865               78899999998776542


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                             .-++.|.|-++++|.|...                                                     .
T Consensus        80 -------tSaYYrgAvGAllVYDITr-----------------------------------------------------~   99 (222)
T KOG0087|consen   80 -------TSAYYRGAVGALLVYDITR-----------------------------------------------------R   99 (222)
T ss_pred             -------cchhhcccceeEEEEechh-----------------------------------------------------H
Confidence                   2256699999999999841                                                     2


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      .+++.+..||.+                ++.+ .-+..++++|+||+|+.-......++.+.+++.++..++.+||.-..
T Consensus       100 ~Tfenv~rWL~E----------------LRdh-ad~nivimLvGNK~DL~~lraV~te~~k~~Ae~~~l~f~EtSAl~~t  162 (222)
T KOG0087|consen  100 QTFENVERWLKE----------------LRDH-ADSNIVIMLVGNKSDLNHLRAVPTEDGKAFAEKEGLFFLETSALDAT  162 (222)
T ss_pred             HHHHHHHHHHHH----------------HHhc-CCCCeEEEEeecchhhhhccccchhhhHhHHHhcCceEEEecccccc
Confidence            345556566652                2222 22577899999999963222335567777778889999999998655


Q ss_pred             HHhc
Q psy2401         243 EISD  246 (363)
Q Consensus       243 ~i~e  246 (363)
                      ++..
T Consensus       163 NVe~  166 (222)
T KOG0087|consen  163 NVEK  166 (222)
T ss_pred             cHHH
Confidence            5443

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

Probab=99.44  E-value=3.4e-13  Score=122.76  Aligned_cols=81  Identities=20%  Similarity=0.180  Sum_probs=60.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCC---cc----------------------c------cCCCceeecceeEEEEeCCcccc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLK---IS----------------------A------ENYPFCTIEPNIGIIEVPDKRLK   52 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~---~~----------------------~------~~~p~~t~~~~~g~v~~~~~~~~   52 (363)
                      +|+++|++++|||||+.+|....   ..                      .      ....++|++.....+.+.+    
T Consensus         1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~~~----   76 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFETEK----   76 (219)
T ss_pred             CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEeeCC----
Confidence            58999999999999999995320   00                      0      0124677777777777766    


Q ss_pred             ccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          53 HLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        53 ~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                                   ..+.+|||||+.++       ...+...++.+|++++|||+.+
T Consensus        77 -------------~~i~liDtpG~~~~-------~~~~~~~~~~~d~~i~VvDa~~  112 (219)
T cd01883          77 -------------YRFTILDAPGHRDF-------VPNMITGASQADVAVLVVDARK  112 (219)
T ss_pred             -------------eEEEEEECCChHHH-------HHHHHHHhhhCCEEEEEEECCC
Confidence                         68999999997432       2356677788999999999964

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

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.43  E-value=8.9e-13  Score=136.07  Aligned_cols=82  Identities=21%  Similarity=0.269  Sum_probs=63.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC---ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK---ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~---~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      +.|+++|++|+|||||+++|++..   ......++.|++.....+.+++                 ..+.+||+||..+ 
T Consensus         1 ~~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~-----------------~~v~~iDtPGhe~-   62 (581)
T TIGR00475         1 MIIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD-----------------YRLGFIDVPGHEK-   62 (581)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC-----------------EEEEEEECCCHHH-
Confidence            469999999999999999999853   2233456778877766777766                 6789999999643 


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                            +...+...+.++|++++|+|+.+
T Consensus        63 ------f~~~~~~g~~~aD~aILVVDa~~   85 (581)
T TIGR00475        63 ------FISNAIAGGGGIDAALLVVDADE   85 (581)
T ss_pred             ------HHHHHHhhhccCCEEEEEEECCC
Confidence                  33466677889999999999954

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.

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.43  E-value=1.2e-12  Score=137.07  Aligned_cols=85  Identities=20%  Similarity=0.171  Sum_probs=62.0

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeC--CccccccccccccccccceeEEEEeeecccCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVP--DKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~--~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      +..|+++|++|+|||||+++|++.....+..++.|.+.....+.+.  +..               ..+.||||||...+
T Consensus       244 ~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~---------------~kItfiDTPGhe~F  308 (742)
T CHL00189        244 PPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDEN---------------QKIVFLDTPGHEAF  308 (742)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCc---------------eEEEEEECCcHHHH
Confidence            3689999999999999999999876555556677766554444442  111               67999999997543


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      .       ......++.+|++++|||+.+
T Consensus       309 ~-------~mr~rg~~~aDiaILVVDA~d  330 (742)
T CHL00189        309 S-------SMRSRGANVTDIAILIIAADD  330 (742)
T ss_pred             H-------HHHHHHHHHCCEEEEEEECcC
Confidence            2       233356688999999999853

>KOG0094|consensus

Probab=99.43  E-value=2.4e-12  Score=111.82  Aligned_cols=154  Identities=18%  Similarity=0.129  Sum_probs=105.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .|++++|..+||||||++...-..+.-.-.+...++...-.+.+.|.+               ..+++|||+|..++.+ 
T Consensus        23 ~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~---------------vrLQlWDTAGQERFrs-   86 (221)
T KOG0094|consen   23 YKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRT---------------VRLQLWDTAGQERFRS-   86 (221)
T ss_pred             EEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcE---------------EEEEEEecccHHHHhh-
Confidence            589999999999999999998655544444555666777778888865               7899999999887766 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            -.-+++|++.+++.|.|..+.                                                     
T Consensus        87 ------lipsY~Rds~vaviVyDit~~-----------------------------------------------------  107 (221)
T KOG0094|consen   87 ------LIPSYIRDSSVAVIVYDITDR-----------------------------------------------------  107 (221)
T ss_pred             ------hhhhhccCCeEEEEEEecccc-----------------------------------------------------
Confidence                  445788999999999998531                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhccccc-ccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTI-KPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLE  241 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~-kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e  241 (363)
                      ..++...+|++.-.               + . .-+. .-+++|+||.|+.....-..++-+..+++.+..++.+||+..
T Consensus       108 ~Sfe~t~kWi~dv~---------------~-e-~gs~~viI~LVGnKtDL~dkrqvs~eEg~~kAkel~a~f~etsak~g  170 (221)
T KOG0094|consen  108 NSFENTSKWIEDVR---------------R-E-RGSDDVIIFLVGNKTDLSDKRQVSIEEGERKAKELNAEFIETSAKAG  170 (221)
T ss_pred             chHHHHHHHHHHHH---------------h-c-cCCCceEEEEEcccccccchhhhhHHHHHHHHHHhCcEEEEecccCC
Confidence            33445555555211               0 1 0022 233447899997421122333344555667888999999977


Q ss_pred             HHHhcCC
Q psy2401         242 EEISDLN  248 (363)
Q Consensus       242 ~~i~el~  248 (363)
                      +++.++.
T Consensus       171 ~NVk~lF  177 (221)
T KOG0094|consen  171 ENVKQLF  177 (221)
T ss_pred             CCHHHHH
Confidence            6665543

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.43  E-value=4.8e-12  Score=110.18  Aligned_cols=82  Identities=21%  Similarity=0.197  Sum_probs=55.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|++|||||||++++.+..... .+..+........+.+++.+               ..+.+|||||.......
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~~   65 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPE-VYVPTVFENYVADIEVDGKQ---------------VELALWDTAGQEDYDRL   65 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCC-CCCCccccceEEEEEECCEE---------------EEEEEEeCCCchhhhhc
Confidence            589999999999999999999854332 22222222223455665543               57899999997543221


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .       ...++.+|++++|+|+.
T Consensus        66 ~-------~~~~~~~d~~i~v~~~~   83 (175)
T cd01870          66 R-------PLSYPDTDVILMCFSID   83 (175)
T ss_pred             c-------ccccCCCCEEEEEEECC
Confidence            1       13458899999999984

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

>KOG0073|consensus

Probab=99.43  E-value=3.1e-12  Score=108.03  Aligned_cols=146  Identities=18%  Similarity=0.211  Sum_probs=97.0

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHcCCcc-ccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCC
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~~~~~-~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      |+++|-++|+.||||||+++++.+.... +++    |...+..++.+++                 +++++||+-|....
T Consensus        15 rE~riLiLGLdNsGKTti~~kl~~~~~~~i~p----t~gf~Iktl~~~~-----------------~~L~iwDvGGq~~l   73 (185)
T KOG0073|consen   15 REVRILILGLDNSGKTTIVKKLLGEDTDTISP----TLGFQIKTLEYKG-----------------YTLNIWDVGGQKTL   73 (185)
T ss_pred             heeEEEEEecCCCCchhHHHHhcCCCccccCC----ccceeeEEEEecc-----------------eEEEEEEcCCcchh
Confidence            3589999999999999999999986422 332    4455556778888                 88999999986543


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhH
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSI  159 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~  159 (363)
                      .+       -..++...+|++++|||.++.            .                                     
T Consensus        74 r~-------~W~nYfestdglIwvvDssD~------------~-------------------------------------   97 (185)
T KOG0073|consen   74 RS-------YWKNYFESTDGLIWVVDSSDR------------M-------------------------------------   97 (185)
T ss_pred             HH-------HHHHhhhccCeEEEEEECchH------------H-------------------------------------
Confidence            32       333566889999999998531            0                                     


Q ss_pred             HHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccC--CCchHHH--HHHHHHHhcCCCcEEE
Q psy2401         160 ELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENG--FKNNLLL--DQLKIYAHNQNIPIII  235 (363)
Q Consensus       160 ~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~--~~~~~~~--~~i~~~~~~~~~~~i~  235 (363)
                      ...+....+++.|.            +|        .+..+|+++++||.|.+  +..++..  -.+++.++....+++.
T Consensus        98 r~~e~~~~L~~lL~------------ee--------rlaG~~~Lvlank~dl~~~l~~~~i~~~~~L~~l~ks~~~~l~~  157 (185)
T KOG0073|consen   98 RMQECKQELTELLV------------EE--------RLAGAPLLVLANKQDLPGALSLEEISKALDLEELAKSHHWRLVK  157 (185)
T ss_pred             HHHHHHHHHHHHHh------------hh--------hhcCCceEEEEecCcCccccCHHHHHHhhCHHHhccccCceEEE
Confidence            12233333333332            12        23568999999999976  2222222  2344555667788999


Q ss_pred             eeHHHHHH
Q psy2401         236 ICAKLEEE  243 (363)
Q Consensus       236 ~sa~~e~~  243 (363)
                      +||...+.
T Consensus       158 cs~~tge~  165 (185)
T KOG0073|consen  158 CSAVTGED  165 (185)
T ss_pred             Eecccccc
Confidence            99885443

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.41  E-value=2.4e-12  Score=110.18  Aligned_cols=84  Identities=27%  Similarity=0.272  Sum_probs=55.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC--CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL--KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~--~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +|+++|++|||||||+|.|++.  ....++.+++|.....  ...+                  ..+.++||||+.....
T Consensus         1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~--~~~~------------------~~~~~~D~~g~~~~~~   60 (170)
T cd01876           1 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINF--FNVN------------------DKFRLVDLPGYGYAKV   60 (170)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEE--EEcc------------------CeEEEecCCCcccccc
Confidence            4899999999999999999943  4446666666654322  2221                  3688999999865322


Q ss_pred             c------ccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 K------GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~------~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .      ...+...++....+++++++|+|..
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~   92 (170)
T cd01876          61 SKEVKEKWGKLIEEYLENRENLKGVVLLIDSR   92 (170)
T ss_pred             CHHHHHHHHHHHHHHHHhChhhhEEEEEEEcC
Confidence            1      1112234444445678899999874

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.

>KOG1423|consensus

Probab=99.39  E-value=2.7e-12  Score=118.69  Aligned_cols=89  Identities=28%  Similarity=0.312  Sum_probs=72.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      ++||+||.||+|||||.|.+.|.+ ..++..+.||..-..|.+.-+.                 .++.|+||||++....
T Consensus        73 L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~ilgi~ts~e-----------------TQlvf~DTPGlvs~~~  135 (379)
T KOG1423|consen   73 LYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRILGIITSGE-----------------TQLVFYDTPGLVSKKM  135 (379)
T ss_pred             EEEEEEcCCCcchhhhhhHhhCCccccccccccceeeeeeEEEecCc-----------------eEEEEecCCcccccch
Confidence            689999999999999999999995 5588999999999999998877                 7899999999986433


Q ss_pred             ccc-ch----hhHHHhhccccCEEEEEEeccc
Q psy2401          82 KGE-GL----GNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        82 ~~~-~l----~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ... .+    ......++..||+++.|+|++.
T Consensus       136 ~r~~~l~~s~lq~~~~a~q~AD~vvVv~Das~  167 (379)
T KOG1423|consen  136 HRRHHLMMSVLQNPRDAAQNADCVVVVVDASA  167 (379)
T ss_pred             hhhHHHHHHhhhCHHHHHhhCCEEEEEEeccC
Confidence            211 11    1234456788999999999964

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

Probab=99.39  E-value=2.2e-12  Score=115.92  Aligned_cols=78  Identities=12%  Similarity=0.007  Sum_probs=50.9

Q ss_pred             EeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcccchh
Q psy2401           8 IGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLG   87 (363)
Q Consensus         8 vG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~   87 (363)
                      +|.+|||||||+++++.........|....+.....+.+++..               ..+.+|||||...+..      
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~---------------~~l~iwDt~G~e~~~~------   59 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGP---------------IRFNVWDTAGQEKFGG------   59 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEE---------------EEEEEEECCCchhhhh------
Confidence            5999999999999999654332222211122222334444433               6899999999755432      


Q ss_pred             hHHHhhccccCEEEEEEecc
Q psy2401          88 NKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        88 ~~~l~~~~~aD~il~Vvda~  107 (363)
                       .....++++|++++|+|++
T Consensus        60 -l~~~~~~~ad~~ilV~D~t   78 (200)
T smart00176       60 -LRDGYYIQGQCAIIMFDVT   78 (200)
T ss_pred             -hhHHHhcCCCEEEEEEECC
Confidence             2224568999999999985

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

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.39  E-value=3.3e-12  Score=132.35  Aligned_cols=83  Identities=22%  Similarity=0.340  Sum_probs=61.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC---ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK---ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~---~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      +-||++|++++|||||+++|+|..   .......+.|++.....+..++.                ..+.+|||||..+ 
T Consensus         1 ~ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~g----------------~~i~~IDtPGhe~-   63 (614)
T PRK10512          1 MIIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDG----------------RVLGFIDVPGHEK-   63 (614)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCCC----------------cEEEEEECCCHHH-
Confidence            358999999999999999999853   22334457777665555544332                4589999999743 


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                            +.+.+...+..+|++++|||+.+
T Consensus        64 ------fi~~m~~g~~~~D~~lLVVda~e   86 (614)
T PRK10512         64 ------FLSNMLAGVGGIDHALLVVACDD   86 (614)
T ss_pred             ------HHHHHHHHhhcCCEEEEEEECCC
Confidence                  33466777889999999999853

>cd04129 Rho2 Rho2 subfamily

Probab=99.37  E-value=1e-11  Score=110.07  Aligned_cols=82  Identities=18%  Similarity=0.161  Sum_probs=52.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .|++++|++|+|||||++.++.........| ++.......+.+.+..               ..+.+||+||.......
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~~~~~-t~~~~~~~~~~~~~~~---------------~~l~i~Dt~g~~~~~~~   65 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPEEYHP-TVFENYVTDCRVDGKP---------------VQLALWDTAGQEEYERL   65 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCC-cccceEEEEEEECCEE---------------EEEEEEECCCChhcccc
Confidence            5899999999999999999985433222122 2222222344444422               56889999997543321


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .     .  ..++.+|++++|++..
T Consensus        66 ~-----~--~~~~~a~~~llv~~i~   83 (187)
T cd04129          66 R-----P--LSYSKAHVILIGFAVD   83 (187)
T ss_pred             c-----h--hhcCCCCEEEEEEECC
Confidence            1     1  2458899999999984

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).

>KOG1490|consensus

Probab=99.37  E-value=1.9e-12  Score=126.29  Aligned_cols=157  Identities=20%  Similarity=0.226  Sum_probs=109.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .++.++|.||+||||++|.++.+.+.+.+|||||.....|++.+.-                 -.++++||||+.+-.-.
T Consensus       169 rTlllcG~PNVGKSSf~~~vtradvevqpYaFTTksL~vGH~dykY-----------------lrwQViDTPGILD~plE  231 (620)
T KOG1490|consen  169 RTLLVCGYPNVGKSSFNNKVTRADDEVQPYAFTTKLLLVGHLDYKY-----------------LRWQVIDTPGILDRPEE  231 (620)
T ss_pred             CeEEEecCCCCCcHhhcccccccccccCCcccccchhhhhhhhhhe-----------------eeeeecCCccccCcchh
Confidence            5788999999999999999999999999999999999989887755                 56899999999875544


Q ss_pred             ccchh----hHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchh
Q psy2401          83 GEGLG----NKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHS  158 (363)
Q Consensus        83 ~~~l~----~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~  158 (363)
                      ..+..    -..++++|.|  +|++.|.++.=                                            +-..
T Consensus       232 drN~IEmqsITALAHLraa--VLYfmDLSe~C--------------------------------------------GySv  265 (620)
T KOG1490|consen  232 DRNIIEMQIITALAHLRSA--VLYFMDLSEMC--------------------------------------------GYSV  265 (620)
T ss_pred             hhhHHHHHHHHHHHHhhhh--heeeeechhhh--------------------------------------------CCCH
Confidence            33221    1346777766  88999986410                                            0001


Q ss_pred             HHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEeccccccCC---CchHHHHHHHHHHhcCCCcEE
Q psy2401         159 IELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFVANVKENGF---KNNLLLDQLKIYAHNQNIPII  234 (363)
Q Consensus       159 ~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v~Nk~d~~~---~~~~~~~~i~~~~~~~~~~~i  234 (363)
                      ..+..                          .+.++ .+...||+|+|+||+|.--   -+++..+-++......+.+++
T Consensus       266 a~Qvk--------------------------LfhsIKpLFaNK~~IlvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~v~  319 (620)
T KOG1490|consen  266 AAQVK--------------------------LYHSIKPLFANKVTILVLNKIDAMRPEDLDQKNQELLQTIIDDGNVKVV  319 (620)
T ss_pred             HHHHH--------------------------HHHHhHHHhcCCceEEEeecccccCccccCHHHHHHHHHHHhccCceEE
Confidence            11122                          22223 3447999999999999621   122333334444444458899


Q ss_pred             EeeHHHHHHHhcCC
Q psy2401         235 IICAKLEEEISDLN  248 (363)
Q Consensus       235 ~~sa~~e~~i~el~  248 (363)
                      .+|...|+.+.+..
T Consensus       320 ~tS~~~eegVm~Vr  333 (620)
T KOG1490|consen  320 QTSCVQEEGVMDVR  333 (620)
T ss_pred             EecccchhceeeHH
Confidence            99999998887753

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.37  E-value=1.1e-11  Score=110.97  Aligned_cols=81  Identities=15%  Similarity=0.091  Sum_probs=49.4

Q ss_pred             cEEEEEeCCCCcHHHHHH-HHHcCCcc----ccCCCceee--cceeEE--------EEeCCcccccccccccccccccee
Q psy2401           3 LKCGLIGLPNVGKSTLFN-ALTKLKIS----AENYPFCTI--EPNIGI--------IEVPDKRLKHLNNIVKTKKIFPAI   67 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n-~Lt~~~~~----~~~~p~~t~--~~~~g~--------v~~~~~~~~~l~~~~~~~~~~~~~   67 (363)
                      +||+++|.+|||||||+. .+.+....    ...|..|.-  +.....        +.+++..               ..
T Consensus         3 ~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~---------------v~   67 (195)
T cd01873           3 IKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVS---------------VS   67 (195)
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEE---------------EE
Confidence            699999999999999995 55543221    112211110  100000        1233322               78


Q ss_pred             EEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecc
Q psy2401          68 IKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        68 i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      +++|||||....      +.   ...++++|++++|+|..
T Consensus        68 l~iwDTaG~~~~------~~---~~~~~~ad~iilv~d~t   98 (195)
T cd01873          68 LRLWDTFGDHDK------DR---RFAYGRSDVVLLCFSIA   98 (195)
T ss_pred             EEEEeCCCChhh------hh---cccCCCCCEEEEEEECC
Confidence            999999997531      11   12568999999999985

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.

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.35  E-value=9e-12  Score=128.81  Aligned_cols=84  Identities=15%  Similarity=0.149  Sum_probs=58.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcccc---------C------CCceeecceeEEEEeC---Ccccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAE---------N------YPFCTIEPNIGIIEVP---DKRLKHLNNIVKTKKIF   64 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~---------~------~p~~t~~~~~g~v~~~---~~~~~~l~~~~~~~~~~   64 (363)
                      ++++|+|++++|||||+++|+.....++         +      ..+.|+......+.|.   +..              
T Consensus         4 RNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~--------------   69 (595)
T TIGR01393         4 RNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGET--------------   69 (595)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCE--------------
Confidence            5899999999999999999976421111         1      1244555444444442   221              


Q ss_pred             ceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          65 PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        65 ~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                       ..+++|||||..++..       .....++.||++++|+|+++
T Consensus        70 -~~l~liDTPG~~dF~~-------~v~~~l~~aD~aILVvDat~  105 (595)
T TIGR01393        70 -YVLNLIDTPGHVDFSY-------EVSRSLAACEGALLLVDAAQ  105 (595)
T ss_pred             -EEEEEEECCCcHHHHH-------HHHHHHHhCCEEEEEecCCC
Confidence             6799999999876533       44566789999999999964

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.

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.35  E-value=9.1e-12  Score=113.60  Aligned_cols=82  Identities=16%  Similarity=0.202  Sum_probs=56.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++.+++........| |........+.+++..               ..+.+|||+|...+.. 
T Consensus         2 ~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~p-Ti~~~~~~~~~~~~~~---------------v~L~iwDt~G~e~~~~-   64 (222)
T cd04173           2 CKIVVVGDAECGKTALLQVFAKDAYPGSYVP-TVFENYTASFEIDKRR---------------IELNMWDTSGSSYYDN-   64 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCccCC-ccccceEEEEEECCEE---------------EEEEEEeCCCcHHHHH-
Confidence            6899999999999999999998644332223 2222222345565543               6799999999653322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                         +   ....++.+|++++|+|.+
T Consensus        65 ---l---~~~~~~~~d~illvfdis   83 (222)
T cd04173          65 ---V---RPLAYPDSDAVLICFDIS   83 (222)
T ss_pred             ---H---hHHhccCCCEEEEEEECC
Confidence               1   123468999999999985

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

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.34  E-value=1.9e-11  Score=101.52  Aligned_cols=80  Identities=26%  Similarity=0.252  Sum_probs=53.1

Q ss_pred             EEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcccch
Q psy2401           7 LIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGL   86 (363)
Q Consensus         7 lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l   86 (363)
                      ++|++|+|||||+|++++.......+..+..+............               ..+.+||+||+.....     
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~---------------~~~~l~D~~g~~~~~~-----   60 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTIIDFYSKTIEVDGKK---------------VKLQIWDTAGQERFRS-----   60 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccchhheeeEEEEECCEE---------------EEEEEEecCChHHHHh-----
Confidence            58999999999999999865422222222233333333332221               6799999999765433     


Q ss_pred             hhHHHhhccccCEEEEEEeccc
Q psy2401          87 GNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        87 ~~~~l~~~~~aD~il~Vvda~~  108 (363)
                        .....++.+|++++|+|++.
T Consensus        61 --~~~~~~~~~~~~i~v~d~~~   80 (157)
T cd00882          61 --LRRLYYRGADGIILVYDVTD   80 (157)
T ss_pred             --HHHHHhcCCCEEEEEEECcC
Confidence              22455688999999999853

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

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.33  E-value=1.5e-11  Score=126.87  Aligned_cols=82  Identities=20%  Similarity=0.144  Sum_probs=61.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc------cc----------CCCceeecceeEEEEeCCccccccccccccccccce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS------AE----------NYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA   66 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~------~~----------~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~   66 (363)
                      ++|+|+|+.++|||||+++|+.....      +.          ...+.|+......+.+.+                 .
T Consensus         2 RNIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~-----------------~   64 (594)
T TIGR01394         2 RNIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNG-----------------T   64 (594)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECC-----------------E
Confidence            58999999999999999999853110      11          123566666666777776                 7


Q ss_pred             eEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          67 IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        67 ~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ++++|||||..++.       ......++.+|++++|||+++
T Consensus        65 kinlIDTPGh~DF~-------~ev~~~l~~aD~alLVVDa~~   99 (594)
T TIGR01394        65 KINIVDTPGHADFG-------GEVERVLGMVDGVLLLVDASE   99 (594)
T ss_pred             EEEEEECCCHHHHH-------HHHHHHHHhCCEEEEEEeCCC
Confidence            89999999986543       255677789999999999964

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.

>PRK09866 hypothetical protein; Provisional

Probab=99.33  E-value=2.8e-11  Score=122.76  Aligned_cols=35  Identities=26%  Similarity=0.449  Sum_probs=29.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc-ccCCCceee
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTI   37 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~-~~~~p~~t~   37 (363)
                      +.++++|++|+|||||+|+|+|..+. .++.|+++.
T Consensus        70 ~~valvG~sgaGKSTLiNaL~G~~Vlpt~~~~~t~l  105 (741)
T PRK09866         70 MVLAIVGTMKAGKSTTINAIVGTEVLPNRNRPMTAL  105 (741)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCccccCCCcccccc
Confidence            56899999999999999999998544 447777665

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.32  E-value=6.9e-12  Score=125.28  Aligned_cols=82  Identities=18%  Similarity=0.146  Sum_probs=59.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccc-------------------------------cCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISA-------------------------------ENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~-------------------------------~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      ++|+++|+.++|||||+++|+.....+                               ....+.|++.....+.+++   
T Consensus         8 ~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~~~---   84 (426)
T TIGR00483         8 INVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFETDK---   84 (426)
T ss_pred             eEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEccCC---
Confidence            689999999999999999998421100                               0123666666665555554   


Q ss_pred             cccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          52 KHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        52 ~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                                    ..+.+|||||..+       +...+...++.+|++++|+|+.+
T Consensus        85 --------------~~i~iiDtpGh~~-------f~~~~~~~~~~aD~~ilVvDa~~  120 (426)
T TIGR00483        85 --------------YEVTIVDCPGHRD-------FIKNMITGASQADAAVLVVAVGD  120 (426)
T ss_pred             --------------eEEEEEECCCHHH-------HHHHHHhhhhhCCEEEEEEECCC
Confidence                          6899999999643       23355666789999999999964

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.

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.32  E-value=2.8e-11  Score=108.33  Aligned_cols=82  Identities=23%  Similarity=0.286  Sum_probs=48.7

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccc-cCCC-c---eeecceeEEEEeCCccccccccccccccccceeEEEEeeecc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISA-ENYP-F---CTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGL   76 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~-~~~p-~---~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl   76 (363)
                      +++|+++|.+|||||||+|+|++..... ...+ +   +|...  ..+..++                ...+.+|||||+
T Consensus         1 ~~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~--~~~~~~~----------------~~~l~l~DtpG~   62 (197)
T cd04104           1 PLNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKR--TPYPHPK----------------FPNVTLWDLPGI   62 (197)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCc--eeeecCC----------------CCCceEEeCCCC
Confidence            4789999999999999999999853211 1110 1   11110  1111111                146899999998


Q ss_pred             cCCCCcccchhhHHHhh--ccccCEEEEEEe
Q psy2401          77 VSGASKGEGLGNKFLAH--IRETNIVIHVIR  105 (363)
Q Consensus        77 ~~~~~~~~~l~~~~l~~--~~~aD~il~Vvd  105 (363)
                      .......    ..++..  +..+|++++|.+
T Consensus        63 ~~~~~~~----~~~l~~~~~~~~d~~l~v~~   89 (197)
T cd04104          63 GSTAFPP----DDYLEEMKFSEYDFFIIISS   89 (197)
T ss_pred             CcccCCH----HHHHHHhCccCcCEEEEEeC
Confidence            7543322    233332  467898888754

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

>PRK10218 GTP-binding protein; Provisional

Probab=99.32  E-value=3.6e-11  Score=124.15  Aligned_cols=82  Identities=22%  Similarity=0.199  Sum_probs=61.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccc---------------cCCCceeecceeEEEEeCCccccccccccccccccce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISA---------------ENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA   66 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~---------------~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~   66 (363)
                      .+|+++|+.++|||||+++|+... ...               ....+.|+......+.+++                 .
T Consensus         6 RnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~-----------------~   68 (607)
T PRK10218          6 RNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWND-----------------Y   68 (607)
T ss_pred             eEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCC-----------------E
Confidence            589999999999999999998631 110               1124556665556666665                 7


Q ss_pred             eEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          67 IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        67 ~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      .+++|||||..++..       .....++.+|++++|+|+.+
T Consensus        69 ~inliDTPG~~df~~-------~v~~~l~~aDg~ILVVDa~~  103 (607)
T PRK10218         69 RINIVDTPGHADFGG-------EVERVMSMVDSVLLVVDAFD  103 (607)
T ss_pred             EEEEEECCCcchhHH-------HHHHHHHhCCEEEEEEeccc
Confidence            899999999876543       44567799999999999964

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.32  E-value=4.3e-11  Score=108.40  Aligned_cols=82  Identities=16%  Similarity=0.092  Sum_probs=50.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEE--eCCccccccccccccccccceeEEEEeeecccCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIE--VPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~--~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      ..|++++|++|||||||++.+..........|  |.........  .++..               ..+++|||+|....
T Consensus         9 ~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~--t~~~~~~~~~~~~~~~~---------------i~i~~~Dt~g~~~~   71 (215)
T PTZ00132          9 EFKLILVGDGGVGKTTFVKRHLTGEFEKKYIP--TLGVEVHPLKFYTNCGP---------------ICFNVWDTAGQEKF   71 (215)
T ss_pred             CceEEEECCCCCCHHHHHHHHHhCCCCCCCCC--ccceEEEEEEEEECCeE---------------EEEEEEECCCchhh
Confidence            37999999999999999975543222211112  3322222222  22222               67999999996433


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEecc
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ..       ......+.+|++++|+|.+
T Consensus        72 ~~-------~~~~~~~~~~~~i~v~d~~   92 (215)
T PTZ00132         72 GG-------LRDGYYIKGQCAIIMFDVT   92 (215)
T ss_pred             hh-------hhHHHhccCCEEEEEEECc
Confidence            21       1123457899999999985

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

Probab=99.31  E-value=1.7e-11  Score=103.24  Aligned_cols=133  Identities=20%  Similarity=0.246  Sum_probs=88.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||.+||+.|||||||+++|.+......        .+. .+.+.+                    .++||||-.-..  
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~~~~~--------KTq-~i~~~~--------------------~~IDTPGEyiE~--   50 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEEIRYK--------KTQ-AIEYYD--------------------NTIDTPGEYIEN--   50 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCCCCcC--------ccc-eeEecc--------------------cEEECChhheeC--
Confidence            7899999999999999999998533211        111 233333                    359999954222  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                       ..+.+..+....+||++++|.|+.....+                                                  
T Consensus        51 -~~~y~aLi~ta~dad~V~ll~dat~~~~~--------------------------------------------------   79 (143)
T PF10662_consen   51 -PRFYHALIVTAQDADVVLLLQDATEPRSV--------------------------------------------------   79 (143)
T ss_pred             -HHHHHHHHHHHhhCCEEEEEecCCCCCcc--------------------------------------------------
Confidence             23445666777899999999999642110                                                  


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCC-cEEEeeHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNI-PIIIICAKLE  241 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~-~~i~~sa~~e  241 (363)
                                        +|  +    .   |...-.+|+|=|++|.|.+ ..++..++.+++++.-|. .++.+|+...
T Consensus        80 ------------------~p--P----~---fa~~f~~pvIGVITK~Dl~-~~~~~i~~a~~~L~~aG~~~if~vS~~~~  131 (143)
T PF10662_consen   80 ------------------FP--P----G---FASMFNKPVIGVITKIDLP-SDDANIERAKKWLKNAGVKEIFEVSAVTG  131 (143)
T ss_pred             ------------------CC--c----h---hhcccCCCEEEEEECccCc-cchhhHHHHHHHHHHcCCCCeEEEECCCC
Confidence                              01  0    1   1112368999999999975 246677888888887764 4789999854


Q ss_pred             HHHh
Q psy2401         242 EEIS  245 (363)
Q Consensus       242 ~~i~  245 (363)
                      +.|.
T Consensus       132 eGi~  135 (143)
T PF10662_consen  132 EGIE  135 (143)
T ss_pred             cCHH
Confidence            4443

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

>CHL00071 tufA elongation factor Tu

Probab=99.30  E-value=1.1e-11  Score=123.17  Aligned_cols=82  Identities=22%  Similarity=0.180  Sum_probs=58.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccc----------------cCCCceeecceeEEEEeCCccccccccccccccccce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISA----------------ENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA   66 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~----------------~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~   66 (363)
                      ++|+++|++++|||||+++|++....+                .-.++.|++.....+..++                 .
T Consensus        13 ~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~-----------------~   75 (409)
T CHL00071         13 VNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYETEN-----------------R   75 (409)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEccCC-----------------e
Confidence            689999999999999999999752211                1125666665443333333                 5


Q ss_pred             eEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          67 IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        67 ~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ++.++||||+.+       +.......++.+|++++|+|+..
T Consensus        76 ~~~~iDtPGh~~-------~~~~~~~~~~~~D~~ilVvda~~  110 (409)
T CHL00071         76 HYAHVDCPGHAD-------YVKNMITGAAQMDGAILVVSAAD  110 (409)
T ss_pred             EEEEEECCChHH-------HHHHHHHHHHhCCEEEEEEECCC
Confidence            789999999642       33466777889999999999953

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.30  E-value=1.1e-11  Score=122.93  Aligned_cols=99  Identities=18%  Similarity=0.141  Sum_probs=56.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc---ccCCCceeecceeEEEEeCCc-ccc---cc--cccccc---ccccceeEEE
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS---AENYPFCTIEPNIGIIEVPDK-RLK---HL--NNIVKT---KKIFPAIIKL   70 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~---~~~~p~~t~~~~~g~v~~~~~-~~~---~l--~~~~~~---~~~~~~~i~l   70 (363)
                      ++|+++|++++|||||+++|++....   ..-..+.|+........+.-. ...   ..  ...+.-   .......+++
T Consensus         5 ~~i~iiG~~~~GKSTL~~~Lt~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~l   84 (406)
T TIGR03680         5 VNIGMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLRRVSF   84 (406)
T ss_pred             EEEEEEccCCCCHHHHHHHHhCeecccCHhHHHcCceeEecccccccccccccCccccccccccccccccccccccEEEE
Confidence            68999999999999999999874211   111123343332222211100 000   00  000000   0001257899


Q ss_pred             EeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          71 VDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        71 vDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      +||||..++       ...+...+..+|++++|+|+.+
T Consensus        85 iDtPGh~~f-------~~~~~~g~~~aD~aIlVVDa~~  115 (406)
T TIGR03680        85 VDAPGHETL-------MATMLSGAALMDGALLVIAANE  115 (406)
T ss_pred             EECCCHHHH-------HHHHHHHHHHCCEEEEEEECCC
Confidence            999997433       3466777788999999999954

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

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.29  E-value=9.6e-12  Score=123.43  Aligned_cols=82  Identities=16%  Similarity=0.113  Sum_probs=56.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcccc---------------------------------CCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAE---------------------------------NYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~---------------------------------~~p~~t~~~~~g~v~~~~~   49 (363)
                      ++|+++|+.++|||||+++|+...-.+.                                 -..+.|++.....+.+++ 
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~~~~-   79 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFSTDK-   79 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEccCC-
Confidence            5899999999999999999964311100                                 001334444444444443 


Q ss_pred             cccccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          50 RLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        50 ~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                                      .++.++||||+.+       +.......+..+|++++|||+.+
T Consensus        80 ----------------~~~~liDtPGh~~-------f~~~~~~~~~~aD~allVVda~~  115 (406)
T TIGR02034        80 ----------------RKFIVADTPGHEQ-------YTRNMATGASTADLAVLLVDARK  115 (406)
T ss_pred             ----------------eEEEEEeCCCHHH-------HHHHHHHHHhhCCEEEEEEECCC
Confidence                            6789999999653       33355567789999999999954

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).

>KOG0079|consensus

Probab=99.28  E-value=1e-11  Score=103.14  Aligned_cols=153  Identities=18%  Similarity=0.185  Sum_probs=105.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+..|+|.||+|||+|+-.+....+.-+-...+..+....+++++|.+               ..+++|||+|...+.. 
T Consensus         9 fkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~---------------VkLqIwDtAGqErFrt-   72 (198)
T KOG0079|consen    9 FKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDR---------------VKLQIWDTAGQERFRT-   72 (198)
T ss_pred             HHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcE---------------EEEEEeecccHHHHHH-
Confidence            356799999999999998888754443333334456667788888876               8899999999754332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            -.-.+.|..+++++|.|...+                                                     
T Consensus        73 ------itstyyrgthgv~vVYDVTn~-----------------------------------------------------   93 (198)
T KOG0079|consen   73 ------ITSTYYRGTHGVIVVYDVTNG-----------------------------------------------------   93 (198)
T ss_pred             ------HHHHHccCCceEEEEEECcch-----------------------------------------------------
Confidence                  222345889999999998532                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      +.+..++.||++-                +.  .-...|-++|+||.|.+....-..+..+.|+...|+.++.+||+-.+
T Consensus        94 ESF~Nv~rWLeei----------------~~--ncdsv~~vLVGNK~d~~~RrvV~t~dAr~~A~~mgie~FETSaKe~~  155 (198)
T KOG0079|consen   94 ESFNNVKRWLEEI----------------RN--NCDSVPKVLVGNKNDDPERRVVDTEDARAFALQMGIELFETSAKENE  155 (198)
T ss_pred             hhhHhHHHHHHHH----------------Hh--cCccccceecccCCCCccceeeehHHHHHHHHhcCchheehhhhhcc
Confidence            3344556666531                11  11345778899999976422234566778888889999999999666


Q ss_pred             HHhcCC
Q psy2401         243 EISDLN  248 (363)
Q Consensus       243 ~i~el~  248 (363)
                      ++..+.
T Consensus       156 NvE~mF  161 (198)
T KOG0079|consen  156 NVEAMF  161 (198)
T ss_pred             cchHHH
Confidence            655543

>KOG0075|consensus

Probab=99.28  E-value=4.1e-12  Score=105.34  Aligned_cols=80  Identities=26%  Similarity=0.341  Sum_probs=59.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      |.+.++|..+||||||.|.+........-.|  |...+...++-.+                 .++.+||+||...+.+.
T Consensus        21 mel~lvGLq~sGKtt~Vn~ia~g~~~edmip--tvGfnmrk~tkgn-----------------vtiklwD~gGq~rfrsm   81 (186)
T KOG0075|consen   21 MELSLVGLQNSGKTTLVNVIARGQYLEDMIP--TVGFNMRKVTKGN-----------------VTIKLWDLGGQPRFRSM   81 (186)
T ss_pred             eeEEEEeeccCCcceEEEEEeeccchhhhcc--cccceeEEeccCc-----------------eEEEEEecCCCccHHHH
Confidence            6889999999999999999876333222222  5555555555444                 78999999998776654


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ++       .+.|.+++|++|||+++
T Consensus        82 We-------rycR~v~aivY~VDaad  100 (186)
T KOG0075|consen   82 WE-------RYCRGVSAIVYVVDAAD  100 (186)
T ss_pred             HH-------HHhhcCcEEEEEeecCC
Confidence            43       56699999999999965

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

Probab=99.27  E-value=2.5e-11  Score=120.53  Aligned_cols=99  Identities=22%  Similarity=0.150  Sum_probs=59.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc---cccCCCceeecceeEEEEeCCccccccccccccc---------cccceeEEE
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI---SAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTK---------KIFPAIIKL   70 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~---~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~---------~~~~~~i~l   70 (363)
                      ++|+++|+.++|||||+.+|++...   ...-..+.|++...+...+....--.....+...         ......+++
T Consensus        10 ~ni~v~Gh~d~GKSTL~~~L~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~l   89 (411)
T PRK04000         10 VNIGMVGHVDHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETELLRRVSF   89 (411)
T ss_pred             EEEEEEccCCCCHHHHHHHhhCeecccCHhHHhcCcEEEecccccccccccccCccccccccccccccccccccccEEEE
Confidence            6899999999999999999987411   1112345566554433333210000000001000         011257899


Q ss_pred             EeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          71 VDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        71 vDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      |||||..+       +...++..+..+|++++|+|+.+
T Consensus        90 iDtPG~~~-------f~~~~~~~~~~~D~~llVVDa~~  120 (411)
T PRK04000         90 VDAPGHET-------LMATMLSGAALMDGAILVIAANE  120 (411)
T ss_pred             EECCCHHH-------HHHHHHHHHhhCCEEEEEEECCC
Confidence            99999643       34467777788999999999953

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.27  E-value=5.1e-11  Score=123.36  Aligned_cols=84  Identities=19%  Similarity=0.156  Sum_probs=58.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccc---------c------CCCceeecceeEEEEeC---Ccccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISA---------E------NYPFCTIEPNIGIIEVP---DKRLKHLNNIVKTKKIF   64 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~---------~------~~p~~t~~~~~g~v~~~---~~~~~~l~~~~~~~~~~   64 (363)
                      ++++|+|+.++|||||+.+|+.....+         .      ...+.|+......+.|.   +..              
T Consensus         8 RNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~--------------   73 (600)
T PRK05433          8 RNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGET--------------   73 (600)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCc--------------
Confidence            589999999999999999997531111         0      11355555554445443   111              


Q ss_pred             ceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          65 PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        65 ~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                       ..+++|||||+.++..       .....++.+|++++|+|+++
T Consensus        74 -~~lnLiDTPGh~dF~~-------~v~~sl~~aD~aILVVDas~  109 (600)
T PRK05433         74 -YILNLIDTPGHVDFSY-------EVSRSLAACEGALLVVDASQ  109 (600)
T ss_pred             -EEEEEEECCCcHHHHH-------HHHHHHHHCCEEEEEEECCC
Confidence             6799999999876543       44466789999999999964

>KOG0465|consensus

Probab=99.26  E-value=1.7e-11  Score=122.06  Aligned_cols=226  Identities=17%  Similarity=0.117  Sum_probs=168.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc---cc---------------CCCceeecceeEEEEeCCcccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS---AE---------------NYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF   64 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~---~~---------------~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~   64 (363)
                      .+|||+-+--+||||+-+.+.-....   ..               ...+.|+........|.+                
T Consensus        40 RNIgi~AhidsgKTT~tEr~Lyy~G~~~~i~ev~~~~a~md~m~~er~rgITiqSAAt~~~w~~----------------  103 (721)
T KOG0465|consen   40 RNIGISAHIDAGKTTLTERMLYYTGRIKHIGEVRGGGATMDSMELERQRGITIQSAATYFTWRD----------------  103 (721)
T ss_pred             cccceEEEEecCCceeeheeeeecceeeeccccccCceeeehHHHHHhcCceeeeceeeeeecc----------------
Confidence            47899999999999999988632111   11               113455555555555654                


Q ss_pred             ceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-h
Q psy2401          65 PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-Y  143 (363)
Q Consensus        65 ~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~  143 (363)
                       ..+++|||||.+++.-       +.-.++|..|.+++|+|+..+..                .+++-+|+.+..+.. +
T Consensus       104 -~~iNiIDTPGHvDFT~-------EVeRALrVlDGaVlvl~aV~GVq----------------sQt~tV~rQ~~ry~vP~  159 (721)
T KOG0465|consen  104 -YRINIIDTPGHVDFTF-------EVERALRVLDGAVLVLDAVAGVE----------------SQTETVWRQMKRYNVPR  159 (721)
T ss_pred             -ceeEEecCCCceeEEE-------EehhhhhhccCeEEEEEccccee----------------hhhHHHHHHHHhcCCCe
Confidence             7899999999998766       34467788999999999966542                345778888877777 6


Q ss_pred             hhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEecccccc---CCCchHHH
Q psy2401         144 IDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFVANVKEN---GFKNNLLL  219 (363)
Q Consensus       144 ~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v~Nk~d~---~~~~~~~~  219 (363)
                      +.++|||++-|.    +...+++.+...|.......++|+..++  .+.++ +++..|.+.+-....+.   +..|.++.
T Consensus       160 i~FiNKmDRmGa----~~~~~l~~i~~kl~~~~a~vqiPig~e~--~f~GvvDlv~~kai~~~g~~g~~i~~~eIP~~l~  233 (721)
T KOG0465|consen  160 ICFINKMDRMGA----SPFRTLNQIRTKLNHKPAVVQIPIGSES--NFKGVVDLVNGKAIYWDGENGEIVRKDEIPEDLE  233 (721)
T ss_pred             EEEEehhhhcCC----ChHHHHHHHHhhcCCchheeEccccccc--cchhHHhhhhceEEEEcCCCCceeEeccCCHHHH
Confidence            889999976553    4667888888888866667778988877  67777 77788777664322221   11355555


Q ss_pred             HHHHHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeC
Q psy2401         220 DQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTV  285 (363)
Q Consensus       220 ~~i~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~  285 (363)
                      +...+.           +..+.+-++++|+++.+.||++...+.+.|..+|++.--.-.+.|||-.
T Consensus       234 ~~~~e~-----------R~~LIE~lad~DE~l~e~fLee~~ps~~~l~~aIRr~Ti~r~fvPVl~G  288 (721)
T KOG0465|consen  234 ELAEEK-----------RQALIETLADVDETLAEMFLEEEEPSAQQLKAAIRRATIKRSFVPVLCG  288 (721)
T ss_pred             HHHHHH-----------HHHHHHHHhhhhHHHHHHHhccCCCCHHHHHHHHHHHHhhcceeeEEec
Confidence            555555           6778889999999999999999998999999999999989999999986

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.26  E-value=1.8e-11  Score=123.61  Aligned_cols=82  Identities=18%  Similarity=0.123  Sum_probs=55.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccC-----------CC----------------------ceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAEN-----------YP----------------------FCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~-----------~p----------------------~~t~~~~~g~v~~~~~   49 (363)
                      ++|+++|++++|||||+++|+...-.+..           .+                      +.|++.....+.+++ 
T Consensus        28 ~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~~~~~~-  106 (474)
T PRK05124         28 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFSTEK-  106 (474)
T ss_pred             eEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEEeccCC-
Confidence            68999999999999999999754111100           01                      233343333333333 


Q ss_pred             cccccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          50 RLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        50 ~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                                      .++.++||||+.+       +.......++.+|++++|||+..
T Consensus       107 ----------------~~i~~iDTPGh~~-------f~~~~~~~l~~aD~allVVDa~~  142 (474)
T PRK05124        107 ----------------RKFIIADTPGHEQ-------YTRNMATGASTCDLAILLIDARK  142 (474)
T ss_pred             ----------------cEEEEEECCCcHH-------HHHHHHHHHhhCCEEEEEEECCC
Confidence                            6789999999532       33355566799999999999953

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.26  E-value=1.2e-11  Score=129.39  Aligned_cols=82  Identities=18%  Similarity=0.163  Sum_probs=55.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccc----------cCCCc----------------------eeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISA----------ENYPF----------------------CTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~----------~~~p~----------------------~t~~~~~g~v~~~~~   49 (363)
                      ++|+++|++|+|||||+++|+... ...          +..++                      .|++...+.+.+++ 
T Consensus        25 ~~i~iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~~~~~~-  103 (632)
T PRK05506         25 LRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRYFATPK-  103 (632)
T ss_pred             eEEEEECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeEEccCC-
Confidence            689999999999999999998642 111          11223                      33333333344333 


Q ss_pred             cccccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          50 RLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        50 ~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                                      .++.++||||+.+       +.......+..+|++++|||+..
T Consensus       104 ----------------~~~~liDtPG~~~-------f~~~~~~~~~~aD~~llVvda~~  139 (632)
T PRK05506        104 ----------------RKFIVADTPGHEQ-------YTRNMVTGASTADLAIILVDARK  139 (632)
T ss_pred             ----------------ceEEEEECCChHH-------HHHHHHHHHHhCCEEEEEEECCC
Confidence                            5788999999643       22345566789999999999953

>PRK12740 elongation factor G; Reviewed

Probab=99.26  E-value=6.6e-11  Score=124.71  Aligned_cols=220  Identities=17%  Similarity=0.133  Sum_probs=133.2

Q ss_pred             EeCCCCcHHHHHHHHHcCC---cccc---------C------CCceeecceeEEEEeCCccccccccccccccccceeEE
Q psy2401           8 IGLPNVGKSTLFNALTKLK---ISAE---------N------YPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIK   69 (363)
Q Consensus         8 vG~~g~GKSTL~n~Lt~~~---~~~~---------~------~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~   69 (363)
                      +|++|+|||||+++|....   ...+         +      .++.|+......+.+.+                 ..++
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~~-----------------~~i~   63 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKG-----------------HKIN   63 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEECC-----------------EEEE
Confidence            6999999999999995331   1111         1      13455555556666666                 7899


Q ss_pred             EEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-hhhhhh
Q psy2401          70 LVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-YIDKEN  148 (363)
Q Consensus        70 lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~~~~i~  148 (363)
                      +|||||..++       .......++.+|++++|+|++.+..                ...+..+..+..... .+..+|
T Consensus        64 liDtPG~~~~-------~~~~~~~l~~aD~vllvvd~~~~~~----------------~~~~~~~~~~~~~~~p~iiv~N  120 (668)
T PRK12740         64 LIDTPGHVDF-------TGEVERALRVLDGAVVVVCAVGGVE----------------PQTETVWRQAEKYGVPRIIFVN  120 (668)
T ss_pred             EEECCCcHHH-------HHHHHHHHHHhCeEEEEEeCCCCcC----------------HHHHHHHHHHHHcCCCEEEEEE
Confidence            9999997542       2355667789999999999964311                111222333333333 356788


Q ss_pred             cccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEecccc--ccCCCchHHHHHHHHH
Q psy2401         149 KKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFVANVK--ENGFKNNLLLDQLKIY  225 (363)
Q Consensus       149 k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v~Nk~--d~~~~~~~~~~~i~~~  225 (363)
                      |++..+.    .....++++++.|.....+..+|+...+  .+.++ +++..+.+.|- +..  .....+....+.+.+.
T Consensus       121 K~D~~~~----~~~~~~~~l~~~l~~~~~~~~~p~~~~~--~~~~~id~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  193 (668)
T PRK12740        121 KMDRAGA----DFFRVLAQLQEKLGAPVVPLQLPIGEGD--DFTGVVDLLSMKAYRYD-EGGPSEEIEIPAELLDRAEEA  193 (668)
T ss_pred             CCCCCCC----CHHHHHHHHHHHHCCCceeEEecccCCC--CceEEEECccceEEEec-CCCeeEEecCCHHHHHHHHHH
Confidence            8865432    2445667777777654434444543332  23333 33343333322 100  0000123333333333


Q ss_pred             HhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeC
Q psy2401         226 AHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTV  285 (363)
Q Consensus       226 ~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~  285 (363)
                                 ..++-+.+++.+++..++||+...++.+.+...++.....-.++|+|..
T Consensus       194 -----------~~~l~e~~~~~d~~~le~~l~~~~l~~~~~~~~~~~~~~~~~~~Pv~~g  242 (668)
T PRK12740        194 -----------REELLEALAEFDDELMEKYLEGEELSEEEIKAGLRKATLAGEIVPVFCG  242 (668)
T ss_pred             -----------HHHHHHHHHhcCHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCEEEEEec
Confidence                       3456677888899999999999888888888888888888889999886

>KOG0086|consensus

Probab=99.25  E-value=2.2e-11  Score=101.58  Aligned_cols=152  Identities=17%  Similarity=0.158  Sum_probs=100.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +|+.++|+.|+|||.|+..+...+..-..-....++..+..+.+.+++               .++++|||+|..++.+ 
T Consensus        10 fKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~---------------vKLQIWDTAGQErFRS-   73 (214)
T KOG0086|consen   10 FKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKT---------------VKLQIWDTAGQERFRS-   73 (214)
T ss_pred             heeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcE---------------EEEEEeecccHHHHHH-
Confidence            689999999999999999998765442222222344455567777765               7899999999876554 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            ...++.|.|-.+++|.|+...                                                     
T Consensus        74 ------VtRsYYRGAAGAlLVYD~Tsr-----------------------------------------------------   94 (214)
T KOG0086|consen   74 ------VTRSYYRGAAGALLVYDITSR-----------------------------------------------------   94 (214)
T ss_pred             ------HHHHHhccccceEEEEeccch-----------------------------------------------------
Confidence                  555777999999999998431                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      +.++.+..||...                +.+. -...-+++++||.|++...+.-..+..+++.++.+.+..+||.+.+
T Consensus        95 dsfnaLtnWL~Da----------------R~lA-s~nIvviL~GnKkDL~~~R~VtflEAs~FaqEnel~flETSa~TGe  157 (214)
T KOG0086|consen   95 DSFNALTNWLTDA----------------RTLA-SPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGE  157 (214)
T ss_pred             hhHHHHHHHHHHH----------------HhhC-CCcEEEEEeCChhhcChhhhhhHHHHHhhhcccceeeeeecccccc
Confidence            2334444454421                1110 0233455578999975322233444556677777788899999877


Q ss_pred             HHhc
Q psy2401         243 EISD  246 (363)
Q Consensus       243 ~i~e  246 (363)
                      ++.|
T Consensus       158 NVEE  161 (214)
T KOG0086|consen  158 NVEE  161 (214)
T ss_pred             cHHH
Confidence            7654

>PRK12736 elongation factor Tu; Reviewed

Probab=99.25  E-value=5.8e-11  Score=117.43  Aligned_cols=82  Identities=23%  Similarity=0.248  Sum_probs=56.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc----------------ccCCCceeecceeEEEEeCCccccccccccccccccce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS----------------AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA   66 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~----------------~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~   66 (363)
                      ++|+++|++++|||||+++|++....                ..-..+.|++..  .+.+....               .
T Consensus        13 ~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~--~~~~~~~~---------------~   75 (394)
T PRK12736         13 VNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTA--HVEYETEK---------------R   75 (394)
T ss_pred             eEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEE--eeEecCCC---------------c
Confidence            68999999999999999999873111                011345666543  33332211               5


Q ss_pred             eEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          67 IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        67 ~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ++.++||||..+       +...+...+..+|++++|+|+.+
T Consensus        76 ~i~~iDtPGh~~-------f~~~~~~~~~~~d~~llVvd~~~  110 (394)
T PRK12736         76 HYAHVDCPGHAD-------YVKNMITGAAQMDGAILVVAATD  110 (394)
T ss_pred             EEEEEECCCHHH-------HHHHHHHHHhhCCEEEEEEECCC
Confidence            789999999643       33466677788999999999853

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

Probab=99.25  E-value=4.1e-11  Score=111.08  Aligned_cols=88  Identities=17%  Similarity=0.220  Sum_probs=63.7

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      +++|+++|.+|||||||+|+|++.. +.++.++.+|.........+.+                 ..+.+|||||+.+..
T Consensus        31 ~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~~~~~~~~~~~g-----------------~~i~vIDTPGl~~~~   93 (249)
T cd01853          31 SLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETLRVREVSGTVDG-----------------FKLNIIDTPGLLESV   93 (249)
T ss_pred             CeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC-----------------eEEEEEECCCcCcch
Confidence            3789999999999999999999984 5677888788887777777766                 679999999998653


Q ss_pred             Ccc---cchhhHHHhhc--cccCEEEEEEec
Q psy2401          81 SKG---EGLGNKFLAHI--RETNIVIHVIRC  106 (363)
Q Consensus        81 ~~~---~~l~~~~l~~~--~~aD~il~Vvda  106 (363)
                      ...   ..........+  ...|++++|.+.
T Consensus        94 ~~~~~~~~~~~~I~~~l~~~~idvIL~V~rl  124 (249)
T cd01853          94 MDQRVNRKILSSIKRYLKKKTPDVVLYVDRL  124 (249)
T ss_pred             hhHHHHHHHHHHHHHHHhccCCCEEEEEEcC
Confidence            211   11111122222  257888888765

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

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.24  E-value=4.5e-11  Score=118.27  Aligned_cols=82  Identities=22%  Similarity=0.212  Sum_probs=57.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-------cc---------ccCCCceeecceeEEEEeCCccccccccccccccccce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-------IS---------AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA   66 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-------~~---------~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~   66 (363)
                      ++|+++|+.++|||||+++|++..       ..         ..-.+++|++...  +.+....               .
T Consensus        13 ~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~--~~~~~~~---------------~   75 (394)
T TIGR00485        13 VNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAH--VEYETEN---------------R   75 (394)
T ss_pred             EEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEE--EEEcCCC---------------E
Confidence            679999999999999999998430       10         1112566766543  3332211               5


Q ss_pred             eEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          67 IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        67 ~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ++.+|||||..++       ...++..+..+|++++|+|+.+
T Consensus        76 ~~~liDtpGh~~f-------~~~~~~~~~~~D~~ilVvda~~  110 (394)
T TIGR00485        76 HYAHVDCPGHADY-------VKNMITGAAQMDGAILVVSATD  110 (394)
T ss_pred             EEEEEECCchHHH-------HHHHHHHHhhCCEEEEEEECCC
Confidence            7899999997543       3466677788999999999953

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.

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

Probab=99.24  E-value=1.1e-10  Score=120.08  Aligned_cols=98  Identities=11%  Similarity=0.044  Sum_probs=57.3

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcccccccccc-ccc--cccceeEEEEeeecccC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIV-KTK--KIFPAIIKLVDIAGLVS   78 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~-~~~--~~~~~~i~lvDtpGl~~   78 (363)
                      +.-|+++|++|+|||||+|+|++.........++|.+.....+..+..  ....... ...  ..-...+.+|||||+..
T Consensus         4 ~piV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~--~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~   81 (590)
T TIGR00491         4 SPIVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVI--EGICGDLLKKFKIRLKIPGLLFIDTPGHEA   81 (590)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccc--cccccccccccccccccCcEEEEECCCcHh
Confidence            346899999999999999999987543333334554433333332210  0000000 000  00012489999999754


Q ss_pred             CCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          79 GASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        79 ~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      +..       .....++.+|++++|+|+.+
T Consensus        82 f~~-------l~~~~~~~aD~~IlVvD~~~  104 (590)
T TIGR00491        82 FTN-------LRKRGGALADLAILIVDINE  104 (590)
T ss_pred             HHH-------HHHHHHhhCCEEEEEEECCc
Confidence            332       22345588999999999854

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.

>PRK12735 elongation factor Tu; Reviewed

Probab=99.23  E-value=6.8e-11  Score=117.01  Aligned_cols=82  Identities=23%  Similarity=0.235  Sum_probs=57.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC-------Ccc---------ccCCCceeecceeEEEEeCCccccccccccccccccce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL-------KIS---------AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA   66 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~-------~~~---------~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~   66 (363)
                      ++|+++|++++|||||+++|++.       ...         ..-..++|++.....+..++                 .
T Consensus        13 ~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~~~~~-----------------~   75 (396)
T PRK12735         13 VNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYETAN-----------------R   75 (396)
T ss_pred             EEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEEcCCC-----------------c
Confidence            67999999999999999999862       110         01134566654333333332                 5


Q ss_pred             eEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          67 IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        67 ~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ++.++||||+.+       +...+...+..+|++++|+|+..
T Consensus        76 ~i~~iDtPGh~~-------f~~~~~~~~~~aD~~llVvda~~  110 (396)
T PRK12735         76 HYAHVDCPGHAD-------YVKNMITGAAQMDGAILVVSAAD  110 (396)
T ss_pred             EEEEEECCCHHH-------HHHHHHhhhccCCEEEEEEECCC
Confidence            789999999742       33466677789999999999853

>KOG0093|consensus

Probab=99.23  E-value=3.9e-11  Score=99.59  Aligned_cols=154  Identities=15%  Similarity=0.105  Sum_probs=105.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .|+.++|...+||||++...++.....+-+....++....++.-.++|               ..+++|||+|.....  
T Consensus        22 fKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kR---------------iklQiwDTagqEryr--   84 (193)
T KOG0093|consen   22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKR---------------IKLQIWDTAGQERYR--   84 (193)
T ss_pred             eeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccE---------------EEEEEEecccchhhh--
Confidence            589999999999999999999875554443333444444455555555               789999999976522  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                           .-.-.++|.+++++++.|...+                                                     
T Consensus        85 -----tiTTayyRgamgfiLmyDitNe-----------------------------------------------------  106 (193)
T KOG0093|consen   85 -----TITTAYYRGAMGFILMYDITNE-----------------------------------------------------  106 (193)
T ss_pred             -----HHHHHHhhccceEEEEEecCCH-----------------------------------------------------
Confidence                 2445778999999999998421                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      +.++.+++|..+-+.+   .|              ...|+|+|+||.|.+...--..++.+.++.+.|..++.+||+..-
T Consensus       107 eSf~svqdw~tqIkty---sw--------------~naqvilvgnKCDmd~eRvis~e~g~~l~~~LGfefFEtSaK~Ni  169 (193)
T KOG0093|consen  107 ESFNSVQDWITQIKTY---SW--------------DNAQVILVGNKCDMDSERVISHERGRQLADQLGFEFFETSAKENI  169 (193)
T ss_pred             HHHHHHHHHHHHheee---ec--------------cCceEEEEecccCCccceeeeHHHHHHHHHHhChHHhhhcccccc
Confidence            2344444444422111   11              356999999999975322224567777777889899999999766


Q ss_pred             HHhcCC
Q psy2401         243 EISDLN  248 (363)
Q Consensus       243 ~i~el~  248 (363)
                      ++.++.
T Consensus       170 nVk~~F  175 (193)
T KOG0093|consen  170 NVKQVF  175 (193)
T ss_pred             cHHHHH
Confidence            665553

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.22  E-value=2.2e-10  Score=102.97  Aligned_cols=89  Identities=17%  Similarity=0.116  Sum_probs=55.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||++.+++........|....+.....+.+++..         +. .....+++|||+|...... 
T Consensus         1 vKIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~---------~~-~~~~~l~IwDtaG~e~~~~-   69 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGT---------PE-EKTFFVELWDVGGSESVKS-   69 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCC---------CC-CcEEEEEEEecCCchhHHH-
Confidence            489999999999999999999865443332322212222334443210         00 0015799999999754322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                         +   ....++.+|++++|+|.++
T Consensus        70 ---l---~~~~yr~ad~iIlVyDvtn   89 (202)
T cd04102          70 ---T---RAVFYNQVNGIILVHDLTN   89 (202)
T ss_pred             ---H---HHHHhCcCCEEEEEEECcC
Confidence               2   2234589999999999854

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.

>KOG0095|consensus

Probab=99.22  E-value=4.9e-11  Score=99.18  Aligned_cols=84  Identities=21%  Similarity=0.175  Sum_probs=65.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||++||..|+|||.|.+.+|..-.+.+.-.....+.-..++++++..               .++++|||+|..++.+ 
T Consensus         8 fkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~gek---------------iklqiwdtagqerfrs-   71 (213)
T KOG0095|consen    8 FKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEK---------------IKLQIWDTAGQERFRS-   71 (213)
T ss_pred             EEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeE---------------EEEEEeeccchHHHHH-
Confidence            689999999999999999999754443333333344556678888865               7899999999876554 


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                            -..++.|.|+++++|.|.+-
T Consensus        72 ------itqsyyrsahalilvydisc   91 (213)
T KOG0095|consen   72 ------ITQSYYRSAHALILVYDISC   91 (213)
T ss_pred             ------HHHHHhhhcceEEEEEeccc
Confidence                  55677799999999999863

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.22  E-value=2.4e-10  Score=98.71  Aligned_cols=84  Identities=20%  Similarity=0.163  Sum_probs=62.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCc--------cccCC--CceeecceeEEEEeCCccccccccccccccccceeEEEE
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKI--------SAENY--PFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLV   71 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~--------~~~~~--p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lv   71 (363)
                      +.||+++|+-++||||++++++....        ..+..  ..||..+..|.+.+.+.                ..+.++
T Consensus        10 ~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~~~~----------------~~v~Lf   73 (187)
T COG2229          10 ETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELDED----------------TGVHLF   73 (187)
T ss_pred             ceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceEEcCc----------------ceEEEe
Confidence            36899999999999999999986532        11111  23788888888888774                578999


Q ss_pred             eeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          72 DIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        72 DtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      +|||..++.-.+       --..+.++.++++||++.
T Consensus        74 gtPGq~RF~fm~-------~~l~~ga~gaivlVDss~  103 (187)
T COG2229          74 GTPGQERFKFMW-------EILSRGAVGAIVLVDSSR  103 (187)
T ss_pred             cCCCcHHHHHHH-------HHHhCCcceEEEEEecCC
Confidence            999987653321       133478999999999864

>TIGR00503 prfC peptide chain release factor 3

Probab=99.21  E-value=2.3e-11  Score=124.04  Aligned_cols=157  Identities=15%  Similarity=0.142  Sum_probs=101.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC-Cc--c---c----------cCC------CceeecceeEEEEeCCcccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL-KI--S---A----------ENY------PFCTIEPNIGIIEVPDKRLKHLNNIVKT   60 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~-~~--~---~----------~~~------p~~t~~~~~g~v~~~~~~~~~l~~~~~~   60 (363)
                      ++++|+|++|+|||||.++|+.. .+  .   +          +++      .+.|+......+.+++            
T Consensus        12 RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~------------   79 (527)
T TIGR00503        12 RTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRD------------   79 (527)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCC------------
Confidence            58999999999999999998532 11  1   1          000      1223333333344444            


Q ss_pred             ccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHH
Q psy2401          61 KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAIL  140 (363)
Q Consensus        61 ~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~  140 (363)
                           .++++|||||..++.       ......++.+|++++|+|+..+.                ....+..+..+...
T Consensus        80 -----~~inliDTPG~~df~-------~~~~~~l~~aD~aIlVvDa~~gv----------------~~~t~~l~~~~~~~  131 (527)
T TIGR00503        80 -----CLVNLLDTPGHEDFS-------EDTYRTLTAVDNCLMVIDAAKGV----------------ETRTRKLMEVTRLR  131 (527)
T ss_pred             -----eEEEEEECCChhhHH-------HHHHHHHHhCCEEEEEEECCCCC----------------CHHHHHHHHHHHhc
Confidence                 789999999985433       35667789999999999986431                11123333333333


Q ss_pred             Hh-hhhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEe
Q psy2401         141 EK-YIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFV  205 (363)
Q Consensus       141 ~~-~~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v  205 (363)
                      .. .+..+||+++.+    .+...+++.+++.+.....+..+|++.++  .++++ +++..+|.+|-
T Consensus       132 ~~PiivviNKiD~~~----~~~~~ll~~i~~~l~~~~~~~~~PIg~~~--~f~gv~d~l~~~~~~y~  192 (527)
T TIGR00503       132 DTPIFTFMNKLDRDI----RDPLELLDEVENELKINCAPITWPIGCGK--LFKGVYHLLKDETYLYQ  192 (527)
T ss_pred             CCCEEEEEECccccC----CCHHHHHHHHHHHhCCCCccEEEEecCCC--ceeEEEEcccCcceecC
Confidence            33 357888886432    23556788888888876666677877665  56666 78888899884

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.

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=99.20  E-value=4.8e-11  Score=97.30  Aligned_cols=80  Identities=24%  Similarity=0.277  Sum_probs=50.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCcc----ccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCC
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKIS----AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~----~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      ||.++|.+|||||||+++|.+....    .......+..  .....+...+               ..+.+||++|....
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~---------------~~~~~~d~~g~~~~   63 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIG--VDVIVVDGDR---------------QSLQFWDFGGQEEF   63 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEE--EEEEEETTEE---------------EEEEEEEESSSHCH
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEE--EEEEEecCCc---------------eEEEEEecCcccee
Confidence            7999999999999999999986443    1111111111  1123333322               45889999997432


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEecc
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ....     .  ..+..+|++++|+|++
T Consensus        64 ~~~~-----~--~~~~~~d~~ilv~D~s   84 (119)
T PF08477_consen   64 YSQH-----Q--FFLKKADAVILVYDLS   84 (119)
T ss_dssp             HCTS-----H--HHHHHSCEEEEEEECC
T ss_pred             cccc-----c--chhhcCcEEEEEEcCC
Confidence            2211     1  1268899999999985

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=99.20  E-value=5e-10  Score=108.58  Aligned_cols=93  Identities=23%  Similarity=0.249  Sum_probs=63.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC----Cc------------cccCCCc---eeeccee---EEEEeCCcccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL----KI------------SAENYPF---CTIEPNI---GIIEVPDKRLKHLNNIVKT   60 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~----~~------------~~~~~p~---~t~~~~~---g~v~~~~~~~~~l~~~~~~   60 (363)
                      ..||++|+.|+|||||+|++++.    ..            -+++.+|   +|.+|..   -.+.+.-            
T Consensus        18 IyIGvvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~------------   85 (492)
T TIGR02836        18 IYIGVVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEINI------------   85 (492)
T ss_pred             EEEEEEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEec------------
Confidence            46999999999999999999987    22            2556778   7778765   3333321            


Q ss_pred             ccccceeEEEEeeecccCCCCcccchhhH----------------------HHhhcc-ccCEEEEEE-ecc
Q psy2401          61 KKIFPAIIKLVDIAGLVSGASKGEGLGNK----------------------FLAHIR-ETNIVIHVI-RCF  107 (363)
Q Consensus        61 ~~~~~~~i~lvDtpGl~~~~~~~~~l~~~----------------------~l~~~~-~aD~il~Vv-da~  107 (363)
                      ...+..++.++||+|+......|..-..+                      ....++ .+|..++|. |++
T Consensus        86 ~~~~~~~VrlIDcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgs  156 (492)
T TIGR02836        86 NEGTKFKVRLVDCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGT  156 (492)
T ss_pred             cCCCcccEEEEECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCC
Confidence            11112679999999997654444322233                      455666 788888888 764

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.

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

Probab=99.20  E-value=9.5e-11  Score=105.49  Aligned_cols=82  Identities=24%  Similarity=0.369  Sum_probs=55.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      +|.++|++|||||||++.|+..... ..++  +..++.+.......             .....+.+||+||..+.    
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~-~t~~--s~~~~~~~~~~~~~-------------~~~~~~~l~D~pG~~~~----   61 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYR-STVT--SIEPNVATFILNSE-------------GKGKKFRLVDVPGHPKL----   61 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCC-CccC--cEeecceEEEeecC-------------CCCceEEEEECCCCHHH----
Confidence            6899999999999999999985332 1222  22344444443210             00156899999997543    


Q ss_pred             cchhhHHHhhcccc-CEEEEEEeccc
Q psy2401          84 EGLGNKFLAHIRET-NIVIHVIRCFK  108 (363)
Q Consensus        84 ~~l~~~~l~~~~~a-D~il~Vvda~~  108 (363)
                         .......++.+ +++|+|+|+..
T Consensus        62 ---~~~~~~~~~~~~~~vV~VvD~~~   84 (203)
T cd04105          62 ---RDKLLETLKNSAKGIVFVVDSAT   84 (203)
T ss_pred             ---HHHHHHHHhccCCEEEEEEECcc
Confidence               23556667787 99999999953

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

>PLN03127 Elongation factor Tu; Provisional

Probab=99.19  E-value=1.2e-10  Score=116.56  Aligned_cols=82  Identities=23%  Similarity=0.188  Sum_probs=58.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc----------------cccCCCceeecceeEEEEeCCccccccccccccccccce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI----------------SAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA   66 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~----------------~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~   66 (363)
                      ++|+++|+.++|||||+++|++...                ...-.++.|++.....++.++                 .
T Consensus        62 ~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~-----------------~  124 (447)
T PLN03127         62 VNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYETAK-----------------R  124 (447)
T ss_pred             EEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEEEcCCC-----------------e
Confidence            6799999999999999999984210                011226777776544444433                 6


Q ss_pred             eEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          67 IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        67 ~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ++.++||||+.+       +.+.....+..+|++++|||+.+
T Consensus       125 ~i~~iDtPGh~~-------f~~~~~~g~~~aD~allVVda~~  159 (447)
T PLN03127        125 HYAHVDCPGHAD-------YVKNMITGAAQMDGGILVVSAPD  159 (447)
T ss_pred             EEEEEECCCccc-------hHHHHHHHHhhCCEEEEEEECCC
Confidence            789999999743       33455566678999999999853

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.19  E-value=1.6e-10  Score=105.34  Aligned_cols=92  Identities=18%  Similarity=0.108  Sum_probs=57.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccC----------------CCceeecceeEEEEeCCccccccccccccccccce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAEN----------------YPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA   66 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~----------------~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~   66 (363)
                      ++|+++|+.++|||||+.+|+.....++.                ..+.|+......+.+......      .. .....
T Consensus         1 RNvaiiGhvd~GKTTL~d~Ll~~~g~i~~~~~g~~~~~D~~~~E~~RgiTi~~~~~~~~~~~~~~~------~~-~~~~~   73 (222)
T cd01885           1 RNICIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYMDSREDEQERGITMKSSAISLYFEYEEED------KA-DGNEY   73 (222)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcCCCccccCCceeeccCCHHHHHhccccccceEEEEEecCccc------cc-CCCce
Confidence            47999999999999999999754211110                012333333223333210000      00 00126


Q ss_pred             eEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          67 IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        67 ~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      .+++|||||..++..       .....++.+|++++|+|+..
T Consensus        74 ~i~iiDTPG~~~f~~-------~~~~~l~~aD~~ilVvD~~~  108 (222)
T cd01885          74 LINLIDSPGHVDFSS-------EVTAALRLCDGALVVVDAVE  108 (222)
T ss_pred             EEEEECCCCccccHH-------HHHHHHHhcCeeEEEEECCC
Confidence            799999999876443       66778899999999999954

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

>KOG0410|consensus

Probab=99.19  E-value=2.3e-11  Score=113.34  Aligned_cols=89  Identities=27%  Similarity=0.451  Sum_probs=74.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .-|++||.+|||||||+++||++.....+.-|.|.+|+......+..                ..+-+.||.|+......
T Consensus       179 pviavVGYTNaGKsTLikaLT~Aal~p~drLFATLDpT~h~a~Lpsg----------------~~vlltDTvGFisdLP~  242 (410)
T KOG0410|consen  179 PVIAVVGYTNAGKSTLIKALTKAALYPNDRLFATLDPTLHSAHLPSG----------------NFVLLTDTVGFISDLPI  242 (410)
T ss_pred             ceEEEEeecCccHHHHHHHHHhhhcCccchhheeccchhhhccCCCC----------------cEEEEeechhhhhhCcH
Confidence            45899999999999999999987788888899999999988888775                46789999999865442


Q ss_pred             ccchhh---HHHhhccccCEEEEEEecccC
Q psy2401          83 GEGLGN---KFLAHIRETNIVIHVIRCFKD  109 (363)
Q Consensus        83 ~~~l~~---~~l~~~~~aD~il~Vvda~~~  109 (363)
                        .+..   ..+.++..+|+++||+|.+++
T Consensus       243 --~LvaAF~ATLeeVaeadlllHvvDiShP  270 (410)
T KOG0410|consen  243 --QLVAAFQATLEEVAEADLLLHVVDISHP  270 (410)
T ss_pred             --HHHHHHHHHHHHHhhcceEEEEeecCCc
Confidence              3333   446777889999999999874

>PLN00023 GTP-binding protein; Provisional

Probab=99.18  E-value=3.3e-10  Score=107.80  Aligned_cols=96  Identities=20%  Similarity=0.090  Sum_probs=56.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|..|||||||++.+.+........|....+.....+.+++... .+..+ .........++||||+|...+.. 
T Consensus        22 iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~-~~~~i-k~d~~k~v~LqIWDTAGqErfrs-   98 (334)
T PLN00023         22 VRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGS-SSNSI-KGDSERDFFVELWDVSGHERYKD-   98 (334)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCccc-ccccc-cccCCceEEEEEEECCCChhhhh-
Confidence            6999999999999999999998644332223222222233445432100 00000 00000116799999999765433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            ..-..++++|++|+|+|++
T Consensus        99 ------L~~~yyr~AdgiILVyDIT  117 (334)
T PLN00023         99 ------CRSLFYSQINGVIFVHDLS  117 (334)
T ss_pred             ------hhHHhccCCCEEEEEEeCC
Confidence                  2224468999999999985

>PRK00049 elongation factor Tu; Reviewed

Probab=99.18  E-value=1.3e-10  Score=115.11  Aligned_cols=82  Identities=23%  Similarity=0.207  Sum_probs=58.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc----------------ccCCCceeecceeEEEEeCCccccccccccccccccce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS----------------AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA   66 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~----------------~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~   66 (363)
                      ++|+++|++++|||||+++|++....                ..-.++.|++.....+..++                 .
T Consensus        13 ~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~-----------------~   75 (396)
T PRK00049         13 VNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYETEK-----------------R   75 (396)
T ss_pred             EEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEEcCCC-----------------e
Confidence            67999999999999999999873110                01135667665543333333                 6


Q ss_pred             eEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          67 IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        67 ~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ++.++||||+.+       +.......+..+|++++|+|+..
T Consensus        76 ~i~~iDtPG~~~-------f~~~~~~~~~~aD~~llVVDa~~  110 (396)
T PRK00049         76 HYAHVDCPGHAD-------YVKNMITGAAQMDGAILVVSAAD  110 (396)
T ss_pred             EEEEEECCCHHH-------HHHHHHhhhccCCEEEEEEECCC
Confidence            789999999742       33455677789999999999853

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.17  E-value=2.9e-10  Score=104.31  Aligned_cols=89  Identities=20%  Similarity=0.185  Sum_probs=69.6

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      ++++-|+|.+|+|||||+|+|... ..+++..+-+|..++.-...+++                 ..+.+||+||+.++.
T Consensus        39 pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~~~~~-----------------~~l~lwDtPG~gdg~  101 (296)
T COG3596          39 PVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRLSYDG-----------------ENLVLWDTPGLGDGK  101 (296)
T ss_pred             ceeEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhHHhhccc-----------------cceEEecCCCcccch
Confidence            467889999999999999999965 34455555555444444455555                 568999999999988


Q ss_pred             CcccchhhHHHhhccccCEEEEEEecc
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .+.......++..+...|++++++++.
T Consensus       102 ~~D~~~r~~~~d~l~~~DLvL~l~~~~  128 (296)
T COG3596         102 DKDAEHRQLYRDYLPKLDLVLWLIKAD  128 (296)
T ss_pred             hhhHHHHHHHHHHhhhccEEEEeccCC
Confidence            777667777888899999999999984

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

Probab=99.17  E-value=3.6e-10  Score=106.82  Aligned_cols=83  Identities=18%  Similarity=0.301  Sum_probs=61.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      ++|+++|.+|+||||++|+|+|.. +.++.++.+|..+......+.+                 ..+.+|||||+.+...
T Consensus        39 ~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s~t~~~~~~~~~~~G-----------------~~l~VIDTPGL~d~~~  101 (313)
T TIGR00991        39 LTILVMGKGGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRTRAG-----------------FTLNIIDTPGLIEGGY  101 (313)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeEEEEEEEECC-----------------eEEEEEECCCCCchHH
Confidence            689999999999999999999985 4567777777666655555566                 6899999999987532


Q ss_pred             cccchhhHHHhhc------cccCEEEEEEec
Q psy2401          82 KGEGLGNKFLAHI------RETNIVIHVIRC  106 (363)
Q Consensus        82 ~~~~l~~~~l~~~------~~aD~il~Vvda  106 (363)
                      ..+    +....+      ...|++|+|.+.
T Consensus       102 ~~e----~~~~~ik~~l~~~g~DvVLyV~rL  128 (313)
T TIGR00991       102 IND----QAVNIIKRFLLGKTIDVLLYVDRL  128 (313)
T ss_pred             HHH----HHHHHHHHHhhcCCCCEEEEEecc
Confidence            222    222222      268999999765

>cd01850 CDC_Septin CDC/Septin

Probab=99.16  E-value=5.4e-10  Score=105.26  Aligned_cols=64  Identities=20%  Similarity=0.302  Sum_probs=42.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccC---------CCce-eecceeEEEEeCCccccccccccccccccceeEEEEe
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAEN---------YPFC-TIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVD   72 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~---------~p~~-t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvD   72 (363)
                      ++|+++|.+|+|||||+|+|.+.......         ++.+ +.......+..+|..               ..+.+||
T Consensus         5 f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~---------------~~l~iiD   69 (276)
T cd01850           5 FNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVK---------------LKLTVID   69 (276)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEE---------------EEEEEEe
Confidence            68999999999999999999987543221         1111 223333334444422               5799999


Q ss_pred             eecccCCCC
Q psy2401          73 IAGLVSGAS   81 (363)
Q Consensus        73 tpGl~~~~~   81 (363)
                      |||+.+...
T Consensus        70 TpGfgd~~~   78 (276)
T cd01850          70 TPGFGDNIN   78 (276)
T ss_pred             cCCcccccc
Confidence            999976543

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.

>KOG0097|consensus

Probab=99.16  E-value=1.7e-10  Score=95.11  Aligned_cols=151  Identities=20%  Similarity=0.235  Sum_probs=102.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCce-eecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFC-TIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~-t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +|..|||.-|+|||.|+..++..++ .++.|.+ ........+++.+..               .++++|||+|..++..
T Consensus        12 fkyiiigdmgvgkscllhqftekkf-madcphtigvefgtriievsgqk---------------iklqiwdtagqerfra   75 (215)
T KOG0097|consen   12 FKYIIIGDMGVGKSCLLHQFTEKKF-MADCPHTIGVEFGTRIIEVSGQK---------------IKLQIWDTAGQERFRA   75 (215)
T ss_pred             EEEEEEccccccHHHHHHHHHHHHH-hhcCCcccceecceeEEEecCcE---------------EEEEEeecccHHHHHH
Confidence            5788999999999999999997543 3344432 233444557777754               7899999999765432


Q ss_pred             cccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHH
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIEL  161 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~  161 (363)
                             ...++.|.+-..++|.|...                                                     
T Consensus        76 -------vtrsyyrgaagalmvyditr-----------------------------------------------------   95 (215)
T KOG0097|consen   76 -------VTRSYYRGAAGALMVYDITR-----------------------------------------------------   95 (215)
T ss_pred             -------HHHHHhccccceeEEEEehh-----------------------------------------------------
Confidence                   45567799999999999831                                                     


Q ss_pred             HHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHH
Q psy2401         162 LKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLE  241 (363)
Q Consensus       162 ~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e  241 (363)
                      .++.+.+..||...+.+.               +  ..-.+++++||+|+....+...++.+++.+++|..++..||++.
T Consensus        96 rstynhlsswl~dar~lt---------------n--pnt~i~lignkadle~qrdv~yeeak~faeengl~fle~saktg  158 (215)
T KOG0097|consen   96 RSTYNHLSSWLTDARNLT---------------N--PNTVIFLIGNKADLESQRDVTYEEAKEFAEENGLMFLEASAKTG  158 (215)
T ss_pred             hhhhhhHHHHHhhhhccC---------------C--CceEEEEecchhhhhhcccCcHHHHHHHHhhcCeEEEEeccccc
Confidence            133444445554321110               0  22234556899997544445667888889999999999999987


Q ss_pred             HHHhc
Q psy2401         242 EEISD  246 (363)
Q Consensus       242 ~~i~e  246 (363)
                      +++.+
T Consensus       159 ~nved  163 (215)
T KOG0097|consen  159 QNVED  163 (215)
T ss_pred             CcHHH
Confidence            76544

>PLN03126 Elongation factor Tu; Provisional

Probab=99.16  E-value=1.5e-10  Score=116.71  Aligned_cols=82  Identities=24%  Similarity=0.170  Sum_probs=57.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc----------------ccCCCceeecceeEEEEeCCccccccccccccccccce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS----------------AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA   66 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~----------------~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~   66 (363)
                      ++++++|++++|||||+++|++....                .....+.|++.....+..++                 .
T Consensus        82 ~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~-----------------~  144 (478)
T PLN03126         82 VNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETEN-----------------R  144 (478)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecCC-----------------c
Confidence            57999999999999999999853111                11123555544433444433                 5


Q ss_pred             eEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          67 IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        67 ~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ++.++|+||+.++       .......+..+|++++|||+.+
T Consensus       145 ~i~liDtPGh~~f-------~~~~~~g~~~aD~ailVVda~~  179 (478)
T PLN03126        145 HYAHVDCPGHADY-------VKNMITGAAQMDGAILVVSGAD  179 (478)
T ss_pred             EEEEEECCCHHHH-------HHHHHHHHhhCCEEEEEEECCC
Confidence            7899999997543       3366677788999999999954

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.15  E-value=4.1e-10  Score=116.28  Aligned_cols=98  Identities=14%  Similarity=0.076  Sum_probs=53.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccc-cccc--cccccceeEEEEeeecccC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLN-NIVK--TKKIFPAIIKLVDIAGLVS   78 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~-~~~~--~~~~~~~~i~lvDtpGl~~   78 (363)
                      +..|+++|++|+|||||+++|++.........+.|.+.....++.+..  .... ....  +.+.....+.+|||||...
T Consensus         6 ~p~V~i~Gh~~~GKTSLl~~l~~~~v~~~~~g~itq~ig~~~~~~~~~--~~~~~~~~~~~~~~~~~~~i~~iDTPG~e~   83 (586)
T PRK04004          6 QPIVVVLGHVDHGKTTLLDKIRGTAVAAKEAGGITQHIGATEVPIDVI--EKIAGPLKKPLPIKLKIPGLLFIDTPGHEA   83 (586)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCcccccCCCCceEEeeceeecccccc--ccccceeccccccccccCCEEEEECCChHH
Confidence            357999999999999999999986332222222332221111111100  0000 0000  0000001378999999865


Q ss_pred             CCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          79 GASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        79 ~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      +..       .....++.+|++++|+|+.+
T Consensus        84 f~~-------~~~~~~~~aD~~IlVvDa~~  106 (586)
T PRK04004         84 FTN-------LRKRGGALADIAILVVDINE  106 (586)
T ss_pred             HHH-------HHHHhHhhCCEEEEEEECCC
Confidence            432       22245578999999999954

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.15  E-value=1.4e-10  Score=116.33  Aligned_cols=82  Identities=16%  Similarity=0.107  Sum_probs=55.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccc-------------------------cC------CCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISA-------------------------EN------YPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~-------------------------~~------~p~~t~~~~~g~v~~~~~~~   51 (363)
                      ++++++|+.++|||||..+|+.....+                         .+      ..+.|++.....+.+++   
T Consensus         8 ~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~~~~~~~---   84 (447)
T PLN00043          8 INIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWKFETTK---   84 (447)
T ss_pred             EEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEEEecCCC---
Confidence            579999999999999999886321000                         00      12344444333333333   


Q ss_pred             cccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          52 KHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        52 ~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                                    ..++++|+||..++.       +.....++.+|++++|||+..
T Consensus        85 --------------~~i~liDtPGh~df~-------~~~~~g~~~aD~aIlVVda~~  120 (447)
T PLN00043         85 --------------YYCTVIDAPGHRDFI-------KNMITGTSQADCAVLIIDSTT  120 (447)
T ss_pred             --------------EEEEEEECCCHHHHH-------HHHHhhhhhccEEEEEEEccc
Confidence                          679999999975443       366677899999999999954

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.15  E-value=5.9e-10  Score=101.89  Aligned_cols=22  Identities=36%  Similarity=0.558  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ||+++|++++|||||+++++..
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~   22 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQG   22 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhC
Confidence            6899999999999999999954

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

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.14  E-value=1.6e-10  Score=115.90  Aligned_cols=82  Identities=18%  Similarity=0.142  Sum_probs=59.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc-------------------------cc------CCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS-------------------------AE------NYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~-------------------------~~------~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      ++++++|+.++|||||+.+|+.....                         +.      -..+.|++.....+.+++   
T Consensus         8 ~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~~~~---   84 (446)
T PTZ00141          8 INLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK---   84 (446)
T ss_pred             EEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEEccCC---
Confidence            67999999999999999999742100                         00      113556665555555544   


Q ss_pred             cccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          52 KHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        52 ~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                                    ..++++||||..++       .+.....+..+|++++|||+..
T Consensus        85 --------------~~i~lIDtPGh~~f-------~~~~~~g~~~aD~ailVVda~~  120 (446)
T PTZ00141         85 --------------YYFTIIDAPGHRDF-------IKNMITGTSQADVAILVVASTA  120 (446)
T ss_pred             --------------eEEEEEECCChHHH-------HHHHHHhhhhcCEEEEEEEcCC
Confidence                          67999999996543       3466777899999999999964

>cd04167 Snu114p Snu114p subfamily

Probab=99.14  E-value=3.9e-10  Score=102.13  Aligned_cols=87  Identities=20%  Similarity=0.264  Sum_probs=54.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccC----------C---------CceeecceeEEEEeCCccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAEN----------Y---------PFCTIEPNIGIIEVPDKRLKHLNNIVKTKKI   63 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~----------~---------p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~   63 (363)
                      ++|+++|++|+|||||+++|+........          +         .+.|+......+.+.+.            ..
T Consensus         1 rnv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~------------~~   68 (213)
T cd04167           1 RNVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDS------------KG   68 (213)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcC------------CC
Confidence            47999999999999999999864322110          0         11222222222222110            01


Q ss_pred             cceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          64 FPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        64 ~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ....+++|||||..++.       ......++.+|++++|+|+.+
T Consensus        69 ~~~~i~iiDtpG~~~f~-------~~~~~~~~~aD~~llVvD~~~  106 (213)
T cd04167          69 KSYLFNIIDTPGHVNFM-------DEVAAALRLSDGVVLVVDVVE  106 (213)
T ss_pred             CEEEEEEEECCCCcchH-------HHHHHHHHhCCEEEEEEECCC
Confidence            12679999999986543       255667789999999999853

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.

>KOG0088|consensus

Probab=99.09  E-value=2.1e-10  Score=96.38  Aligned_cols=162  Identities=19%  Similarity=0.164  Sum_probs=105.2

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeec--ceeEEEEeCCccccccccccccccccceeEEEEeeecccCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIE--PNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~--~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      .+|++++|..-+|||||.-.....++....  -+|+.  .....+.+.|.|               +.+.+|||+|..++
T Consensus        13 ~FK~VLLGEGCVGKtSLVLRy~EnkFn~kH--lsTlQASF~~kk~n~ed~r---------------a~L~IWDTAGQErf   75 (218)
T KOG0088|consen   13 KFKIVLLGEGCVGKTSLVLRYVENKFNCKH--LSTLQASFQNKKVNVEDCR---------------ADLHIWDTAGQERF   75 (218)
T ss_pred             eeEEEEEcCCccchhHHHHHHHHhhcchhh--HHHHHHHHhhcccccccce---------------eeeeeeeccchHhh
Confidence            379999999999999999888765433221  12222  234456666765               78999999998776


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhH
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSI  159 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~  159 (363)
                      ...+.       -+.|.++.+++|.|..+.                                                  
T Consensus        76 HALGP-------IYYRgSnGalLVyDITDr--------------------------------------------------   98 (218)
T KOG0088|consen   76 HALGP-------IYYRGSNGALLVYDITDR--------------------------------------------------   98 (218)
T ss_pred             hccCc-------eEEeCCCceEEEEeccch--------------------------------------------------
Confidence            55433       345899999999998531                                                  


Q ss_pred             HHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHH
Q psy2401         160 ELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAK  239 (363)
Q Consensus       160 ~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~  239 (363)
                         +.+++++.|..+                ++.. +=+....++|+||.|+.....--.++.+.+++.-|..++.+||+
T Consensus        99 ---dSFqKVKnWV~E----------------lr~m-lGnei~l~IVGNKiDLEeeR~Vt~qeAe~YAesvGA~y~eTSAk  158 (218)
T KOG0088|consen   99 ---DSFQKVKNWVLE----------------LRTM-LGNEIELLIVGNKIDLEEERQVTRQEAEAYAESVGALYMETSAK  158 (218)
T ss_pred             ---HHHHHHHHHHHH----------------HHHH-hCCeeEEEEecCcccHHHhhhhhHHHHHHHHHhhchhheecccc
Confidence               223334443321                1111 11455678899999974322234556667777778889999999


Q ss_pred             HHHHHhcCCHHHHHHHHh
Q psy2401         240 LEEEISDLNNIDKKFFLD  257 (363)
Q Consensus       240 ~e~~i~el~~~~~~~~l~  257 (363)
                      -...|+++.+.+-...+|
T Consensus       159 ~N~Gi~elFe~Lt~~MiE  176 (218)
T KOG0088|consen  159 DNVGISELFESLTAKMIE  176 (218)
T ss_pred             cccCHHHHHHHHHHHHHH
Confidence            877777776555444443

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.08  E-value=8.3e-10  Score=110.66  Aligned_cols=98  Identities=20%  Similarity=0.165  Sum_probs=58.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc---cccCCCceeecceeEEEEe---------------CCccc-cccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI---SAENYPFCTIEPNIGIIEV---------------PDKRL-KHLNNIVKTKKI   63 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~---~~~~~p~~t~~~~~g~v~~---------------~~~~~-~~l~~~~~~~~~   63 (363)
                      ++||++|+-..|||||+.+||+...   ..+-..+.|++.......+               +.... ...++.+.....
T Consensus        35 ~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  114 (460)
T PTZ00327         35 INIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGCGHKMT  114 (460)
T ss_pred             EEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCccccccccccccccc
Confidence            6899999999999999999998522   2222335555533322211               00000 000000000111


Q ss_pred             cceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecc
Q psy2401          64 FPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        64 ~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ....+.++|+||..       .+.+.+++.+..+|++++|||+.
T Consensus       115 ~~~~i~~IDtPGH~-------~fi~~m~~g~~~~D~alLVVda~  151 (460)
T PTZ00327        115 LKRHVSFVDCPGHD-------ILMATMLNGAAVMDAALLLIAAN  151 (460)
T ss_pred             ccceEeeeeCCCHH-------HHHHHHHHHHhhCCEEEEEEECC
Confidence            12478999999964       34456677788999999999995

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.08  E-value=7.3e-10  Score=119.19  Aligned_cols=143  Identities=20%  Similarity=0.115  Sum_probs=84.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcccc----------CC------CceeecceeEEEEeCCccccccccccccccccce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAE----------NY------PFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA   66 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~----------~~------p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~   66 (363)
                      ++||++|+.++|||||.++|+.....+.          ++      .+.|+......+.+.... ..+.......+....
T Consensus        20 rni~iiGhvd~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~-~~~~~~~~~~~~~~~   98 (843)
T PLN00116         20 RNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERGITIKSTGISLYYEMTD-ESLKDFKGERDGNEY   98 (843)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCcccccCCceeeccCcHHHHHhCCceecceeEEEeeccc-ccccccccccCCCce
Confidence            5899999999999999999975421110          10      133444333344442100 000000000011136


Q ss_pred             eEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-hhh
Q psy2401          67 IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-YID  145 (363)
Q Consensus        67 ~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~~~  145 (363)
                      .++++||||+.++..       .....++.+|++++|||+.++..                ..++..|..+..... ++.
T Consensus        99 ~inliDtPGh~dF~~-------e~~~al~~~D~ailVvda~~Gv~----------------~~t~~~~~~~~~~~~p~i~  155 (843)
T PLN00116         99 LINLIDSPGHVDFSS-------EVTAALRITDGALVVVDCIEGVC----------------VQTETVLRQALGERIRPVL  155 (843)
T ss_pred             EEEEECCCCHHHHHH-------HHHHHHhhcCEEEEEEECCCCCc----------------ccHHHHHHHHHHCCCCEEE
Confidence            789999999876544       66788899999999999965432                223555655544444 478


Q ss_pred             hhhccccc-------CCchhHHHHHHHHHHH
Q psy2401         146 KENKKFFL-------KNEHSIELLKLLKRII  169 (363)
Q Consensus       146 ~i~k~~~~-------g~~~~~~~~~~l~~i~  169 (363)
                      .+||+++.       +.....++..+++++.
T Consensus       156 ~iNK~D~~~~~~~~~~~~~~~~~~~vi~~in  186 (843)
T PLN00116        156 TVNKMDRCFLELQVDGEEAYQTFSRVIENAN  186 (843)
T ss_pred             EEECCcccchhhcCCHHHHHHHHHHHHHHHH
Confidence            89999664       1111245566777776

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

Probab=99.07  E-value=8.9e-09  Score=93.30  Aligned_cols=88  Identities=20%  Similarity=0.152  Sum_probs=58.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc-cc-CCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS-AE-NYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~-~~-~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      ++|.|+|.+||||||+.|.|+|.... .+ ....+|..+......+.+                 ..+.++||||+.+..
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g-----------------~~v~VIDTPGl~d~~   63 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDG-----------------RQVTVIDTPGLFDSD   63 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETT-----------------EEEEEEE--SSEETT
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeeeecc-----------------eEEEEEeCCCCCCCc
Confidence            48999999999999999999998543 32 234567778778788888                 679999999997655


Q ss_pred             CcccchhhHHHh----hccccCEEEEEEecc
Q psy2401          81 SKGEGLGNKFLA----HIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~~~~l~~~~l~----~~~~aD~il~Vvda~  107 (363)
                      ...+...+.+..    .....+++|+|++..
T Consensus        64 ~~~~~~~~~i~~~l~~~~~g~ha~llVi~~~   94 (212)
T PF04548_consen   64 GSDEEIIREIKRCLSLCSPGPHAFLLVIPLG   94 (212)
T ss_dssp             EEHHHHHHHHHHHHHHTTT-ESEEEEEEETT
T ss_pred             ccHHHHHHHHHHHHHhccCCCeEEEEEEecC
Confidence            443333333322    234589999999873

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

>PTZ00416 elongation factor 2; Provisional

Probab=99.07  E-value=1.8e-09  Score=116.04  Aligned_cols=141  Identities=20%  Similarity=0.104  Sum_probs=85.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcccc-CC---------------CceeecceeEEEEeCCccccccccccccccccce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAE-NY---------------PFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA   66 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~-~~---------------p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~   66 (363)
                      .+|+++|+.++|||||.++|+.....++ ..               .++|++.....+.+....       .+..+....
T Consensus        20 rni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~-------~~~~~~~~~   92 (836)
T PTZ00416         20 RNMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDTRADEQERGITIKSTGISLYYEHDL-------EDGDDKQPF   92 (836)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcCCcccccCCceeecccchhhHhhcceeeccceEEEeeccc-------ccccCCCce
Confidence            5899999999999999999986421111 11               123333322233332100       000011125


Q ss_pred             eEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-hhh
Q psy2401          67 IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-YID  145 (363)
Q Consensus        67 ~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~~~  145 (363)
                      .++++||||+.++.       ......++.+|++++|||+.++..                .+++.+|..+..... ++.
T Consensus        93 ~i~liDtPG~~~f~-------~~~~~al~~~D~ailVvda~~g~~----------------~~t~~~~~~~~~~~~p~iv  149 (836)
T PTZ00416         93 LINLIDSPGHVDFS-------SEVTAALRVTDGALVVVDCVEGVC----------------VQTETVLRQALQERIRPVL  149 (836)
T ss_pred             EEEEEcCCCHHhHH-------HHHHHHHhcCCeEEEEEECCCCcC----------------ccHHHHHHHHHHcCCCEEE
Confidence            79999999987643       366788899999999999965421                123555655544444 468


Q ss_pred             hhhcccccCC-------chhHHHHHHHHHHHhhhc
Q psy2401         146 KENKKFFLKN-------EHSIELLKLLKRIIFNLN  173 (363)
Q Consensus       146 ~i~k~~~~g~-------~~~~~~~~~l~~i~~~L~  173 (363)
                      .+||+++...       ....++..+++++.+.|.
T Consensus       150 ~iNK~D~~~~~~~~~~~~~~~~~~~ii~~in~~l~  184 (836)
T PTZ00416        150 FINKVDRAILELQLDPEEIYQNFVKTIENVNVIIA  184 (836)
T ss_pred             EEEChhhhhhhcCCCHHHHHHHHHHHHHHHHHHHH
Confidence            8999965411       112456677888887765

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=99.05  E-value=1.3e-09  Score=95.82  Aligned_cols=80  Identities=26%  Similarity=0.346  Sum_probs=49.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ..|.|+|++|||||+||..|+..... .  ..|++.++.+ ..+.+.              ....+.++|+||..+-.  
T Consensus         4 ~~vlL~Gps~SGKTaLf~~L~~~~~~-~--T~tS~e~n~~-~~~~~~--------------~~~~~~lvD~PGH~rlr--   63 (181)
T PF09439_consen    4 PTVLLVGPSGSGKTALFSQLVNGKTV-P--TVTSMENNIA-YNVNNS--------------KGKKLRLVDIPGHPRLR--   63 (181)
T ss_dssp             -EEEEE-STTSSHHHHHHHHHHSS------B---SSEEEE-CCGSST--------------CGTCECEEEETT-HCCC--
T ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCcC-C--eeccccCCce-EEeecC--------------CCCEEEEEECCCcHHHH--
Confidence            35889999999999999999975211 1  1223333332 222111              01568999999986533  


Q ss_pred             ccchhhHHHhh---ccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAH---IRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~---~~~aD~il~Vvda~  107 (363)
                           .+++..   +..+.+|++|||++
T Consensus        64 -----~~~~~~~~~~~~~k~IIfvvDSs   86 (181)
T PF09439_consen   64 -----SKLLDELKYLSNAKGIIFVVDSS   86 (181)
T ss_dssp             -----HHHHHHHHHHGGEEEEEEEEETT
T ss_pred             -----HHHHHhhhchhhCCEEEEEEeCc
Confidence                 355544   78899999999985

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.

>KOG0070|consensus

Probab=99.02  E-value=2e-09  Score=93.20  Aligned_cols=79  Identities=22%  Similarity=0.294  Sum_probs=61.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|.++|.-||||||++..|-...... ..|  |+..+.-.+.+.+                 .++++||+-|..+... 
T Consensus        18 ~~IlmlGLD~AGKTTILykLk~~E~vt-tvP--TiGfnVE~v~ykn-----------------~~f~vWDvGGq~k~R~-   76 (181)
T KOG0070|consen   18 MRILMVGLDAAGKTTILYKLKLGEIVT-TVP--TIGFNVETVEYKN-----------------ISFTVWDVGGQEKLRP-   76 (181)
T ss_pred             EEEEEEeccCCCceeeeEeeccCCccc-CCC--ccccceeEEEEcc-----------------eEEEEEecCCCccccc-
Confidence            789999999999999999886543221 134  6677777888887                 7899999999855444 


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                            -...+.++.+++|+|||.++
T Consensus        77 ------lW~~Y~~~t~~lIfVvDS~D   96 (181)
T KOG0070|consen   77 ------LWKHYFQNTQGLIFVVDSSD   96 (181)
T ss_pred             ------chhhhccCCcEEEEEEeCCc
Confidence                  33466799999999999853

>KOG0462|consensus

Probab=99.01  E-value=2.1e-09  Score=106.38  Aligned_cols=148  Identities=18%  Similarity=0.128  Sum_probs=100.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc---------------ccCCCceeecceeEEEEeCCcccccccccccccccccee
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS---------------AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAI   67 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~---------------~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~   67 (363)
                      .+++||-+---|||||..+|......               +.-..|.|+..+...+.|.+...              ..
T Consensus        61 RNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasify~~~~~--------------yl  126 (650)
T KOG0462|consen   61 RNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIFYKDGQS--------------YL  126 (650)
T ss_pred             cceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEEEEcCCc--------------eE
Confidence            57899999999999999999643111               22235888888888777765221              67


Q ss_pred             EEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhh
Q psy2401          68 IKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKE  147 (363)
Q Consensus        68 i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i  147 (363)
                      +++|||||..++..+       .-..+..||.+|+||||+++....+                                 
T Consensus       127 LNLIDTPGHvDFs~E-------VsRslaac~G~lLvVDA~qGvqAQT---------------------------------  166 (650)
T KOG0462|consen  127 LNLIDTPGHVDFSGE-------VSRSLAACDGALLVVDASQGVQAQT---------------------------------  166 (650)
T ss_pred             EEeecCCCcccccce-------ehehhhhcCceEEEEEcCcCchHHH---------------------------------
Confidence            999999999998763       3355677999999999987542111                                 


Q ss_pred             hcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCC-CchHHHHHHHHHH
Q psy2401         148 NKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGF-KNNLLLDQLKIYA  226 (363)
Q Consensus       148 ~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~-~~~~~~~~i~~~~  226 (363)
                                       +....-                        .+-..-.+|.|+||.|.+. .++.-...+++.+
T Consensus       167 -----------------~anf~l------------------------Afe~~L~iIpVlNKIDlp~adpe~V~~q~~~lF  205 (650)
T KOG0462|consen  167 -----------------VANFYL------------------------AFEAGLAIIPVLNKIDLPSADPERVENQLFELF  205 (650)
T ss_pred             -----------------HHHHHH------------------------HHHcCCeEEEeeeccCCCCCCHHHHHHHHHHHh
Confidence                             000000                        1113345667899999864 3444556677777


Q ss_pred             hcCCCcEEEeeHHHHHHHh
Q psy2401         227 HNQNIPIIIICAKLEEEIS  245 (363)
Q Consensus       227 ~~~~~~~i~~sa~~e~~i~  245 (363)
                      ...+.+++.+||+...++.
T Consensus       206 ~~~~~~~i~vSAK~G~~v~  224 (650)
T KOG0462|consen  206 DIPPAEVIYVSAKTGLNVE  224 (650)
T ss_pred             cCCccceEEEEeccCccHH
Confidence            7677789999999655443

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=98.99  E-value=4.1e-09  Score=91.27  Aligned_cols=100  Identities=26%  Similarity=0.295  Sum_probs=57.9

Q ss_pred             EEEEeCCCCcHHHHHHHHHcCCcc-ccCCCceeecceeEEEEeCCc---------------c---cccccc---------
Q psy2401           5 CGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDK---------------R---LKHLNN---------   56 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt~~~~~-~~~~p~~t~~~~~g~v~~~~~---------------~---~~~l~~---------   56 (363)
                      |+++|..++|||||+|+|+|.... .+.-| +|..|..-...-...               .   +..+..         
T Consensus         1 V~v~G~~ssGKSTliNaLlG~~ilp~~~~~-~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (168)
T PF00350_consen    1 VAVVGQFSSGKSTLINALLGRPILPSGVGP-CTAVPTEISYGDEPEIEHEEAIIEFKDGSEEFEELNELREQIDEEFDSI   79 (168)
T ss_dssp             EEEEEBTTSSHHHHHHHHHTSS-SSSSSSS-TTSSEEEEEEEESSSCCTSEEEECEEEETEEBCCHHHHHHHHHHHHHHH
T ss_pred             CEEEcCCCCCHHHHHHHHHhcccCcccccc-cccceeEEEecccCccccccccccccccccchhhHHHHHHhhhcccccc
Confidence            789999999999999999998633 33333 333333211110000               0   000000         


Q ss_pred             ------------ccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          57 ------------IVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        57 ------------~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                                  .+.+.......+.|+||||+.........   .....+..+|++++|+++..
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~lvDtPG~~~~~~~~~~---~~~~~~~~~d~vi~V~~~~~  140 (168)
T PF00350_consen   80 EGKLEQISSKVIVISISSPLLRNLTLVDTPGLNSTNSEHTE---ITEEYLPKADVVIFVVDANQ  140 (168)
T ss_dssp             HTSSS-S-SSEEEEEEEETTSCSEEEEEEEEBHSSHTTTSH---HHHHHHSTTEEEEEEEETTS
T ss_pred             cccccccccceeEEeeccccccceEEEeCCccccchhhhHH---HHHHhhccCCEEEEEeccCc
Confidence                        00001123356899999999764443332   34455589999999999853

Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....

>KOG1145|consensus

Probab=98.98  E-value=3.3e-09  Score=104.98  Aligned_cols=83  Identities=22%  Similarity=0.210  Sum_probs=63.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .-|-|+|+---|||||+.+|-++.+.....-|.|.+.....+.+++.                ..++|.||||...+...
T Consensus       154 PVVTiMGHVDHGKTTLLD~lRks~VAA~E~GGITQhIGAF~V~~p~G----------------~~iTFLDTPGHaAF~aM  217 (683)
T KOG1145|consen  154 PVVTIMGHVDHGKTTLLDALRKSSVAAGEAGGITQHIGAFTVTLPSG----------------KSITFLDTPGHAAFSAM  217 (683)
T ss_pred             CeEEEeecccCChhhHHHHHhhCceehhhcCCccceeceEEEecCCC----------------CEEEEecCCcHHHHHHH
Confidence            45789999999999999999998777777788888877667777654                57999999997533221


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                             --+..+.+|.+++||-+.+
T Consensus       218 -------RaRGA~vtDIvVLVVAadD  236 (683)
T KOG1145|consen  218 -------RARGANVTDIVVLVVAADD  236 (683)
T ss_pred             -------HhccCccccEEEEEEEccC
Confidence                   0123355899999999854

>KOG0395|consensus

Probab=98.97  E-value=2.9e-09  Score=95.24  Aligned_cols=82  Identities=20%  Similarity=0.194  Sum_probs=59.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .|++++|.+|+|||+|...+...... ..|..|.-+.....+.+++..               ..+.++||+|..++.. 
T Consensus         4 ~kvvvlG~~gVGKSal~~qf~~~~f~-~~y~ptied~y~k~~~v~~~~---------------~~l~ilDt~g~~~~~~-   66 (196)
T KOG0395|consen    4 YKVVVLGAGGVGKSALTIQFLTGRFV-EDYDPTIEDSYRKELTVDGEV---------------CMLEILDTAGQEEFSA-   66 (196)
T ss_pred             eEEEEECCCCCCcchheeeecccccc-cccCCCccccceEEEEECCEE---------------EEEEEEcCCCcccChH-
Confidence            68999999999999999888875433 335444445556667777654               7889999999443332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                         +.   -..++.+|+.++|.++.
T Consensus        67 ---~~---~~~~~~~~gF~lVysit   85 (196)
T KOG0395|consen   67 ---MR---DLYIRNGDGFLLVYSIT   85 (196)
T ss_pred             ---HH---HHhhccCcEEEEEEECC
Confidence               21   24568899999999984

>cd01882 BMS1 Bms1

Probab=98.97  E-value=7.6e-09  Score=94.62  Aligned_cols=73  Identities=22%  Similarity=0.314  Sum_probs=50.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEE---EeCCccccccccccccccccceeEEEEeeecccCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGII---EVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v---~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      ..|+++|++|+|||||+|+|.+....      ++.....|.+   ...+                 .++.++||||..  
T Consensus        40 ~~i~ivG~~~~GKstl~~~l~~~~~~------~~~~~~~g~i~i~~~~~-----------------~~i~~vDtPg~~--   94 (225)
T cd01882          40 LVVAVVGPPGVGKTTLIKSLVKNYTK------QNISDIKGPITVVTGKK-----------------RRLTFIECPNDI--   94 (225)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhccc------CccccccccEEEEecCC-----------------ceEEEEeCCchH--
Confidence            56999999999999999999874111      1111222221   1122                 678999999843  


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                              ...+..++.+|++++|+|++.
T Consensus        95 --------~~~l~~ak~aDvVllviDa~~  115 (225)
T cd01882          95 --------NAMIDIAKVADLVLLLIDASF  115 (225)
T ss_pred             --------HHHHHHHHhcCEEEEEEecCc
Confidence                    255667789999999999853

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.

>KOG0091|consensus

Probab=98.95  E-value=1.4e-09  Score=91.94  Aligned_cols=154  Identities=17%  Similarity=0.158  Sum_probs=98.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeC-CccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVP-DKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~-~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      ++..+||.+-+|||+|+.-.|..+...-.-|....+.-...+++. |.|               .++++|||+|..++.+
T Consensus         9 frlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~r---------------iklqlwdtagqerfrs   73 (213)
T KOG0091|consen    9 FRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYR---------------IKLQLWDTAGQERFRS   73 (213)
T ss_pred             EEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcE---------------EEEEEeeccchHHHHH
Confidence            578899999999999999999754332112222222211223332 222               7899999999876654


Q ss_pred             cccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHH
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIEL  161 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~  161 (363)
                             -..++.|++=.+++|.|.+..                                                    
T Consensus        74 -------itksyyrnsvgvllvyditnr----------------------------------------------------   94 (213)
T KOG0091|consen   74 -------ITKSYYRNSVGVLLVYDITNR----------------------------------------------------   94 (213)
T ss_pred             -------HHHHHhhcccceEEEEeccch----------------------------------------------------
Confidence                   445677999999999998531                                                    


Q ss_pred             HHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccE-EEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHH
Q psy2401         162 LKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPI-IFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL  240 (363)
Q Consensus       162 ~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~-i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~  240 (363)
                       +.++.+..|+++.              .+. ... ..|++ ++|+.|.|+.....-..++.++++..+|..+|.+||+.
T Consensus        95 -~sfehv~~w~~ea--------------~m~-~q~-P~k~VFlLVGhKsDL~SqRqVt~EEaEklAa~hgM~FVETSak~  157 (213)
T KOG0091|consen   95 -ESFEHVENWVKEA--------------AMA-TQG-PDKVVFLLVGHKSDLQSQRQVTAEEAEKLAASHGMAFVETSAKN  157 (213)
T ss_pred             -hhHHHHHHHHHHH--------------HHh-cCC-CCeeEEEEeccccchhhhccccHHHHHHHHHhcCceEEEecccC
Confidence             3344555555421              111 111 23333 34689999753334456777888888999999999998


Q ss_pred             HHHHhcC
Q psy2401         241 EEEISDL  247 (363)
Q Consensus       241 e~~i~el  247 (363)
                      ..++.+.
T Consensus       158 g~NVeEA  164 (213)
T KOG0091|consen  158 GCNVEEA  164 (213)
T ss_pred             CCcHHHH
Confidence            7766543

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

Probab=98.94  E-value=6.8e-09  Score=93.74  Aligned_cols=83  Identities=24%  Similarity=0.162  Sum_probs=55.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|++|||||||++++.+........|. ......+.......+              ...+.+|||+|..+... 
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t-~~~~~~~~~~~~~~~--------------~~~~~~~Dt~gq~~~~~-   69 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPT-IGNLDPAKTIEPYRR--------------NIKLQLWDTAGQEEYRS-   69 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCcCcccCCCc-eeeeeEEEEEEeCCC--------------EEEEEeecCCCHHHHHH-
Confidence            69999999999999999999986444332222 122222222222210              16789999999865432 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            ..-.+.+.++++++|+|..
T Consensus        70 ------~~~~y~~~~~~~l~~~d~~   88 (219)
T COG1100          70 ------LRPEYYRGANGILIVYDST   88 (219)
T ss_pred             ------HHHHHhcCCCEEEEEEecc
Confidence                  2335558999999999984

>smart00053 DYNc Dynamin, GTPase

Probab=98.94  E-value=2e-08  Score=92.48  Aligned_cols=105  Identities=17%  Similarity=0.244  Sum_probs=58.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeE-----------EEEeCCccccc---cccc--------ccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIG-----------IIEVPDKRLKH---LNNI--------VKT   60 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g-----------~v~~~~~~~~~---l~~~--------~~~   60 (363)
                      .+++++|++|+||||++++|+|.......--.+|..|..-           .+...+..+..   +...        ...
T Consensus        27 p~i~vvG~~~~GKSt~l~~i~g~~~~~~~~g~~t~~p~~i~l~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~~~~~~~~~  106 (240)
T smart00053       27 PQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLILQLINSSTEYAEFLHCKGKKFTDFDEVRNEIEAETDRVTGT  106 (240)
T ss_pred             CeEEEEcCCCccHHHHHHHHhCCCccccCCCcccccceEEEccCCCCcceEEEecCCcccCCHHHHHHHHHHHHHHhcCC
Confidence            4799999999999999999998642221122233333322           22222221111   1110        000


Q ss_pred             cc-------------ccceeEEEEeeecccCCCCcc------cchhhHHHhhccc-cCEEEEEEecc
Q psy2401          61 KK-------------IFPAIIKLVDIAGLVSGASKG------EGLGNKFLAHIRE-TNIVIHVIRCF  107 (363)
Q Consensus        61 ~~-------------~~~~~i~lvDtpGl~~~~~~~------~~l~~~~l~~~~~-aD~il~Vvda~  107 (363)
                      .+             ..-..+.++||||+......+      ..+.+....++++ .+.+++|+|+.
T Consensus       107 ~~~~s~~~i~l~i~~p~~~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~  173 (240)
T smart00053      107 NKGISPVPINLRVYSPHVLNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPAN  173 (240)
T ss_pred             CCcccCcceEEEEeCCCCCceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECC
Confidence            00             011478999999997542222      1233455667774 56999999984

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

>KOG0083|consensus

Probab=98.94  E-value=2.3e-10  Score=93.50  Aligned_cols=147  Identities=17%  Similarity=0.152  Sum_probs=90.6

Q ss_pred             EEeCCCCcHHHHHHHHHcCCccccCCC-ceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcccc
Q psy2401           7 LIGLPNVGKSTLFNALTKLKISAENYP-FCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEG   85 (363)
Q Consensus         7 lvG~~g~GKSTL~n~Lt~~~~~~~~~p-~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~   85 (363)
                      ++|.+++|||.|+-..-....-..++- ...++.....+.++|..               .++++|||+|..++.+    
T Consensus         2 llgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~k---------------vklqiwdtagqerfrs----   62 (192)
T KOG0083|consen    2 LLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKK---------------VKLQIWDTAGQERFRS----   62 (192)
T ss_pred             ccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCCcE---------------EEEEEeeccchHHHhh----
Confidence            689999999998755443222223321 12334444456666644               7899999999877665    


Q ss_pred             hhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHHHHH
Q psy2401          86 LGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLL  165 (363)
Q Consensus        86 l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~~~l  165 (363)
                         ...++.|.||+++++.|...                                                     .+.+
T Consensus        63 ---vt~ayyrda~allllydian-----------------------------------------------------kasf   86 (192)
T KOG0083|consen   63 ---VTHAYYRDADALLLLYDIAN-----------------------------------------------------KASF   86 (192)
T ss_pred             ---hhHhhhcccceeeeeeeccc-----------------------------------------------------chhH
Confidence               55577799999999999731                                                     2345


Q ss_pred             HHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHHHHh
Q psy2401         166 KRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEEEIS  245 (363)
Q Consensus       166 ~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~~i~  245 (363)
                      +.|+.||.+-                ..|.. ......+++||.|..-......+.-+++.+.+++|++.+||++..++.
T Consensus        87 dn~~~wlsei----------------~ey~k-~~v~l~llgnk~d~a~er~v~~ddg~kla~~y~ipfmetsaktg~nvd  149 (192)
T KOG0083|consen   87 DNCQAWLSEI----------------HEYAK-EAVALMLLGNKCDLAHERAVKRDDGEKLAEAYGIPFMETSAKTGFNVD  149 (192)
T ss_pred             HHHHHHHHHH----------------HHHHH-hhHhHhhhccccccchhhccccchHHHHHHHHCCCceeccccccccHh
Confidence            5666666531                11100 222344589999962111111233345556689999999999776643

>cd01858 NGP_1 NGP-1

Probab=98.94  E-value=1.2e-09  Score=94.18  Aligned_cols=54  Identities=33%  Similarity=0.439  Sum_probs=43.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGL   76 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl   76 (363)
                      .+++++|.||+|||||+|+|.+. .+.++++|++|...+  .+..+                  ..+.++||||+
T Consensus       103 ~~v~~~G~~nvGKStliN~l~~~~~~~~~~~~g~T~~~~--~~~~~------------------~~~~liDtPGi  157 (157)
T cd01858         103 ISVGFIGYPNVGKSSIINTLRSKKVCKVAPIPGETKVWQ--YITLM------------------KRIYLIDCPGV  157 (157)
T ss_pred             eEEEEEeCCCCChHHHHHHHhcCCceeeCCCCCeeEeEE--EEEcC------------------CCEEEEECcCC
Confidence            46899999999999999999997 567999999987644  22322                  34789999995

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.

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.86  E-value=9.6e-09  Score=99.16  Aligned_cols=83  Identities=19%  Similarity=0.175  Sum_probs=55.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccc-------------------------------cCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISA-------------------------------ENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~-------------------------------~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      ++++++|+..+|||||+-.|.-....+                               .-..|.|++.....++-+-   
T Consensus         8 ~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fet~k---   84 (428)
T COG5256           8 LNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFETDK---   84 (428)
T ss_pred             eEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEeecCC---
Confidence            689999999999999999996211000                               0112444443333333222   


Q ss_pred             cccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccC
Q psy2401          52 KHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKD  109 (363)
Q Consensus        52 ~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~  109 (363)
                                    ..++++|+||.-++-       ..+...+.+||+.++||||..+
T Consensus        85 --------------~~~tIiDaPGHrdFv-------knmItGasqAD~aVLVV~a~~~  121 (428)
T COG5256          85 --------------YNFTIIDAPGHRDFV-------KNMITGASQADVAVLVVDARDG  121 (428)
T ss_pred             --------------ceEEEeeCCchHHHH-------HHhhcchhhccEEEEEEECCCC
Confidence                          569999999954332       3566777899999999999654

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.85  E-value=2.1e-08  Score=97.56  Aligned_cols=82  Identities=23%  Similarity=0.292  Sum_probs=65.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC---CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL---KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~---~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      |-|+..|+---|||||+.++++.   ..+.....++|++......+.++                 ..+.|+|+||+.++
T Consensus         1 mii~t~GhidHgkT~L~~altg~~~d~l~EekKRG~TiDlg~~y~~~~d-----------------~~~~fIDvpgh~~~   63 (447)
T COG3276           1 MIIGTAGHIDHGKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYRKLED-----------------GVMGFIDVPGHPDF   63 (447)
T ss_pred             CeEEEeeeeeccchhhhhhhcccccccchhhhhcCceEeeeeEeccCCC-----------------CceEEeeCCCcHHH
Confidence            46889999999999999999987   24455667889888777777766                 57899999998654


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      .+       ..+..+...|.+++||++.+
T Consensus        64 i~-------~miag~~~~d~alLvV~~de   85 (447)
T COG3276          64 IS-------NLLAGLGGIDYALLVVAADE   85 (447)
T ss_pred             HH-------HHHhhhcCCceEEEEEeCcc
Confidence            43       66777788999999999954

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.85  E-value=4.2e-09  Score=90.52  Aligned_cols=54  Identities=37%  Similarity=0.533  Sum_probs=45.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGL   76 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl   76 (363)
                      .+++++|.||+|||||+|+|++.. ..+++.|++|..+.....  +                  ..+.++||||+
T Consensus       101 ~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~t~~~~~~~~--~------------------~~~~liDtPG~  155 (155)
T cd01849         101 ITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTTTSQQEVKL--D------------------NKIKLLDTPGI  155 (155)
T ss_pred             cEEEEEccCCCCHHHHHHHHHccccccccCCCCcccceEEEEe--c------------------CCEEEEECCCC
Confidence            579999999999999999999974 678899999998875433  1                  35899999995

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.

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

Probab=98.83  E-value=2.2e-08  Score=99.63  Aligned_cols=86  Identities=17%  Similarity=0.145  Sum_probs=62.3

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +.-|.++||--.|||||+-.|-+..+....--+.|.+.-...++++....              ..+.|+||||...+..
T Consensus         5 ~PvVtimGHVDHGKTtLLD~IR~t~Va~~EaGGITQhIGA~~v~~~~~~~--------------~~itFiDTPGHeAFt~   70 (509)
T COG0532           5 PPVVTIMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAYQVPLDVIKI--------------PGITFIDTPGHEAFTA   70 (509)
T ss_pred             CCEEEEeCcccCCccchhhhHhcCccccccCCceeeEeeeEEEEeccCCC--------------ceEEEEcCCcHHHHHH
Confidence            34589999999999999999998777766667788887777777651000              4799999999754332


Q ss_pred             cccchhhHHHhhccccCEEEEEEeccc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ..       -.-..-+|.+++||++.+
T Consensus        71 mR-------aRGa~vtDIaILVVa~dD   90 (509)
T COG0532          71 MR-------ARGASVTDIAILVVAADD   90 (509)
T ss_pred             HH-------hcCCccccEEEEEEEccC
Confidence            10       012245899999999954

>PRK13768 GTPase; Provisional

Probab=98.81  E-value=2.9e-08  Score=92.41  Aligned_cols=41  Identities=22%  Similarity=0.297  Sum_probs=29.2

Q ss_pred             eeEEEEeeecccCCCCcccchhhHHHhhccc--cCEEEEEEecc
Q psy2401          66 AIIKLVDIAGLVSGASKGEGLGNKFLAHIRE--TNIVIHVIRCF  107 (363)
Q Consensus        66 ~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~--aD~il~Vvda~  107 (363)
                      ..+.++|+||..+.... ...++.+...+..  ++++++|+|++
T Consensus        97 ~~~~~~d~~g~~~~~~~-~~~~~~~~~~l~~~~~~~ii~liD~~  139 (253)
T PRK13768         97 ADYVLVDTPGQMELFAF-RESGRKLVERLSGSSKSVVVFLIDAV  139 (253)
T ss_pred             CCEEEEeCCcHHHHHhh-hHHHHHHHHHHHhcCCeEEEEEechH
Confidence            36889999998764432 3344556666554  89999999985

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.81  E-value=6.9e-09  Score=99.82  Aligned_cols=59  Identities=34%  Similarity=0.456  Sum_probs=49.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .++++||.||||||||+|+|.+. .+.++++||+|...+  .+...                  ..+.++||||+.....
T Consensus       133 ~~v~vvG~PNVGKSslIN~L~~k~~~~~s~~PG~Tk~~q--~i~~~------------------~~i~LlDtPGii~~~~  192 (322)
T COG1161         133 IRVGVVGYPNVGKSTLINRLLGKKVAKTSNRPGTTKGIQ--WIKLD------------------DGIYLLDTPGIIPPKF  192 (322)
T ss_pred             eEEEEEcCCCCcHHHHHHHHhcccceeeCCCCceecceE--EEEcC------------------CCeEEecCCCcCCCCc
Confidence            67999999999999999999998 578999999997765  34443                  3489999999986544

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.79  E-value=1e-08  Score=97.29  Aligned_cols=59  Identities=34%  Similarity=0.464  Sum_probs=48.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+++++|.||||||||+|+|++.. +.+++.||+|..++  .+.++                  ..+.++||||+.....
T Consensus       122 ~~~~~~G~pnvGKSsliN~l~~~~~~~~~~~~g~T~~~~--~~~~~------------------~~~~l~DtPGi~~~~~  181 (287)
T PRK09563        122 IRAMIIGIPNVGKSTLINRLAGKKIAKTGNRPGVTKAQQ--WIKLG------------------KGLELLDTPGILWPKL  181 (287)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCccccCCCCCeEEEEE--EEEeC------------------CcEEEEECCCcCCCCC
Confidence            579999999999999999999985 58999999998875  34432                  3588999999976543

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

Probab=98.78  E-value=1.9e-08  Score=102.74  Aligned_cols=88  Identities=26%  Similarity=0.248  Sum_probs=59.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+|+++|++|+||||++|+|++.. +.++.++.+|.........+.+                 ..+.+|||||+.+...
T Consensus       119 lrIvLVGKTGVGKSSLINSILGekvf~vss~~~~TTr~~ei~~~idG-----------------~~L~VIDTPGL~dt~~  181 (763)
T TIGR00993       119 LNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTSVQEIEGLVQG-----------------VKIRVIDTPGLKSSAS  181 (763)
T ss_pred             eEEEEECCCCCCHHHHHHHHhccccccccCCCCCceEEEEEEEEECC-----------------ceEEEEECCCCCcccc
Confidence            589999999999999999999984 5566654444444444444555                 6799999999987532


Q ss_pred             cc---cchhhHHHhhcc--ccCEEEEEEecc
Q psy2401          82 KG---EGLGNKFLAHIR--ETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~---~~l~~~~l~~~~--~aD~il~Vvda~  107 (363)
                      ..   +.+.+.....+.  .+|++|+|.+..
T Consensus       182 dq~~neeILk~Ik~~Lsk~gpDVVLlV~RLd  212 (763)
T TIGR00993       182 DQSKNEKILSSVKKFIKKNPPDIVLYVDRLD  212 (763)
T ss_pred             chHHHHHHHHHHHHHHhcCCCCEEEEEEeCC
Confidence            21   122222222323  479999998753

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

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

Probab=98.78  E-value=3.2e-08  Score=96.71  Aligned_cols=89  Identities=19%  Similarity=0.127  Sum_probs=64.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc---------------ccCCCceeecceeEEEEeCCcccccccccccccccccee
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS---------------AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAI   67 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~---------------~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~   67 (363)
                      ++..||-+---|||||-.+|......               +....|.|+..+...+.+....            --...
T Consensus        10 RNFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~~------------g~~Y~   77 (603)
T COG0481          10 RNFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAKD------------GETYV   77 (603)
T ss_pred             cceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeCC------------CCEEE
Confidence            46889999999999999999643111               2223588888888777664311            00167


Q ss_pred             EEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCC
Q psy2401          68 IKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDD  110 (363)
Q Consensus        68 i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~  110 (363)
                      ++++||||.+++.-.       .-+.+..|..+++||||+++.
T Consensus        78 lnlIDTPGHVDFsYE-------VSRSLAACEGalLvVDAsQGv  113 (603)
T COG0481          78 LNLIDTPGHVDFSYE-------VSRSLAACEGALLVVDASQGV  113 (603)
T ss_pred             EEEcCCCCccceEEE-------ehhhHhhCCCcEEEEECccch
Confidence            999999999988763       335557789999999998653

>KOG0464|consensus

Probab=98.77  E-value=1.5e-08  Score=97.31  Aligned_cols=201  Identities=15%  Similarity=0.112  Sum_probs=131.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHH---cCC-----cc----ccC------CCceeecceeEEEEeCCcccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALT---KLK-----IS----AEN------YPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF   64 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt---~~~-----~~----~~~------~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~   64 (363)
                      .+||++.+-.+||||.-..|.   |+.     +.    +.+      ..+.|+......+.|.|                
T Consensus        38 rnigiiahidagktttterily~ag~~~s~g~vddgdtvtdfla~erergitiqsaav~fdwkg----------------  101 (753)
T KOG0464|consen   38 RNIGIIAHIDAGKTTTTERILYLAGAIHSAGDVDDGDTVTDFLAIERERGITIQSAAVNFDWKG----------------  101 (753)
T ss_pred             hcceeEEEecCCCchhHHHHHHHhhhhhcccccCCCchHHHHHHHHHhcCceeeeeeeeccccc----------------
Confidence            579999999999999998885   221     11    111      14667666666678888                


Q ss_pred             ceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-h
Q psy2401          65 PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-Y  143 (363)
Q Consensus        65 ~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~  143 (363)
                       ..++++||||.+++.-       +.-..+|..|.++.|+|++.+.+..+                --+|+..+..+. +
T Consensus       102 -~rinlidtpghvdf~l-------everclrvldgavav~dasagve~qt----------------ltvwrqadk~~ip~  157 (753)
T KOG0464|consen  102 -HRINLIDTPGHVDFRL-------EVERCLRVLDGAVAVFDASAGVEAQT----------------LTVWRQADKFKIPA  157 (753)
T ss_pred             -ceEeeecCCCcceEEE-------EHHHHHHHhcCeEEEEeccCCcccce----------------eeeehhccccCCch
Confidence             6799999999988765       34466688899999999987654321                224555555555 5


Q ss_pred             hhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHH-hhh-cccccccEEEecccccc-CC-------
Q psy2401         144 IDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSI-KFL-NLLTIKPIIFVANVKEN-GF-------  213 (363)
Q Consensus       144 ~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~-~~~-~~l~~kp~i~v~Nk~d~-~~-------  213 (363)
                      .-++|||+    +..+++...++.+.+-|........+|+++..  .+ +++ +.+..+..+--+|-.|- ++       
T Consensus       158 ~~finkmd----k~~anfe~avdsi~ekl~ak~l~l~lpi~eak--~fnkg~ldil~ke~l~~ncnsndgkd~e~~plle  231 (753)
T KOG0464|consen  158 HCFINKMD----KLAANFENAVDSIEEKLGAKALKLQLPIGEAK--GFNKGFLDILHKEKLLGNCNSNDGKDFENKPLLE  231 (753)
T ss_pred             hhhhhhhh----hhhhhhhhHHHHHHHHhCCceEEEEecccccc--cccchHHHHHHHhhccCCCCCCccccccCCcccc
Confidence            67899994    44457788889999988876666667776442  33 444 33444444333454332 11       


Q ss_pred             -CchHHHHHHHHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcC
Q psy2401         214 -KNNLLLDQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLG  260 (363)
Q Consensus       214 -~~~~~~~~i~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~  260 (363)
                       ...+..+.+.+.           ...+.+.+++++++-+..||+++.
T Consensus       232 ~ndpel~e~~ae~-----------knal~~qlad~~~dfad~~ldef~  268 (753)
T KOG0464|consen  232 KNDPELAEELAEA-----------KNALCEQLADLDADFADKFLDEFD  268 (753)
T ss_pred             cCCHHHHHHHHHH-----------HHHHHHHHhhccHHHHHHHHHHhh
Confidence             122344444443           345788899998888888887653

>KOG0071|consensus

Probab=98.75  E-value=1.5e-07  Score=77.95  Aligned_cols=79  Identities=18%  Similarity=0.224  Sum_probs=57.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|..+|..++||||++..|.-.... ...|  |...+.-.+++.+                 +.+++||+-|...-.  
T Consensus        18 ~~ilmlGLd~aGKTtiLyKLkl~~~~-~~ip--TvGFnvetVtykN-----------------~kfNvwdvGGqd~iR--   75 (180)
T KOG0071|consen   18 MRILMLGLDAAGKTTILYKLKLGQSV-TTIP--TVGFNVETVTYKN-----------------VKFNVWDVGGQDKIR--   75 (180)
T ss_pred             ceEEEEecccCCceehhhHHhcCCCc-cccc--ccceeEEEEEeee-----------------eEEeeeeccCchhhh--
Confidence            78999999999999999999753221 1222  5556677888888                 889999998864322  


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                           .-...+.....++|+|+|..+
T Consensus        76 -----plWrhYy~gtqglIFV~Dsa~   96 (180)
T KOG0071|consen   76 -----PLWRHYYTGTQGLIFVVDSAD   96 (180)
T ss_pred             -----HHHHhhccCCceEEEEEeccc
Confidence                 223344577899999999854

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.74  E-value=1.6e-08  Score=95.38  Aligned_cols=58  Identities=33%  Similarity=0.483  Sum_probs=47.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      .+++++|.||+|||||+|+|++.. +.+++.||+|..++  .+.+.                  ..+.++||||+....
T Consensus       119 ~~~~~vG~~nvGKSslin~l~~~~~~~~~~~~g~T~~~~--~~~~~------------------~~~~l~DtPG~~~~~  177 (276)
T TIGR03596       119 IRAMIVGIPNVGKSTLINRLAGKKVAKVGNRPGVTKGQQ--WIKLS------------------DGLELLDTPGILWPK  177 (276)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCccccCCCCCeecceE--EEEeC------------------CCEEEEECCCcccCC
Confidence            579999999999999999999884 67899999998765  34443                  247899999996543

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.

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

Probab=98.74  E-value=8.7e-08  Score=77.87  Aligned_cols=129  Identities=16%  Similarity=0.191  Sum_probs=84.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .|+++||..|+|||||+++|-|....         -...-.++++++                   ..+||||..-... 
T Consensus         2 Kri~~vG~~gcGKTtL~q~L~G~~~l---------ykKTQAve~~d~-------------------~~IDTPGEy~~~~-   52 (148)
T COG4917           2 KRIAFVGQVGCGKTTLFQSLYGNDTL---------YKKTQAVEFNDK-------------------GDIDTPGEYFEHP-   52 (148)
T ss_pred             ceeEEecccccCchhHHHHhhcchhh---------hcccceeeccCc-------------------cccCCchhhhhhh-
Confidence            68999999999999999999985321         111224666653                   2579999653222 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                        .+-...+.....+|++++|-.+.+.            ...                                      
T Consensus        53 --~~Y~aL~tt~~dadvi~~v~~and~------------~s~--------------------------------------   80 (148)
T COG4917          53 --RWYHALITTLQDADVIIYVHAANDP------------ESR--------------------------------------   80 (148)
T ss_pred             --HHHHHHHHHhhccceeeeeecccCc------------ccc--------------------------------------
Confidence              1223445556789999998887431            100                                      


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCC-cEEEeeHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNI-PIIIICAKLE  241 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~-~~i~~sa~~e  241 (363)
                                        +|-+         |.-.-.||+|=++.|.|..  .++-++..++|+.+-|. +++.+|+.-+
T Consensus        81 ------------------f~p~---------f~~~~~k~vIgvVTK~DLa--ed~dI~~~~~~L~eaGa~~IF~~s~~d~  131 (148)
T COG4917          81 ------------------FPPG---------FLDIGVKKVIGVVTKADLA--EDADISLVKRWLREAGAEPIFETSAVDN  131 (148)
T ss_pred             ------------------CCcc---------cccccccceEEEEeccccc--chHhHHHHHHHHHHcCCcceEEEeccCc
Confidence                              0100         2223467788899999964  26677888888887764 6888888743

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=98.72  E-value=3.4e-08  Score=95.69  Aligned_cols=148  Identities=17%  Similarity=0.148  Sum_probs=97.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC----------------CccccCC------CceeecceeEEEEeCCcccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL----------------KISAENY------PFCTIEPNIGIIEVPDKRLKHLNNIVKT   60 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~----------------~~~~~~~------p~~t~~~~~g~v~~~~~~~~~l~~~~~~   60 (363)
                      ...+||-+|-+|||||-..|+--                ....|++      .|.++..+.=..++.|            
T Consensus        13 RTFAIISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMqF~Y~~------------   80 (528)
T COG4108          13 RTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFDYAD------------   80 (528)
T ss_pred             cceeEEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEEeccCC------------
Confidence            46899999999999999998611                1112222      2444444444455665            


Q ss_pred             ccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHH
Q psy2401          61 KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAIL  140 (363)
Q Consensus        61 ~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~  140 (363)
                           ..++++||||..++..       ..++.+-.+|.+++|+|+..+.+-                   -.+.-.+.+
T Consensus        81 -----~~iNLLDTPGHeDFSE-------DTYRtLtAvDsAvMVIDaAKGiE~-------------------qT~KLfeVc  129 (528)
T COG4108          81 -----CLVNLLDTPGHEDFSE-------DTYRTLTAVDSAVMVIDAAKGIEP-------------------QTLKLFEVC  129 (528)
T ss_pred             -----eEEeccCCCCccccch-------hHHHHHHhhheeeEEEecccCccH-------------------HHHHHHHHH
Confidence                 7899999999887765       777788899999999999765421                   112223334


Q ss_pred             Hhh----hhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-ccccc
Q psy2401         141 EKY----IDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTI  199 (363)
Q Consensus       141 ~~~----~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~  199 (363)
                      ..|    +-++||+++.+.    +-.++|++|.+.|.-...+..-|++...  .+++. ++.+.
T Consensus       130 rlR~iPI~TFiNKlDR~~r----dP~ELLdEiE~~L~i~~~PitWPIG~gk--~F~Gvy~l~~~  187 (528)
T COG4108         130 RLRDIPIFTFINKLDREGR----DPLELLDEIEEELGIQCAPITWPIGMGK--DFKGVYHLYND  187 (528)
T ss_pred             hhcCCceEEEeeccccccC----ChHHHHHHHHHHhCcceecccccccCCc--ccceeeeeccC
Confidence            333    368999965443    4678899999988876666555666544  46665 44333

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=98.72  E-value=1.6e-08  Score=107.29  Aligned_cols=85  Identities=19%  Similarity=0.163  Sum_probs=56.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc----------ccCC------CceeecceeEEEE--eCCcccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS----------AENY------PFCTIEPNIGIIE--VPDKRLKHLNNIVKTKKIF   64 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~----------~~~~------p~~t~~~~~g~v~--~~~~~~~~l~~~~~~~~~~   64 (363)
                      .+|+++|+.++|||||+++|+.....          ..++      .+.|+........  +.+.               
T Consensus        20 rnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~---------------   84 (720)
T TIGR00490        20 RNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGN---------------   84 (720)
T ss_pred             cEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCC---------------
Confidence            58999999999999999999742100          0111      2334433322211  1111               


Q ss_pred             ceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccC
Q psy2401          65 PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKD  109 (363)
Q Consensus        65 ~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~  109 (363)
                      ..+++++||||+.++.       ......++.+|++++|+|+..+
T Consensus        85 ~~~i~liDTPG~~~f~-------~~~~~al~~aD~~llVvda~~g  122 (720)
T TIGR00490        85 EYLINLIDTPGHVDFG-------GDVTRAMRAVDGAIVVVCAVEG  122 (720)
T ss_pred             ceEEEEEeCCCccccH-------HHHHHHHHhcCEEEEEEecCCC
Confidence            1689999999987643       3566788999999999998543

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.72  E-value=1.9e-08  Score=85.04  Aligned_cols=54  Identities=44%  Similarity=0.560  Sum_probs=43.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeeccc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLV   77 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~   77 (363)
                      +++++|.||+|||||+|+|++.. ..+++.|++|.+...  +.++                  ..+.++||||+.
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~~~~~~~~~~~~~~~--~~~~------------------~~~~i~DtpG~~  139 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKVSVSATPGKTKHFQT--IFLT------------------PTITLCDCPGLV  139 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCCcccceEE--EEeC------------------CCEEEEECCCcC
Confidence            68999999999999999999884 468888888876543  3332                  247899999985

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.

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=98.71  E-value=4e-07  Score=83.39  Aligned_cols=86  Identities=13%  Similarity=0.042  Sum_probs=57.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ||.|+|+.+|||||+.+.+... .+.-..+-+.|.++....+...+.                ..+++||.||.......
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve~~~v~~~~~----------------~~l~iwD~pGq~~~~~~   64 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTIDVEKSHVRFLSF----------------LPLNIWDCPGQDDFMEN   64 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGGGG-----SEEEEEEECTTS----------------CEEEEEEE-SSCSTTHT
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcCCceEEEEecCCC----------------cEEEEEEcCCccccccc
Confidence            7899999999999999999975 333344556688887777776652                68999999998755432


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .  +..+--...++++++|+|+|+.
T Consensus        65 ~--~~~~~~~if~~v~~LIyV~D~q   87 (232)
T PF04670_consen   65 Y--FNSQREEIFSNVGVLIYVFDAQ   87 (232)
T ss_dssp             T--HTCCHHHHHCTESEEEEEEETT
T ss_pred             c--ccccHHHHHhccCEEEEEEEcc
Confidence            1  1112223458899999999994

RCC1 catalyzes guanine nucleotide exchange on Ran, a well characterised nuclear Ras-like small G protein that plays an essential role in the import and export of proteins and RNAs across the nuclear membrane through the nuclear pore complex. RCC1 is located inside the nucleus, bound to chromatin. The concentration of GTP within the cell is ~30 times higher than the concentration of GDP, thus resulting in the preferential production of the GTP form of Ran by RCC1 within the nucleus. Gtr1p is located within both the cytoplasm and the nucleus and has been reported to play a role in cell growth. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1 and Rag A and Gtr1p belong to the sixth subfamily of the Ras-like small GTPase superfamily []. ; GO: 0005525 GTP binding, 0005634 nucleus, 0005737 cytoplasm; PDB: 3R7W_B 2Q3F_B 3LLU_A.

>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []

Probab=98.70  E-value=2.7e-08  Score=71.54  Aligned_cols=59  Identities=20%  Similarity=0.311  Sum_probs=48.1

Q ss_pred             EEEEeCCCCceEEEeecCCCCHHHhhhhhhcchhcccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEEEE
Q psy2401         280 RTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNF  359 (363)
Q Consensus       280 i~~ft~g~~e~raw~~~~g~ta~~~A~~IHsD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~~  359 (363)
                      |.+||. ....+.  +++|+|+.|+|..||+++++.|+.|.|.+                  . +.+.+|+++|||+|+|
T Consensus         1 I~v~lp-dG~~~~--~~~g~T~~d~A~~I~~~l~~~~~~A~Vng------------------~-~vdl~~~L~~~d~v~i   58 (60)
T PF02824_consen    1 IRVYLP-DGSIKE--LPEGSTVLDVAYSIHSSLAKRAVAAKVNG------------------Q-LVDLDHPLEDGDVVEI   58 (60)
T ss_dssp             EEEEET-TSCEEE--EETTBBHHHHHHHHSHHHHHCEEEEEETT------------------E-EEETTSBB-SSEEEEE
T ss_pred             CEEECC-CCCeee--CCCCCCHHHHHHHHCHHHHhheeEEEEcC------------------E-ECCCCCCcCCCCEEEE
Confidence            578883 333444  99999999999999999999999999763                  3 3489999999999998


Q ss_pred             E
Q psy2401         360 L  360 (363)
Q Consensus       360 ~  360 (363)
                      .
T Consensus        59 i   59 (60)
T PF02824_consen   59 I   59 (60)
T ss_dssp             E
T ss_pred             E
Confidence            4

The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....

>KOG1424|consensus

Probab=98.68  E-value=1.3e-08  Score=100.22  Aligned_cols=59  Identities=34%  Similarity=0.417  Sum_probs=50.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +.||+||.|||||||++|+|.|+ .+.|+..||.|.+.+.-.+.                    ..+.+.|+||++.+..
T Consensus       315 vtVG~VGYPNVGKSSTINaLvG~KkVsVS~TPGkTKHFQTi~ls--------------------~~v~LCDCPGLVfPSf  374 (562)
T KOG1424|consen  315 VTVGFVGYPNVGKSSTINALVGRKKVSVSSTPGKTKHFQTIFLS--------------------PSVCLCDCPGLVFPSF  374 (562)
T ss_pred             eEEEeecCCCCchhHHHHHHhcCceeeeecCCCCcceeEEEEcC--------------------CCceecCCCCccccCC
Confidence            67999999999999999999999 68899999999988744433                    3578999999986544

>KOG0081|consensus

Probab=98.67  E-value=4.3e-08  Score=82.64  Aligned_cols=160  Identities=14%  Similarity=0.053  Sum_probs=88.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      |...+|.+|+||||++-..|..+....=.....++.....+.++....+.      .-+.....+++|||+|..++.+  
T Consensus        11 kfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g------~gr~~rihLQlWDTAGQERFRS--   82 (219)
T KOG0081|consen   11 KFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGG------GGRGQRIHLQLWDTAGQERFRS--   82 (219)
T ss_pred             HHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCC------CCcceEEEEeeeccccHHHHHH--
Confidence            45567999999999988887643321111111122222222222110000      0011226799999999876654  


Q ss_pred             cchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHHH
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLK  163 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~~  163 (363)
                           ...+-.|.|-..++++|....                                                     .
T Consensus        83 -----LTTAFfRDAMGFlLiFDlT~e-----------------------------------------------------q  104 (219)
T KOG0081|consen   83 -----LTTAFFRDAMGFLLIFDLTSE-----------------------------------------------------Q  104 (219)
T ss_pred             -----HHHHHHHhhccceEEEeccch-----------------------------------------------------H
Confidence                 333444888889999998431                                                     1


Q ss_pred             HHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHHH
Q psy2401         164 LLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEEE  243 (363)
Q Consensus       164 ~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~~  243 (363)
                      .+-.++.||.+-              ....|-  ...-+++.+||+|++.......+...+++.++++|++.+||-...+
T Consensus       105 SFLnvrnWlSQL--------------~~hAYc--E~PDivlcGNK~DL~~~R~Vs~~qa~~La~kyglPYfETSA~tg~N  168 (219)
T KOG0081|consen  105 SFLNVRNWLSQL--------------QTHAYC--ENPDIVLCGNKADLEDQRVVSEDQAAALADKYGLPYFETSACTGTN  168 (219)
T ss_pred             HHHHHHHHHHHH--------------HHhhcc--CCCCEEEEcCccchhhhhhhhHHHHHHHHHHhCCCeeeeccccCcC
Confidence            111222333221              011121  2334556789999753222345566778888999999999987665


Q ss_pred             Hh
Q psy2401         244 IS  245 (363)
Q Consensus       244 i~  245 (363)
                      +.
T Consensus       169 v~  170 (219)
T KOG0081|consen  169 VE  170 (219)
T ss_pred             HH
Confidence            54

>KOG0076|consensus

Probab=98.66  E-value=4.3e-08  Score=83.96  Aligned_cols=82  Identities=29%  Similarity=0.227  Sum_probs=57.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC---ccccC--CCceeecceeEEEEeCCccccccccccccccccceeEEEEeeeccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK---ISAEN--YPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLV   77 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~---~~~~~--~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~   77 (363)
                      +.+.|+|+-||||||++.++-...   ....+  .-.+|...+.|++.+.+                 ..+.+||.-|..
T Consensus        18 y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig~i~v~~-----------------~~l~fwdlgGQe   80 (197)
T KOG0076|consen   18 YSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIGTIEVCN-----------------APLSFWDLGGQE   80 (197)
T ss_pred             hhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeecceeecc-----------------ceeEEEEcCChH
Confidence            468899999999999999885321   11111  11347778889999987                 779999998864


Q ss_pred             CCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          78 SGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        78 ~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      .-.+.+       -.+...|+++++|+|+.+
T Consensus        81 ~lrSlw-------~~yY~~~H~ii~viDa~~  104 (197)
T KOG0076|consen   81 SLRSLW-------KKYYWLAHGIIYVIDATD  104 (197)
T ss_pred             HHHHHH-------HHHHHHhceeEEeecCCC
Confidence            333322       234467999999999953

>PTZ00099 rab6; Provisional

Probab=98.66  E-value=1.9e-07  Score=82.17  Aligned_cols=35  Identities=26%  Similarity=0.132  Sum_probs=26.7

Q ss_pred             eeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecc
Q psy2401          66 AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        66 ~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .++.+|||||...+...    ..   ..++.||++|+|+|++
T Consensus        29 v~l~iwDt~G~e~~~~~----~~---~~~~~ad~~ilv~D~t   63 (176)
T PTZ00099         29 VRLQLWDTAGQERFRSL----IP---SYIRDSAAAIVVYDIT   63 (176)
T ss_pred             EEEEEEECCChHHhhhc----cH---HHhCCCcEEEEEEECC
Confidence            78999999997654432    12   3458999999999985

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=98.65  E-value=2.3e-07  Score=90.61  Aligned_cols=84  Identities=18%  Similarity=0.141  Sum_probs=63.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc------cc----------CCCceeecceeEEEEeCCccccccccccccccccce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS------AE----------NYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA   66 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~------~~----------~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~   66 (363)
                      .+||||-+---|||||...|+.+...      ++          .-.+.|+-.....+.|++                 .
T Consensus         6 RNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~~~~-----------------~   68 (603)
T COG1217           6 RNIAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVNYNG-----------------T   68 (603)
T ss_pred             ceeEEEEEecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceeecCC-----------------e
Confidence            57999999999999999999865211      11          113666666566677877                 7


Q ss_pred             eEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCC
Q psy2401          67 IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDD  110 (363)
Q Consensus        67 ~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~  110 (363)
                      .|+++||||..++...       .-..+.=+|.++++|||++++
T Consensus        69 ~INIvDTPGHADFGGE-------VERvl~MVDgvlLlVDA~EGp  105 (603)
T COG1217          69 RINIVDTPGHADFGGE-------VERVLSMVDGVLLLVDASEGP  105 (603)
T ss_pred             EEEEecCCCcCCccch-------hhhhhhhcceEEEEEEcccCC
Confidence            8999999999887764       334456689999999998754

>KOG0090|consensus

Probab=98.63  E-value=1.1e-07  Score=84.19  Aligned_cols=78  Identities=26%  Similarity=0.377  Sum_probs=58.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ..|-++|+.+||||+||-.|.-...   .-..+++.|+.+...+++                 ....+||.||..+    
T Consensus        39 ~~Vll~Gl~dSGKT~LF~qL~~gs~---~~TvtSiepn~a~~r~gs-----------------~~~~LVD~PGH~r----   94 (238)
T KOG0090|consen   39 NAVLLVGLSDSGKTSLFTQLITGSH---RGTVTSIEPNEATYRLGS-----------------ENVTLVDLPGHSR----   94 (238)
T ss_pred             CcEEEEecCCCCceeeeeehhcCCc---cCeeeeeccceeeEeecC-----------------cceEEEeCCCcHH----
Confidence            4688999999999999998875311   112457889999999887                 4579999999754    


Q ss_pred             ccchhhHHHhhc---cccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHI---RETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~---~~aD~il~Vvda~  107 (363)
                         +..++...+   +.+-+|++|||+.
T Consensus        95 ---lR~kl~e~~~~~~~akaiVFVVDSa  119 (238)
T KOG0090|consen   95 ---LRRKLLEYLKHNYSAKAIVFVVDSA  119 (238)
T ss_pred             ---HHHHHHHHccccccceeEEEEEecc
Confidence               223443333   5899999999984

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=98.62  E-value=1.4e-07  Score=91.72  Aligned_cols=83  Identities=23%  Similarity=0.249  Sum_probs=47.4

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCcc---ccC--CCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKIS---AEN--YPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGL   76 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~---~~~--~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl   76 (363)
                      +++||++|.+|+|||||+|+|-|-...   .++  ..-||..+....  .+..                ..+.+||+||+
T Consensus        35 ~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~Y~--~p~~----------------pnv~lWDlPG~   96 (376)
T PF05049_consen   35 PLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPTPYP--HPKF----------------PNVTLWDLPGI   96 (376)
T ss_dssp             -EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EEEE---SS-----------------TTEEEEEE--G
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCeeCC--CCCC----------------CCCeEEeCCCC
Confidence            368999999999999999999763111   111  123455554333  2321                35899999998


Q ss_pred             cCCCCcccchhhHHHhh--ccccCEEEEEEec
Q psy2401          77 VSGASKGEGLGNKFLAH--IRETNIVIHVIRC  106 (363)
Q Consensus        77 ~~~~~~~~~l~~~~l~~--~~~aD~il~Vvda  106 (363)
                      .......    +.++..  +...|.+|+|.+-
T Consensus        97 gt~~f~~----~~Yl~~~~~~~yD~fiii~s~  124 (376)
T PF05049_consen   97 GTPNFPP----EEYLKEVKFYRYDFFIIISSE  124 (376)
T ss_dssp             GGSS--H----HHHHHHTTGGG-SEEEEEESS
T ss_pred             CCCCCCH----HHHHHHccccccCEEEEEeCC
Confidence            6533322    355543  5678988887764

IIGP is predominantly associated with the Golgi apparatus and also localizes to the endoplasmic reticulum and exerts a distinct role in IFN-induced intracellular membrane trafficking or processing [].; GO: 0005525 GTP binding, 0016817 hydrolase activity, acting on acid anhydrides, 0016020 membrane; PDB: 1TPZ_A 1TQD_A 1TQ6_A 1TQ2_B 1TQ4_A.

>cd01856 YlqF YlqF

Probab=98.61  E-value=7.8e-08  Score=84.04  Aligned_cols=54  Identities=35%  Similarity=0.439  Sum_probs=44.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGL   76 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl   76 (363)
                      .+++++|.+|+|||||+|+|++.. ..+++.|++|.......  ++                  ..+.++||||+
T Consensus       116 ~~~~~~G~~~vGKstlin~l~~~~~~~~~~~~~~T~~~~~~~--~~------------------~~~~~iDtpG~  170 (171)
T cd01856         116 IRAMVVGIPNVGKSTLINRLRGKKVAKVGNKPGVTKGIQWIK--IS------------------PGIYLLDTPGI  170 (171)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCceeecCCCCEEeeeEEEE--ec------------------CCEEEEECCCC
Confidence            589999999999999999999874 46788999997765433  22                  24789999997

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.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.59  E-value=6.4e-08  Score=94.65  Aligned_cols=57  Identities=28%  Similarity=0.381  Sum_probs=45.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC------ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK------ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGL   76 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~------~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl   76 (363)
                      .++.++|.+|||||||+|+|++..      +.++++|++|..+...  .++                  ..+.++||||+
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~~--~~~------------------~~~~l~DtPG~  214 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIEI--PLD------------------DGHSLYDTPGI  214 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEEE--EeC------------------CCCEEEECCCC
Confidence            479999999999999999999752      4688999999886643  332                  23679999999


Q ss_pred             cCC
Q psy2401          77 VSG   79 (363)
Q Consensus        77 ~~~   79 (363)
                      ...
T Consensus       215 ~~~  217 (360)
T TIGR03597       215 INS  217 (360)
T ss_pred             CCh
Confidence            754

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.

>PRK07560 elongation factor EF-2; Reviewed

Probab=98.59  E-value=6.3e-08  Score=103.01  Aligned_cols=113  Identities=22%  Similarity=0.115  Sum_probs=72.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccc----------cCC------CceeecceeEEEEe--CCcccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISA----------ENY------PFCTIEPNIGIIEV--PDKRLKHLNNIVKTKKIF   64 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~----------~~~------p~~t~~~~~g~v~~--~~~~~~~l~~~~~~~~~~   64 (363)
                      ++|+++|+.++|||||..+|......+          .++      .+.|++.....+.|  .+.               
T Consensus        21 Rni~iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~---------------   85 (731)
T PRK07560         21 RNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGK---------------   85 (731)
T ss_pred             cEEEEEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCC---------------
Confidence            579999999999999999997431111          111      13344444333333  211               


Q ss_pred             ceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-h
Q psy2401          65 PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-Y  143 (363)
Q Consensus        65 ~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~  143 (363)
                      ...++++||||+.++.       ......++.+|++++|||+.++..                .+++..|..+..... +
T Consensus        86 ~~~i~liDtPG~~df~-------~~~~~~l~~~D~avlVvda~~g~~----------------~~t~~~~~~~~~~~~~~  142 (731)
T PRK07560         86 EYLINLIDTPGHVDFG-------GDVTRAMRAVDGAIVVVDAVEGVM----------------PQTETVLRQALRERVKP  142 (731)
T ss_pred             cEEEEEEcCCCccChH-------HHHHHHHHhcCEEEEEEECCCCCC----------------ccHHHHHHHHHHcCCCe
Confidence            2679999999987743       366778899999999999865421                123444444333333 5


Q ss_pred             hhhhhccccc
Q psy2401         144 IDKENKKFFL  153 (363)
Q Consensus       144 ~~~i~k~~~~  153 (363)
                      +..+||+++.
T Consensus       143 iv~iNK~D~~  152 (731)
T PRK07560        143 VLFINKVDRL  152 (731)
T ss_pred             EEEEECchhh
Confidence            6789999654

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.57  E-value=3.9e-07  Score=85.35  Aligned_cols=163  Identities=23%  Similarity=0.229  Sum_probs=98.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc---cccCCCceeecceeEEEEe---CCc------cccccccccccccccceeEEE
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI---SAENYPFCTIEPNIGIIEV---PDK------RLKHLNNIVKTKKIFPAIIKL   70 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~---~~~~~p~~t~~~~~g~v~~---~~~------~~~~l~~~~~~~~~~~~~i~l   70 (363)
                      .+||.+|+-.-|||||..+|+|-..   ...-..+.|+..-.+...+   ++.      .....++.|......-..+.|
T Consensus        11 vNIG~vGHVdHGKtTlv~AlsGvwT~~hseElkRgitIkLGYAd~~i~kC~~c~~~~~y~~~~~C~~cg~~~~l~R~VSf   90 (415)
T COG5257          11 VNIGMVGHVDHGKTTLTKALSGVWTDRHSEELKRGITIKLGYADAKIYKCPECYRPECYTTEPKCPNCGAETELVRRVSF   90 (415)
T ss_pred             eEeeeeeecccchhhheehhhceeeechhHHHhcCcEEEeccccCceEeCCCCCCCcccccCCCCCCCCCCccEEEEEEE
Confidence            6899999999999999999998521   1112233343322221111   110      001122233333344467899


Q ss_pred             EeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcc
Q psy2401          71 VDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKK  150 (363)
Q Consensus        71 vDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~  150 (363)
                      +|.||.       +-+...+++-..-.|++++|+.|.+.            .                            
T Consensus        91 VDaPGH-------e~LMATMLsGAAlMDgAlLvIaANEp------------c----------------------------  123 (415)
T COG5257          91 VDAPGH-------ETLMATMLSGAALMDGALLVIAANEP------------C----------------------------  123 (415)
T ss_pred             eeCCch-------HHHHHHHhcchhhhcceEEEEecCCC------------C----------------------------
Confidence            999995       23555667777778999999999531            1                            


Q ss_pred             cccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCC--CchHHHHHHHHHHhc
Q psy2401         151 FFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGF--KNNLLLDQLKIYAHN  228 (363)
Q Consensus       151 ~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~--~~~~~~~~i~~~~~~  228 (363)
                                                   +.|-+.|.   |-.+..+--|-++++-||.|+.-  ..-+..++++++++-
T Consensus       124 -----------------------------PQPQT~EH---l~AleIigik~iiIvQNKIDlV~~E~AlE~y~qIk~FvkG  171 (415)
T COG5257         124 -----------------------------PQPQTREH---LMALEIIGIKNIIIVQNKIDLVSRERALENYEQIKEFVKG  171 (415)
T ss_pred             -----------------------------CCCchHHH---HHHHhhhccceEEEEecccceecHHHHHHHHHHHHHHhcc
Confidence                                         11223332   22244456788999999999632  122456677777653


Q ss_pred             C---CCcEEEeeHHHHHHH
Q psy2401         229 Q---NIPIIIICAKLEEEI  244 (363)
Q Consensus       229 ~---~~~~i~~sa~~e~~i  244 (363)
                      .   +.|+||+||....+|
T Consensus       172 t~Ae~aPIIPiSA~~~~NI  190 (415)
T COG5257         172 TVAENAPIIPISAQHKANI  190 (415)
T ss_pred             cccCCCceeeehhhhccCH
Confidence            3   679999999865443

>PRK13796 GTPase YqeH; Provisional

Probab=98.51  E-value=1.2e-07  Score=92.84  Aligned_cols=56  Identities=32%  Similarity=0.437  Sum_probs=43.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC------CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL------KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGL   76 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~------~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl   76 (363)
                      .++.+||.||||||||+|+|.+.      .+.+++.|+||.+...  +.+++                  ...++||||+
T Consensus       161 ~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~~--~~l~~------------------~~~l~DTPGi  220 (365)
T PRK13796        161 RDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKIE--IPLDD------------------GSFLYDTPGI  220 (365)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCccceeEE--EEcCC------------------CcEEEECCCc
Confidence            46899999999999999999853      2347899999987653  33433                  2479999999


Q ss_pred             cC
Q psy2401          77 VS   78 (363)
Q Consensus        77 ~~   78 (363)
                      ..
T Consensus       221 ~~  222 (365)
T PRK13796        221 IH  222 (365)
T ss_pred             cc
Confidence            74

>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=98.46  E-value=4.8e-07  Score=72.49  Aligned_cols=76  Identities=22%  Similarity=0.323  Sum_probs=51.3

Q ss_pred             eccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHHHHh---------------------c--CCHHH------HHH-
Q psy2401         205 VANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEEEIS---------------------D--LNNID------KKF-  254 (363)
Q Consensus       205 v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~~i~---------------------e--l~~~~------~~~-  254 (363)
                      ++||+|.+ .+.++++++++.+  .+..++|+||..|..|.                     +  +++.+      .++ 
T Consensus         1 AaNK~D~~-~a~~ni~kl~~~~--~~~~vVp~SA~aEl~Lr~a~k~g~I~Y~pGd~~F~i~~~~~l~~~q~~~Le~I~~~   77 (109)
T PF08438_consen    1 AANKADLP-AADENIEKLKEKY--PDEPVVPTSAAAELALRKAAKAGLIDYIPGDSDFEITDDDKLSDKQKKALEKIRDN   77 (109)
T ss_dssp             EEE-GGG--S-HHHHHHHHHHH--TT-EEEEE-HHHHHHHHS-SSS----S----------------------TTHHHHH
T ss_pred             CCcccccc-ccHhHHHHHHHhC--CCCceeeccHHHHHHHHHHHHCCCEEeCCCCCceEeecccccCHHHHHHHHHHHHH
Confidence            58999975 3678888888754  34679999999999855                     1  33322      234 


Q ss_pred             HHhhcCCCchhHHHHHH-HHHHhCCCEEEEeC
Q psy2401         255 FLDNLGLKETKLNDLIR-ASFSLLDLRTYFTV  285 (363)
Q Consensus       255 ~l~~~~l~~~~l~~l~~-~~~~~l~li~~ft~  285 (363)
                      +|..+|  .+|++++|+ ++|++|++|+|||+
T Consensus        78 vl~~~g--~TGVq~aln~AVf~ll~~i~VyPV  107 (109)
T PF08438_consen   78 VLERYG--STGVQEALNRAVFDLLGMIVVYPV  107 (109)
T ss_dssp             HTSSSS--S-SHHHHHHHHHHTTS-EEEEEEE
T ss_pred             HHHhcC--CchHHHHHHHHHHHhcCCeeEecc
Confidence            788887  589999999 56699999999998

; PDB: 1WXQ_A.

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

Probab=98.44  E-value=3.3e-06  Score=79.75  Aligned_cols=25  Identities=28%  Similarity=0.477  Sum_probs=22.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI   27 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~   27 (363)
                      ++|-++|.+|+|||||+|.|.+...
T Consensus         5 fnImVvG~sG~GKTTFIntL~~~~~   29 (281)
T PF00735_consen    5 FNIMVVGESGLGKTTFINTLFNSDI   29 (281)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTSS-
T ss_pred             EEEEEECCCCCCHHHHHHHHHhccc
Confidence            6899999999999999999998743

Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.

>KOG0458|consensus

Probab=98.43  E-value=1.2e-06  Score=87.90  Aligned_cols=37  Identities=14%  Similarity=0.298  Sum_probs=30.2

Q ss_pred             eeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccC
Q psy2401          66 AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKD  109 (363)
Q Consensus        66 ~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~  109 (363)
                      ..++++|.||.-++..       .+++.+..||+.++||||+.+
T Consensus       255 ~~~tliDaPGhkdFi~-------nmi~g~sqaD~avLvvd~s~~  291 (603)
T KOG0458|consen  255 KIVTLIDAPGHKDFIP-------NMISGASQADVAVLVVDASTG  291 (603)
T ss_pred             eeEEEecCCCccccch-------hhhccccccceEEEEEECCcc
Confidence            6789999999766554       666777899999999999753

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=98.43  E-value=2.7e-07  Score=85.38  Aligned_cols=68  Identities=22%  Similarity=0.288  Sum_probs=54.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcccccccc--------ccccccccceeEEEEeee
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNN--------IVKTKKIFPAIIKLVDIA   74 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~--------~~~~~~~~~~~i~lvDtp   74 (363)
                      .-++|+||||||||||+++|+|           ...|..|.+.++|..+..++.        +..|....+..+.+.|..
T Consensus        29 ~i~~iiGpNG~GKSTLLk~l~g-----------~l~p~~G~V~l~g~~i~~~~~kelAk~ia~vpQ~~~~~~~~tV~d~V   97 (258)
T COG1120          29 EITGILGPNGSGKSTLLKCLAG-----------LLKPKSGEVLLDGKDIASLSPKELAKKLAYVPQSPSAPFGLTVYELV   97 (258)
T ss_pred             cEEEEECCCCCCHHHHHHHHhc-----------cCCCCCCEEEECCCchhhcCHHHHhhhEEEeccCCCCCCCcEEeehH
Confidence            3479999999999999999999           788999999999987665443        445555677788888888


Q ss_pred             cccCCCC
Q psy2401          75 GLVSGAS   81 (363)
Q Consensus        75 Gl~~~~~   81 (363)
                      -+.+..+
T Consensus        98 ~~GR~p~  104 (258)
T COG1120          98 LLGRYPH  104 (258)
T ss_pred             hhcCCcc
Confidence            7776554

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=98.39  E-value=7.6e-07  Score=81.38  Aligned_cols=89  Identities=15%  Similarity=0.006  Sum_probs=56.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC--CccccC-CCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL--KISAEN-YPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~--~~~~~~-~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      -|+++|++++|||||+|.|++.  ...+++ .+.||.....+..++...              ....+.++||||+.+..
T Consensus         9 vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~~~--------------~~~~v~~lDteG~~~~~   74 (224)
T cd01851           9 VVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFKLG--------------KEHAVLLLDTEGTDGRE   74 (224)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEeccccCC--------------CcceEEEEecCCcCccc
Confidence            4899999999999999999998  555443 355565444333333210              01579999999987543


Q ss_pred             CcccchhhHHHhhcc--ccCEEEEEEecc
Q psy2401          81 SKGEGLGNKFLAHIR--ETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~--~aD~il~Vvda~  107 (363)
                      ... ......+..+.  -+|++|+.++..
T Consensus        75 ~~~-~~~~~~~~~l~~llss~~i~n~~~~  102 (224)
T cd01851          75 RGE-FEDDARLFALATLLSSVLIYNSWET  102 (224)
T ss_pred             cCc-hhhhhHHHHHHHHHhCEEEEeccCc
Confidence            321 01112223333  389999988873

Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein

>KOG1673|consensus

Probab=98.39  E-value=1.1e-06  Score=74.09  Aligned_cols=145  Identities=14%  Similarity=0.152  Sum_probs=90.3

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      ++||+++|.+..|||||+-...+.....+......+.....++.+.+.+               ..+.+||+-|..++..
T Consensus        20 slkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~---------------IsfSIwdlgG~~~~~n   84 (205)
T KOG1673|consen   20 SLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTD---------------ISFSIWDLGGQREFIN   84 (205)
T ss_pred             EEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceE---------------EEEEEEecCCcHhhhc
Confidence            3799999999999999998887753321111111223334456666654               6788999988643322


Q ss_pred             cccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHH
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIEL  161 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~  161 (363)
                             ..--.+..+-+|++++|.+.                                                     
T Consensus        85 -------~lPiac~dsvaIlFmFDLt~-----------------------------------------------------  104 (205)
T KOG1673|consen   85 -------MLPIACKDSVAILFMFDLTR-----------------------------------------------------  104 (205)
T ss_pred             -------cCceeecCcEEEEEEEecCc-----------------------------------------------------
Confidence                   23344567778999999842                                                     


Q ss_pred             HHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCC-CchHHHHHHH----HHHhcCCCcEEEe
Q psy2401         162 LKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGF-KNNLLLDQLK----IYAHNQNIPIIII  236 (363)
Q Consensus       162 ~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~-~~~~~~~~i~----~~~~~~~~~~i~~  236 (363)
                      .++|+.+++|+.+.+-.                 ..++.|++ ++.|.|.-. -|.++.+.+.    .+++-.+.+.+.+
T Consensus       105 r~TLnSi~~WY~QAr~~-----------------NktAiPil-vGTKyD~fi~lp~e~Q~~I~~qar~YAk~mnAsL~F~  166 (205)
T KOG1673|consen  105 RSTLNSIKEWYRQARGL-----------------NKTAIPIL-VGTKYDLFIDLPPELQETISRQARKYAKVMNASLFFC  166 (205)
T ss_pred             hHHHHHHHHHHHHHhcc-----------------CCccceEE-eccchHhhhcCCHHHHHHHHHHHHHHHHHhCCcEEEe
Confidence            25778888888754222                 22677775 678888521 1344444433    4444446777888


Q ss_pred             eHH
Q psy2401         237 CAK  239 (363)
Q Consensus       237 sa~  239 (363)
                      |+.
T Consensus       167 Sts  169 (205)
T KOG1673|consen  167 STS  169 (205)
T ss_pred             ecc
Confidence            876

>cd01859 MJ1464 MJ1464

Probab=98.38  E-value=5.7e-07  Score=77.13  Aligned_cols=54  Identities=35%  Similarity=0.537  Sum_probs=40.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGL   76 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl   76 (363)
                      .++.++|.||+|||||+|+|.+. ...+++.+++|.+..  .+.. +                 ..+.+|||||+
T Consensus       102 ~~~~~ig~~~~Gkssl~~~l~~~~~~~~~~~~~~t~~~~--~~~~-~-----------------~~~~~~DtpGi  156 (156)
T cd01859         102 GKVGVVGYPNVGKSSIINALKGRHSASTSPSPGYTKGEQ--LVKI-T-----------------SKIYLLDTPGV  156 (156)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCccccCCCCCeeeeeE--EEEc-C-----------------CCEEEEECcCC
Confidence            58999999999999999999986 355677787765432  2222 2                 35889999995

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=98.37  E-value=2e-06  Score=82.80  Aligned_cols=22  Identities=50%  Similarity=0.856  Sum_probs=19.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..|+|.|+||||||||++.|..
T Consensus        57 ~~igi~G~~GaGKSTl~~~l~~   78 (332)
T PRK09435         57 LRIGITGVPGVGKSTFIEALGM   78 (332)
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5699999999999999998854

>KOG0077|consensus

Probab=98.36  E-value=1.2e-06  Score=74.66  Aligned_cols=78  Identities=18%  Similarity=0.382  Sum_probs=58.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      -|+.+.|.-|+|||||++.|-....- ...|  |.+|++-.+.+.+                 .+++.+|.-|.....  
T Consensus        21 gKllFlGLDNAGKTTLLHMLKdDrl~-qhvP--TlHPTSE~l~Ig~-----------------m~ftt~DLGGH~qAr--   78 (193)
T KOG0077|consen   21 GKLLFLGLDNAGKTTLLHMLKDDRLG-QHVP--TLHPTSEELSIGG-----------------MTFTTFDLGGHLQAR--   78 (193)
T ss_pred             ceEEEEeecCCchhhHHHHHcccccc-ccCC--CcCCChHHheecC-----------------ceEEEEccccHHHHH--
Confidence            47899999999999999999764221 1223  8889988888888                 778999998854221  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           +-....+-.+|++++.|||.
T Consensus        79 -----r~wkdyf~~v~~iv~lvda~   98 (193)
T KOG0077|consen   79 -----RVWKDYFPQVDAIVYLVDAY   98 (193)
T ss_pred             -----HHHHHHHhhhceeEeeeehh
Confidence                 12335567899999999994

>KOG1707|consensus

Probab=98.35  E-value=1.2e-06  Score=87.84  Aligned_cols=79  Identities=20%  Similarity=0.249  Sum_probs=49.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcccc---CCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAE---NYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~---~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      .||+++|..|+|||||+-+|+......+   -.|-.|+-+     .+            .|..   .+..++|+..-...
T Consensus        10 VRIvliGD~G~GKtSLImSL~~eef~~~VP~rl~~i~IPa-----dv------------tPe~---vpt~ivD~ss~~~~   69 (625)
T KOG1707|consen   10 VRIVLIGDEGVGKTSLIMSLLEEEFVDAVPRRLPRILIPA-----DV------------TPEN---VPTSIVDTSSDSDD   69 (625)
T ss_pred             eEEEEECCCCccHHHHHHHHHhhhccccccccCCccccCC-----cc------------CcCc---CceEEEecccccch
Confidence            6899999999999999999998532211   111112111     11            1111   45789999732111


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                             .......++.||++++|..+.+
T Consensus        70 -------~~~l~~EirkA~vi~lvyavd~   91 (625)
T KOG1707|consen   70 -------RLCLRKEIRKADVICLVYAVDD   91 (625)
T ss_pred             -------hHHHHHHHhhcCEEEEEEecCC
Confidence                   1245678899999999998743

>KOG0461|consensus

Probab=98.33  E-value=3.3e-06  Score=79.80  Aligned_cols=91  Identities=24%  Similarity=0.299  Sum_probs=58.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC--Ccc-----ccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeec
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL--KIS-----AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAG   75 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~--~~~-----~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpG   75 (363)
                      +++|++|+-.||||||.++|+.-  .+.     .+...+.|.+.....+.++.+.  .|     |.. -+-++.++|+||
T Consensus         8 ~N~GiLGHvDSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~pa--rL-----pq~-e~lq~tlvDCPG   79 (522)
T KOG0461|consen    8 LNLGILGHVDSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVLSPA--RL-----PQG-EQLQFTLVDCPG   79 (522)
T ss_pred             eeeeeEeeccCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeeccccc--cc-----Ccc-ccceeEEEeCCC
Confidence            68999999999999999999743  222     2222344544444444333211  11     110 115689999999


Q ss_pred             ccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          76 LVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        76 l~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ..       ++.+..+....-.|..++|+|+..
T Consensus        80 Ha-------sLIRtiiggaqiiDlm~lviDv~k  105 (522)
T KOG0461|consen   80 HA-------SLIRTIIGGAQIIDLMILVIDVQK  105 (522)
T ss_pred             cH-------HHHHHHHhhhheeeeeeEEEehhc
Confidence            63       355566666677899999999853

>PRK12288 GTPase RsgA; Reviewed

Probab=98.33  E-value=6e-07  Score=87.20  Aligned_cols=57  Identities=26%  Similarity=0.279  Sum_probs=38.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC-CccccCCCc-------eeecceeEEEEeCCccccccccccccccccceeEEEEeeec
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL-KISAENYPF-------CTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAG   75 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~-------~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpG   75 (363)
                      .++|+|.||||||||+|+|.+. ...++..+.       ||....  .+.+++                  ...++||||
T Consensus       207 i~~~vG~sgVGKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~~~--l~~l~~------------------~~~liDTPG  266 (347)
T PRK12288        207 ISIFVGQSGVGKSSLINALLPEAEILVGDVSDNSGLGQHTTTAAR--LYHFPH------------------GGDLIDSPG  266 (347)
T ss_pred             CEEEECCCCCCHHHHHHHhccccceeeccccCcCCCCcCceeeEE--EEEecC------------------CCEEEECCC
Confidence            4789999999999999999987 455555543       343322  223322                  235999999


Q ss_pred             ccCCC
Q psy2401          76 LVSGA   80 (363)
Q Consensus        76 l~~~~   80 (363)
                      +....
T Consensus       267 ir~~~  271 (347)
T PRK12288        267 VREFG  271 (347)
T ss_pred             CCccc
Confidence            97643

>PRK12289 GTPase RsgA; Reviewed

Probab=98.32  E-value=5.4e-07  Score=87.56  Aligned_cols=58  Identities=24%  Similarity=0.233  Sum_probs=41.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC-CccccCCCc-------eeecceeEEEEeCCccccccccccccccccceeEEEEeeec
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL-KISAENYPF-------CTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAG   75 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~-------~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpG   75 (363)
                      .++|+|+||||||||+|+|.+. ...+++.++       ||.+..  .+.+++                  ...++||||
T Consensus       174 i~v~iG~SgVGKSSLIN~L~~~~~~~t~~vs~~~~rGrHTT~~~~--l~~l~~------------------g~~liDTPG  233 (352)
T PRK12289        174 ITVVAGPSGVGKSSLINRLIPDVELRVGKVSGKLGRGRHTTRHVE--LFELPN------------------GGLLADTPG  233 (352)
T ss_pred             eEEEEeCCCCCHHHHHHHHcCccccccccccCCCCCCCCcCceeE--EEECCC------------------CcEEEeCCC
Confidence            4799999999999999999976 466666666       554442  233322                  136999999


Q ss_pred             ccCCCC
Q psy2401          76 LVSGAS   81 (363)
Q Consensus        76 l~~~~~   81 (363)
                      +....-
T Consensus       234 ~~~~~l  239 (352)
T PRK12289        234 FNQPDL  239 (352)
T ss_pred             cccccc
Confidence            965443

>PRK14845 translation initiation factor IF-2; Provisional

Probab=98.29  E-value=6.6e-06  Score=89.57  Aligned_cols=82  Identities=12%  Similarity=0.054  Sum_probs=54.4

Q ss_pred             cHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcccccccccccc-------ccccceeEEEEeeecccCCCCcccch
Q psy2401          14 GKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT-------KKIFPAIIKLVDIAGLVSGASKGEGL   86 (363)
Q Consensus        14 GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~-------~~~~~~~i~lvDtpGl~~~~~~~~~l   86 (363)
                      +||||+.+|.+..+.....-+.|.+.....++++..     .+.+.+       .-.+ ..+.+|||||...+..     
T Consensus       473 ~KTtLLD~iR~t~v~~~EaGGITQ~IGa~~v~~~~~-----~~~~~~~~~~~~~~~~~-p~i~fiDTPGhe~F~~-----  541 (1049)
T PRK14845        473 HNTTLLDKIRKTRVAKKEAGGITQHIGATEIPIDVI-----KKICGPLLKLLKAEIKI-PGLLFIDTPGHEAFTS-----  541 (1049)
T ss_pred             ccccHHHHHhCCCcccccCCCceeccceEEEEeccc-----ccccccccccccccCCc-CcEEEEECCCcHHHHH-----
Confidence            599999999998776666678888877666776531     111111       1111 3589999999654322     


Q ss_pred             hhHHHhhccccCEEEEEEeccc
Q psy2401          87 GNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        87 ~~~~l~~~~~aD~il~Vvda~~  108 (363)
                        ......+.+|++++|+|+.+
T Consensus       542 --lr~~g~~~aDivlLVVDa~~  561 (1049)
T PRK14845        542 --LRKRGGSLADLAVLVVDINE  561 (1049)
T ss_pred             --HHHhhcccCCEEEEEEECcc
Confidence              12234577999999999853

>TIGR00750 lao LAO/AO transport system ATPase

Probab=98.29  E-value=1.9e-06  Score=82.20  Aligned_cols=22  Identities=45%  Similarity=0.732  Sum_probs=20.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..|+++|+||||||||++.|..
T Consensus        35 ~~i~i~G~~G~GKttl~~~l~~   56 (300)
T TIGR00750        35 HRVGITGTPGAGKSTLLEALGM   56 (300)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999875

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.

>KOG4252|consensus

Probab=98.24  E-value=3.8e-07  Score=78.47  Aligned_cols=83  Identities=19%  Similarity=0.088  Sum_probs=52.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +|+.|+|..++||||++...+...+.-......-.+.....+.+.++.               ..+.+|||+|..++.. 
T Consensus        21 iK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Ed---------------vr~mlWdtagqeEfDa-   84 (246)
T KOG4252|consen   21 IKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIED---------------VRSMLWDTAGQEEFDA-   84 (246)
T ss_pred             EEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHH---------------HHHHHHHhccchhHHH-
Confidence            689999999999999999999632221111111122222233443332               4577999999754322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            -..++.|.|.+-++|+.-.
T Consensus        85 ------ItkAyyrgaqa~vLVFSTT  103 (246)
T KOG4252|consen   85 ------ITKAYYRGAQASVLVFSTT  103 (246)
T ss_pred             ------HHHHHhccccceEEEEecc
Confidence                  3346679999999998763

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=98.24  E-value=9.1e-07  Score=76.32  Aligned_cols=23  Identities=43%  Similarity=0.505  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ..++++|++|||||||+|+|.+.
T Consensus        36 k~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   36 KTSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            56899999999999999999986

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>KOG3883|consensus

Probab=98.23  E-value=3e-05  Score=65.32  Aligned_cols=85  Identities=18%  Similarity=0.219  Sum_probs=54.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .|+.++|.-++|||.++..|.-. ...-..+.-|.-+...+.+.-+..              ...++.+.||+|+..+..
T Consensus        10 ~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiEDiY~~svet~rg--------------arE~l~lyDTaGlq~~~~   75 (198)
T KOG3883|consen   10 CKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIEDIYVASVETDRG--------------AREQLRLYDTAGLQGGQQ   75 (198)
T ss_pred             eEEEEECCccccHHHHHHHHHhccCCCCCccccchhhheeEeeecCCC--------------hhheEEEeecccccCchh
Confidence            68999999999999999998743 222222222223333444443331              116789999999976632


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                         .+-+   .++..+|+.++|.+..
T Consensus        76 ---eLpr---hy~q~aDafVLVYs~~   95 (198)
T KOG3883|consen   76 ---ELPR---HYFQFADAFVLVYSPM   95 (198)
T ss_pred             ---hhhH---hHhccCceEEEEecCC
Confidence               1222   3447799999999873

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.23  E-value=1.5e-06  Score=80.52  Aligned_cols=57  Identities=23%  Similarity=0.236  Sum_probs=38.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC-CccccCCC-------ceeecceeEEEEeCCccccccccccccccccceeEEEEeee
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL-KISAENYP-------FCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIA   74 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p-------~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtp   74 (363)
                      ..++++|+||||||||+|+|.+. ...+++.+       +||.+...  +.+.+                   -.++|||
T Consensus       121 ~~~~~~G~sgvGKStLiN~L~~~~~~~t~~i~~~~~~G~hTT~~~~l--~~l~~-------------------~~liDtP  179 (245)
T TIGR00157       121 RISVFAGQSGVGKSSLINALDPSVKQQVNDISSKLGLGKHTTTHVEL--FHFHG-------------------GLIADTP  179 (245)
T ss_pred             CEEEEECCCCCCHHHHHHHHhhhhhccccceeccCCCCCCcCCceEE--EEcCC-------------------cEEEeCC
Confidence            46899999999999999999986 33333332       35544432  23322                   2699999


Q ss_pred             cccCCC
Q psy2401          75 GLVSGA   80 (363)
Q Consensus        75 Gl~~~~   80 (363)
                      |+....
T Consensus       180 G~~~~~  185 (245)
T TIGR00157       180 GFNEFG  185 (245)
T ss_pred             CccccC
Confidence            997643

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

>KOG0074|consensus

Probab=98.21  E-value=5.9e-06  Score=68.66  Aligned_cols=78  Identities=22%  Similarity=0.223  Sum_probs=58.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc-ccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~-~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+++++|.-|+||||+++.|.+.... +.+    |...+...+.+++.                .++++||+-|.-.   
T Consensus        18 irilllGldnAGKTT~LKqL~sED~~hltp----T~GFn~k~v~~~g~----------------f~LnvwDiGGqr~---   74 (185)
T KOG0074|consen   18 IRILLLGLDNAGKTTFLKQLKSEDPRHLTP----TNGFNTKKVEYDGT----------------FHLNVWDIGGQRG---   74 (185)
T ss_pred             EEEEEEecCCCcchhHHHHHccCChhhccc----cCCcceEEEeecCc----------------EEEEEEecCCccc---
Confidence            68999999999999999999986433 222    44455667777774                7899999988532   


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                          +..-.-++..++|.+++|+|..
T Consensus        75 ----IRpyWsNYyenvd~lIyVIDS~   96 (185)
T KOG0074|consen   75 ----IRPYWSNYYENVDGLIYVIDST   96 (185)
T ss_pred             ----cchhhhhhhhccceEEEEEeCC
Confidence                2223346668899999999953

>KOG0468|consensus

Probab=98.19  E-value=5.7e-06  Score=83.95  Aligned_cols=89  Identities=21%  Similarity=0.299  Sum_probs=62.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc-c-----c--CC---------CceeecceeEEEEeCCccccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS-A-----E--NY---------PFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFP   65 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~-~-----~--~~---------p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~   65 (363)
                      .++|++|+=.+|||+|+.+|..+... .     .  .|         .+++++.+.-++-..|.            +...
T Consensus       129 rnV~l~GhLhhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~------------~~KS  196 (971)
T KOG0468|consen  129 RNVGLVGHLHHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDS------------KGKS  196 (971)
T ss_pred             EEEEEeeccccChhHHHHhhceeccccccccccccccccccchhhHhcCceEeecceEEEEecC------------cCce
Confidence            57999999999999999999875221 1     0  11         24444444444444331            1222


Q ss_pred             eeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCC
Q psy2401          66 AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDD  110 (363)
Q Consensus        66 ~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~  110 (363)
                      .-++++||||...+..       +..+.++.+|++++|+|+.++.
T Consensus       197 ~l~nilDTPGHVnF~D-------E~ta~l~~sDgvVlvvDv~EGV  234 (971)
T KOG0468|consen  197 YLMNILDTPGHVNFSD-------ETTASLRLSDGVVLVVDVAEGV  234 (971)
T ss_pred             eeeeeecCCCcccchH-------HHHHHhhhcceEEEEEEcccCc
Confidence            5689999999987654       7778889999999999997653

>cd01855 YqeH YqeH

Probab=98.19  E-value=2.3e-06  Score=75.97  Aligned_cols=23  Identities=52%  Similarity=0.569  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      .+++++|.||+|||||+|+|.+.
T Consensus       128 ~~~~~~G~~nvGKStliN~l~~~  150 (190)
T cd01855         128 GDVYVVGATNVGKSTLINALLKK  150 (190)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHHh
Confidence            57999999999999999999974

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.

>PRK00098 GTPase RsgA; Reviewed

Probab=98.18  E-value=2.2e-06  Score=81.71  Aligned_cols=23  Identities=48%  Similarity=0.458  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ..++++|+||||||||+|+|++.
T Consensus       165 k~~~~~G~sgvGKStlin~l~~~  187 (298)
T PRK00098        165 KVTVLAGQSGVGKSTLLNALAPD  187 (298)
T ss_pred             ceEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999999986

>KOG2484|consensus

Probab=98.18  E-value=1.2e-06  Score=84.22  Aligned_cols=61  Identities=33%  Similarity=0.550  Sum_probs=48.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCc-cccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKI-SAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~-~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      +.++|+||.||+||||++|+|....+ .+++.||.|...+.  ++.+                  ..|.|+|.||++...
T Consensus       252 sIrvGViG~PNVGKSSvINsL~~~k~C~vg~~pGvT~smqe--V~Ld------------------k~i~llDsPgiv~~~  311 (435)
T KOG2484|consen  252 SIRVGIIGYPNVGKSSVINSLKRRKACNVGNVPGVTRSMQE--VKLD------------------KKIRLLDSPGIVPPS  311 (435)
T ss_pred             ceEeeeecCCCCChhHHHHHHHHhccccCCCCccchhhhhh--eecc------------------CCceeccCCceeecC
Confidence            36899999999999999999998854 59999998876553  3332                  468999999998755


Q ss_pred             Cc
Q psy2401          81 SK   82 (363)
Q Consensus        81 ~~   82 (363)
                      ..
T Consensus       312 ~~  313 (435)
T KOG2484|consen  312 ID  313 (435)
T ss_pred             CC
Confidence            53

>KOG1547|consensus

Probab=98.18  E-value=3e-05  Score=70.15  Aligned_cols=65  Identities=29%  Similarity=0.363  Sum_probs=43.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc--------ccCCCceeecceeEE-EEeCCccccccccccccccccceeEEEEee
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS--------AENYPFCTIEPNIGI-IEVPDKRLKHLNNIVKTKKIFPAIIKLVDI   73 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~--------~~~~p~~t~~~~~g~-v~~~~~~~~~l~~~~~~~~~~~~~i~lvDt   73 (363)
                      ++|-+||.+|.|||||+|.|..+...        ..++|.||.-...++ +.-++.+               -+++++||
T Consensus        47 FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVk---------------lkltviDT  111 (336)
T KOG1547|consen   47 FNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVK---------------LKLTVIDT  111 (336)
T ss_pred             eEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceE---------------EEEEEecC
Confidence            67999999999999999999765221        224555543333333 3333332               57899999


Q ss_pred             ecccCCCCc
Q psy2401          74 AGLVSGASK   82 (363)
Q Consensus        74 pGl~~~~~~   82 (363)
                      ||+.+....
T Consensus       112 PGfGDqInN  120 (336)
T KOG1547|consen  112 PGFGDQINN  120 (336)
T ss_pred             CCcccccCc
Confidence            999875543

>KOG0072|consensus

Probab=98.15  E-value=3.3e-06  Score=70.34  Aligned_cols=79  Identities=22%  Similarity=0.289  Sum_probs=49.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +++-++|.-|+||||++-.+--.. -+.+.|  |+..+...+++.+                 -++++||.-|..+-+. 
T Consensus        19 ~rililgldGaGkttIlyrlqvge-vvttkP--tigfnve~v~yKN-----------------Lk~~vwdLggqtSirP-   77 (182)
T KOG0072|consen   19 MRILILGLDGAGKTTILYRLQVGE-VVTTKP--TIGFNVETVPYKN-----------------LKFQVWDLGGQTSIRP-   77 (182)
T ss_pred             eEEEEeeccCCCeeEEEEEcccCc-ccccCC--CCCcCcccccccc-----------------ccceeeEccCcccccH-
Confidence            567777777777777654442111 122223  3344455566655                 5688999988654332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                            -...+..+.|++++|||.++
T Consensus        78 ------yWRcYy~dt~avIyVVDssd   97 (182)
T KOG0072|consen   78 ------YWRCYYADTDAVIYVVDSSD   97 (182)
T ss_pred             ------HHHHHhcccceEEEEEeccc
Confidence                  34466688999999999864

>KOG0393|consensus

Probab=98.13  E-value=1.4e-05  Score=70.84  Aligned_cols=81  Identities=23%  Similarity=0.288  Sum_probs=57.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeC-CccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVP-DKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~-~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +|+.+||..++|||+|+-..+.......-.|.. .+-....+.++ +++               ..+.+|||+|..+...
T Consensus         5 ~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTV-Fdnys~~v~V~dg~~---------------v~L~LwDTAGqedYDr   68 (198)
T KOG0393|consen    5 IKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTV-FDNYSANVTVDDGKP---------------VELGLWDTAGQEDYDR   68 (198)
T ss_pred             eEEEEECCCCcCceEEEEEeccCcCcccccCeE-EccceEEEEecCCCE---------------EEEeeeecCCCccccc
Confidence            799999999999999999888754443333432 25555667885 654               7899999999876533


Q ss_pred             cccchhhHHHhhccccCEEEEEEec
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRC  106 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda  106 (363)
                          +.  -+ ....+|+++.+++.
T Consensus        69 ----lR--pl-sY~~tdvfl~cfsv   86 (198)
T KOG0393|consen   69 ----LR--PL-SYPQTDVFLLCFSV   86 (198)
T ss_pred             ----cc--cc-CCCCCCEEEEEEEc
Confidence                21  12 45788999887775

>COG4559 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.06  E-value=3e-06  Score=75.49  Aligned_cols=64  Identities=17%  Similarity=0.312  Sum_probs=50.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcccccccc--------ccccccccceeEEEEeeec
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNN--------IVKTKKIFPAIIKLVDIAG   75 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~--------~~~~~~~~~~~i~lvDtpG   75 (363)
                      -.+|+||||+|||||+++|+|           -..|..|.+.+++..++.++.        ...+.....+++.++|+..
T Consensus        29 v~ailGPNGAGKSTlLk~LsG-----------el~p~~G~v~~~g~~l~~~~~~~lA~~raVlpQ~s~laFpFtv~eVV~   97 (259)
T COG4559          29 VLAILGPNGAGKSTLLKALSG-----------ELSPDSGEVTLNGVPLNSWPPEELARHRAVLPQNSSLAFPFTVQEVVQ   97 (259)
T ss_pred             EEEEECCCCccHHHHHHHhhC-----------ccCCCCCeEeeCCcChhhCCHHHHHHHhhhcccCcccccceEHHHHHH
Confidence            479999999999999999999           667889999999977655433        3445556667788888887


Q ss_pred             ccC
Q psy2401          76 LVS   78 (363)
Q Consensus        76 l~~   78 (363)
                      +..
T Consensus        98 mGr  100 (259)
T COG4559          98 MGR  100 (259)
T ss_pred             hcc
Confidence            654

>COG0411 LivG ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=98.06  E-value=8.6e-07  Score=80.47  Aligned_cols=41  Identities=34%  Similarity=0.519  Sum_probs=35.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHL   54 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l   54 (363)
                      --++||||||+|||||||.+||           -..|+.|.+.+.+.++..+
T Consensus        31 ei~~LIGPNGAGKTTlfNlitG-----------~~~P~~G~v~~~G~~it~l   71 (250)
T COG0411          31 EIVGLIGPNGAGKTTLFNLITG-----------FYKPSSGTVIFRGRDITGL   71 (250)
T ss_pred             eEEEEECCCCCCceeeeeeecc-----------cccCCCceEEECCcccCCC
Confidence            3589999999999999999999           7789999999999654333

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=98.06  E-value=7.5e-06  Score=75.51  Aligned_cols=41  Identities=15%  Similarity=0.253  Sum_probs=21.7

Q ss_pred             eeEEEEeeecccCCCCcccchhhHHHhhccc--cCEEEEEEecc
Q psy2401          66 AIIKLVDIAGLVSGASKGEGLGNKFLAHIRE--TNIVIHVIRCF  107 (363)
Q Consensus        66 ~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~--aD~il~Vvda~  107 (363)
                      ....++||||+.+.-..+ ..+..+...+..  .=++++++|+.
T Consensus        91 ~~y~l~DtPGQiElf~~~-~~~~~i~~~L~~~~~~~~v~LvD~~  133 (238)
T PF03029_consen   91 DDYLLFDTPGQIELFTHS-DSGRKIVERLQKNGRLVVVFLVDSS  133 (238)
T ss_dssp             -SEEEEE--SSHHHHHHS-HHHHHHHHTSSS----EEEEEE-GG
T ss_pred             CcEEEEeCCCCEEEEEec-hhHHHHHHHHhhhcceEEEEEEecc
Confidence            368899999987632222 223455555543  34788999984

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>KOG1144|consensus

Probab=98.03  E-value=1.3e-05  Score=82.19  Aligned_cols=97  Identities=16%  Similarity=0.231  Sum_probs=62.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccc----cccccccccccceeEEEEeeecccC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKH----LNNIVKTKKIFPAIIKLVDIAGLVS   78 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~----l~~~~~~~~~~~~~i~lvDtpGl~~   78 (363)
                      .-|+|+|+-.+|||-|+..|.+..+..+.+.+.|...  |...++-..+..    +...-...-.+| -+.+|||||...
T Consensus       476 PIcCilGHVDTGKTKlld~ir~tNVqegeaggitqqI--gAt~fp~~ni~e~tk~~~~~~K~~~kvP-g~lvIdtpghEs  552 (1064)
T KOG1144|consen  476 PICCILGHVDTGKTKLLDKIRGTNVQEGEAGGITQQI--GATYFPAENIREKTKELKKDAKKRLKVP-GLLVIDTPGHES  552 (1064)
T ss_pred             ceEEEeecccccchHHHHHhhccccccccccceeeec--cccccchHHHHHHHHHHHhhhhhhcCCC-eeEEecCCCchh
Confidence            4589999999999999999999888888877777543  333332221111    111111112333 577999999765


Q ss_pred             CCCcccchhhHHHhhccccCEEEEEEecccC
Q psy2401          79 GASKGEGLGNKFLAHIRETNIVIHVIRCFKD  109 (363)
Q Consensus        79 ~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~  109 (363)
                      +....       -.....||.+|+|||..++
T Consensus       553 FtnlR-------srgsslC~~aIlvvdImhG  576 (1064)
T KOG1144|consen  553 FTNLR-------SRGSSLCDLAILVVDIMHG  576 (1064)
T ss_pred             hhhhh-------hccccccceEEEEeehhcc
Confidence            54321       1223569999999998654

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.02  E-value=6.5e-06  Score=78.10  Aligned_cols=23  Identities=48%  Similarity=0.507  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ..++++|++|||||||+|+|++.
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~  184 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPD  184 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhch
Confidence            46899999999999999999986

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.

>KOG2423|consensus

Probab=98.02  E-value=2.3e-06  Score=82.15  Aligned_cols=59  Identities=36%  Similarity=0.439  Sum_probs=45.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc-cccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI-SAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~-~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +.||+||.||+||||++|+|-...+ .+++.||-|.-.+.-++.                    ..|.+||+||++...+
T Consensus       308 ISVGfiGYPNvGKSSiINTLR~KkVCkvAPIpGETKVWQYItLm--------------------krIfLIDcPGvVyps~  367 (572)
T KOG2423|consen  308 ISVGFIGYPNVGKSSIINTLRKKKVCKVAPIPGETKVWQYITLM--------------------KRIFLIDCPGVVYPSS  367 (572)
T ss_pred             eeeeeecCCCCchHHHHHHHhhcccccccCCCCcchHHHHHHHH--------------------hceeEecCCCccCCCC
Confidence            5699999999999999999988754 488888887544322111                    4688999999987654

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=97.99  E-value=3.5e-05  Score=71.69  Aligned_cols=83  Identities=20%  Similarity=0.179  Sum_probs=57.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc-----c------cc-----CCCceeecceeEEEEeCCccccccccccccccccce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI-----S------AE-----NYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA   66 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~-----~------~~-----~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~   66 (363)
                      .+||.||+-+-|||||..+||..-+     .      +.     .-.+.|+.+.....+..+                 .
T Consensus        13 VNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rGITIntahveyet~~-----------------r   75 (394)
T COG0050          13 VNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVEYETAN-----------------R   75 (394)
T ss_pred             eEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcCceeccceeEEecCC-----------------c
Confidence            5899999999999999999985311     1      11     123667665543333333                 5


Q ss_pred             eEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccC
Q psy2401          67 IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKD  109 (363)
Q Consensus        67 ~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~  109 (363)
                      +.-.+|+||..+.       .+.++....++|..|+||.|.++
T Consensus        76 hyahVDcPGHaDY-------vKNMItgAaqmDgAILVVsA~dG  111 (394)
T COG0050          76 HYAHVDCPGHADY-------VKNMITGAAQMDGAILVVAATDG  111 (394)
T ss_pred             eEEeccCCChHHH-------HHHHhhhHHhcCccEEEEEcCCC
Confidence            6788999997543       23556666889999999999654

>KOG2485|consensus

Probab=97.99  E-value=9.2e-06  Score=76.14  Aligned_cols=65  Identities=26%  Similarity=0.404  Sum_probs=49.6

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcC------CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeec
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKL------KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAG   75 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~------~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpG   75 (363)
                      ...+-++|-||+|||||+|++-..      .+.++++||.|+... ..+.+...                ..++++||||
T Consensus       143 ~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~-~~iri~~r----------------p~vy~iDTPG  205 (335)
T KOG2485|consen  143 EYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVS-ERIRISHR----------------PPVYLIDTPG  205 (335)
T ss_pred             ceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeeh-hheEeccC----------------CceEEecCCC
Confidence            457889999999999999999532      466889999997644 44555443                4589999999


Q ss_pred             ccCCCCcc
Q psy2401          76 LVSGASKG   83 (363)
Q Consensus        76 l~~~~~~~   83 (363)
                      ...+...+
T Consensus       206 il~P~I~~  213 (335)
T KOG2485|consen  206 ILVPSIVD  213 (335)
T ss_pred             cCCCCCCC
Confidence            98765544

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=97.97  E-value=4.7e-05  Score=68.58  Aligned_cols=23  Identities=26%  Similarity=0.421  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ..|+++|++|||||||++.+...
T Consensus        23 ~~i~~~G~~gsGKTTli~~l~~~   45 (207)
T TIGR00073        23 VVLNFMSSPGSGKTTLIEKLIDN   45 (207)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999999863

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

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.96  E-value=7.5e-06  Score=77.04  Aligned_cols=23  Identities=48%  Similarity=0.479  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ...+++|++|||||||+|+|.+.
T Consensus       165 ~~svl~GqSGVGKSSLiN~L~p~  187 (301)
T COG1162         165 KITVLLGQSGVGKSTLINALLPE  187 (301)
T ss_pred             CeEEEECCCCCcHHHHHHhhCch
Confidence            45789999999999999999874

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=97.95  E-value=0.00014  Score=69.80  Aligned_cols=67  Identities=21%  Similarity=0.279  Sum_probs=41.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcccc----CCCc----eeecceeEEEEeCCccccccccccccccccceeEEEEeee
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAE----NYPF----CTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIA   74 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~----~~p~----~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtp   74 (363)
                      ++|-++|++|.||||++|.|.+....-+    +...    .|+........+.+.             .+...++++|||
T Consensus        24 f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~-------------~~~~~l~vIDtp   90 (373)
T COG5019          24 FTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEED-------------GFHLNLTVIDTP   90 (373)
T ss_pred             eEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecC-------------CeEEEEEEeccC
Confidence            6789999999999999999998622211    1111    122222222233221             122679999999


Q ss_pred             cccCCCCc
Q psy2401          75 GLVSGASK   82 (363)
Q Consensus        75 Gl~~~~~~   82 (363)
                      |+.++..-
T Consensus        91 GfGD~idN   98 (373)
T COG5019          91 GFGDFIDN   98 (373)
T ss_pred             Cccccccc
Confidence            99875543

>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=97.92  E-value=0.00014  Score=67.02  Aligned_cols=22  Identities=45%  Similarity=0.708  Sum_probs=19.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..|||-|+||+|||||+++|..
T Consensus        30 ~~iGiTG~PGaGKSTli~~l~~   51 (266)
T PF03308_consen   30 HVIGITGPPGAGKSTLIDALIR   51 (266)
T ss_dssp             EEEEEEE-TTSSHHHHHHHHHH
T ss_pred             eEEEeeCCCCCcHHHHHHHHHH
Confidence            5799999999999999999974

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.

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=97.92  E-value=6.1e-06  Score=76.11  Aligned_cols=36  Identities=36%  Similarity=0.502  Sum_probs=32.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -++|+||||+|||||+++++|           ...|..|.+.+.+.+
T Consensus        32 ~~~iiGPNGaGKSTLlK~iLG-----------ll~p~~G~i~~~g~~   67 (254)
T COG1121          32 ITALIGPNGAGKSTLLKAILG-----------LLKPSSGEIKIFGKP   67 (254)
T ss_pred             EEEEECCCCCCHHHHHHHHhC-----------CCcCCcceEEEcccc
Confidence            589999999999999999999           788999999988754

>TIGR00691 spoT_relA (p)ppGpp synthetase, RelA/SpoT family

Probab=97.89  E-value=4.2e-05  Score=80.65  Aligned_cols=63  Identities=24%  Similarity=0.271  Sum_probs=54.4

Q ss_pred             CCEEEEeCCCCceEEEeecCCCCHHHhhhhhhcchhcccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEE
Q psy2401         278 DLRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDIL  357 (363)
Q Consensus       278 ~li~~ft~g~~e~raw~~~~g~ta~~~A~~IHsD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii  357 (363)
                      +-|-|||  | .-++..+|+|||+.|+|..||||+...++.|.|-                 |+  ..+.+|.+++||+|
T Consensus       360 ~~i~vfT--P-kG~~~~lp~gst~~DfAy~ih~~~g~~~~~a~vn-----------------g~--~v~l~~~l~~gd~v  417 (683)
T TIGR00691       360 EEIYVFT--P-KGDVVELPSGSTPVDFAYAVHTDVGNKCTGAKVN-----------------GK--IVPLDKELENGDVV  417 (683)
T ss_pred             CceEEEC--C-CCeEEEcCCCCCHHHHHHHHhHHhHhceeEEEEC-----------------CE--ECCCCccCCCCCEE
Confidence            7788888  3 3679999999999999999999999999999955                 32  34899999999999


Q ss_pred             EEEec
Q psy2401         358 NFLFN  362 (363)
Q Consensus       358 ~~~f~  362 (363)
                      +|-.+
T Consensus       418 ei~t~  422 (683)
T TIGR00691       418 EIITG  422 (683)
T ss_pred             EEEeC
Confidence            99764

(p)ppGpp is a regulatory metabolite of the stringent response, but appears also to be involved in antibiotic biosynthesis in some species.

>KOG0448|consensus

Probab=97.89  E-value=0.00011  Score=75.24  Aligned_cols=101  Identities=21%  Similarity=0.307  Sum_probs=60.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCcee-----ecceeE---EEEeCC--------------------c--cc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCT-----IEPNIG---IIEVPD--------------------K--RL   51 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t-----~~~~~g---~v~~~~--------------------~--~~   51 (363)
                      .+||+|.|..++||||++|++...+.-.+..-.||     +.-..|   ..-.++                    .  ..
T Consensus       109 ~mKV~ifGrts~GKSt~iNAmL~~klLP~g~gh~TncF~~VegadG~e~vl~~~~s~ek~d~~ti~~~~haL~~~~~~~~  188 (749)
T KOG0448|consen  109 HMKVAIFGRTSAGKSTVINAMLHKKLLPSGIGHTTNCFLEVEGADGAEAVLATEGSEEKIDMKTINQLAHALKPDKDLGA  188 (749)
T ss_pred             ccEEEEeCCCCCcHHHHHHHHHHHhhCcccccccceeeeeecccCCcceeeccCCCcccccHHHHhHHHHhcCcccccCc
Confidence            48999999999999999999986644333322222     111111   111111                    0  00


Q ss_pred             ccccccccccc---ccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEec
Q psy2401          52 KHLNNIVKTKK---IFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRC  106 (363)
Q Consensus        52 ~~l~~~~~~~~---~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda  106 (363)
                      +.+..+++|+.   -....+.++|.||+.-+..    +..-..+.+.++|+.++|+.+
T Consensus       189 ~sLlrV~~p~~~csLLrnDivliDsPGld~~se----~tswid~~cldaDVfVlV~Na  242 (749)
T KOG0448|consen  189 GSLLRVFWPDDKCSLLRNDIVLIDSPGLDVDSE----LTSWIDSFCLDADVFVLVVNA  242 (749)
T ss_pred             ceEEEEEecCccchhhhccceeccCCCCCCchh----hhHHHHHHhhcCCeEEEEecC
Confidence            11223556654   1234688999999864433    333556777899999999998

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=97.88  E-value=8.4e-05  Score=70.12  Aligned_cols=23  Identities=30%  Similarity=0.403  Sum_probs=20.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      .-++|+|+||||||||++.+.+.
T Consensus       105 ~~v~l~G~pGsGKTTLl~~l~~~  127 (290)
T PRK10463        105 LVLNLVSSPGSGKTTLLTETLMR  127 (290)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            45899999999999999999873

>KOG1954|consensus

Probab=97.87  E-value=6.4e-05  Score=71.93  Aligned_cols=102  Identities=20%  Similarity=0.331  Sum_probs=59.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCC---ccccCCCceeecceeEEEE------eCC--------cccccccc---------c
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLK---ISAENYPFCTIEPNIGIIE------VPD--------KRLKHLNN---------I   57 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~---~~~~~~p~~t~~~~~g~v~------~~~--------~~~~~l~~---------~   57 (363)
                      -|-++|+-..||||+++-|+.+.   .++++-|.|  +.-...+.      ++|        .++..|..         +
T Consensus        60 mill~GqyStGKTtfi~yLle~dypg~riGpEPTt--d~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~aflnRf~  137 (532)
T KOG1954|consen   60 MILLVGQYSTGKTTFIRYLLEQDYPGLRIGPEPTT--DRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNAFLNRFM  137 (532)
T ss_pred             eEEEEeccccchhHHHHHHHhCCCCccccCCCCCc--ceeEEEEecCcccccCCceeeecCCCchhhhhhhHHHHHHHHH
Confidence            47899999999999999999873   346666632  11111111      111        12222222         2


Q ss_pred             ccc-ccccceeEEEEeeecccCCCCcc--cch-hhHHHhh-ccccCEEEEEEecc
Q psy2401          58 VKT-KKIFPAIIKLVDIAGLVSGASKG--EGL-GNKFLAH-IRETNIVIHVIRCF  107 (363)
Q Consensus        58 ~~~-~~~~~~~i~lvDtpGl~~~~~~~--~~l-~~~~l~~-~~~aD~il~Vvda~  107 (363)
                      |.+ .+.+-.++++|||||+.++....  +++ -+..++. +..||.|++++|+.
T Consensus       138 csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~h  192 (532)
T KOG1954|consen  138 CSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAH  192 (532)
T ss_pred             HhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechh
Confidence            222 23444689999999998765432  111 0122222 36799999999985

>COG4604 CeuD ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.86  E-value=9e-06  Score=71.77  Aligned_cols=67  Identities=22%  Similarity=0.359  Sum_probs=51.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccc-----ccc---ccccccccceeEEEEeeec
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKH-----LNN---IVKTKKIFPAIIKLVDIAG   75 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~-----l~~---~~~~~~~~~~~i~lvDtpG   75 (363)
                      -.++|||||+|||||+..+++           .+....|.+.+++..+..     |++   +..|.......+++-|..|
T Consensus        29 iTs~IGPNGAGKSTLLS~~sR-----------L~~~d~G~i~i~g~~~~~~~s~~LAk~lSILkQ~N~i~~rlTV~dLv~   97 (252)
T COG4604          29 ITSIIGPNGAGKSTLLSMMSR-----------LLKKDSGEITIDGLELTSTPSKELAKKLSILKQENHINSRLTVRDLVG   97 (252)
T ss_pred             eeEEECCCCccHHHHHHHHHH-----------hccccCceEEEeeeecccCChHHHHHHHHHHHhhchhhheeEHHHHhh
Confidence            368999999999999999998           677888888888855432     222   5566677777888899999


Q ss_pred             ccCCCC
Q psy2401          76 LVSGAS   81 (363)
Q Consensus        76 l~~~~~   81 (363)
                      +.+++.
T Consensus        98 FGRfPY  103 (252)
T COG4604          98 FGRFPY  103 (252)
T ss_pred             cCCCcc
Confidence            887554

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=97.85  E-value=7.9e-06  Score=78.53  Aligned_cols=40  Identities=30%  Similarity=0.417  Sum_probs=35.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcccccc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHL   54 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l   54 (363)
                      -++|+||+|||||||++.|+|           ...|+.|.+.++|.....+
T Consensus        31 f~vllGPSGcGKSTlLr~IAG-----------Le~~~~G~I~i~g~~vt~l   70 (338)
T COG3839          31 FVVLLGPSGCGKSTLLRMIAG-----------LEEPTSGEILIDGRDVTDL   70 (338)
T ss_pred             EEEEECCCCCCHHHHHHHHhC-----------CCCCCCceEEECCEECCCC
Confidence            379999999999999999999           7789999999999765443

>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional

Probab=97.83  E-value=5.3e-05  Score=79.88  Aligned_cols=63  Identities=27%  Similarity=0.278  Sum_probs=53.2

Q ss_pred             CCEEEEeCCCCceEEEeecCCCCHHHhhhhhhcchhcccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEE
Q psy2401         278 DLRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDIL  357 (363)
Q Consensus       278 ~li~~ft~g~~e~raw~~~~g~ta~~~A~~IHsD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii  357 (363)
                      +-|-|||-  + -+...+|+|||+.|+|+.||||+...++.|.|=                 |+  ....+|.+++||+|
T Consensus       404 d~V~VfTP--k-G~~~~Lp~gaT~lDfAy~iHt~iG~~~~gAkvn-----------------g~--~v~l~~~L~~GD~V  461 (743)
T PRK10872        404 DRVYVFTP--K-GDVVDLPAGSTPLDFAYHIHSDVGHRCIGAKIG-----------------GR--IVPFTYQLQMGDQI  461 (743)
T ss_pred             CeEEEECC--C-CCeEEcCCCCcHHHHHHHHhHHHHhhceEEEEC-----------------CE--ECCCCcCCCCCCEE
Confidence            66999992  2 249999999999999999999999999999732                 42  34899999999999


Q ss_pred             EEEec
Q psy2401         358 NFLFN  362 (363)
Q Consensus       358 ~~~f~  362 (363)
                      +|..+
T Consensus       462 eIits  466 (743)
T PRK10872        462 EIITQ  466 (743)
T ss_pred             EEEeC
Confidence            99764

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.83  E-value=1.6e-05  Score=72.71  Aligned_cols=36  Identities=22%  Similarity=0.376  Sum_probs=32.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -++|+|++|||||||+|.++|           ...|+.|.+.++|..
T Consensus        31 fvsilGpSGcGKSTLLriiAG-----------L~~p~~G~V~~~g~~   66 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAG-----------LEKPTSGEVLLDGRP   66 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhC-----------CCCCCCceEEECCcc
Confidence            489999999999999999999           778999999998853

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=97.82  E-value=2.2e-05  Score=65.49  Aligned_cols=38  Identities=32%  Similarity=0.458  Sum_probs=32.7

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      +-.++|+|+||+|||||+++|+|           ...|..|.+.+++..
T Consensus        11 g~~~~i~G~nGsGKStLl~~l~g-----------~~~~~~G~i~~~~~~   48 (137)
T PF00005_consen   11 GEIVAIVGPNGSGKSTLLKALAG-----------LLPPDSGSILINGKD   48 (137)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHTT-----------SSHESEEEEEETTEE
T ss_pred             CCEEEEEccCCCccccceeeecc-----------ccccccccccccccc
Confidence            35789999999999999999999           556788999988743

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

Probab=97.80  E-value=2.3e-05  Score=71.41  Aligned_cols=36  Identities=33%  Similarity=0.573  Sum_probs=33.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -++||||+||||||||++.|+|           ...|+.|.+.+.+.
T Consensus        54 e~vGiiG~NGaGKSTLlkliaG-----------i~~Pt~G~v~v~G~   89 (249)
T COG1134          54 ERVGIIGHNGAGKSTLLKLIAG-----------IYKPTSGKVKVTGK   89 (249)
T ss_pred             CEEEEECCCCCcHHHHHHHHhC-----------ccCCCCceEEEcce
Confidence            4799999999999999999999           78899999999883

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=97.78  E-value=9.8e-05  Score=70.38  Aligned_cols=66  Identities=15%  Similarity=0.207  Sum_probs=40.0

Q ss_pred             ccccccEEEeccccccCCCchHHHHHHH----HHHhcCC---CcEEEeeHHHHHHHhcCCH-------HHHHHHHhhcCC
Q psy2401         196 LLTIKPIIFVANVKENGFKNNLLLDQLK----IYAHNQN---IPIIIICAKLEEEISDLNN-------IDKKFFLDNLGL  261 (363)
Q Consensus       196 ~l~~kp~i~v~Nk~d~~~~~~~~~~~i~----~~~~~~~---~~~i~~sa~~e~~i~el~~-------~~~~~~l~~~~l  261 (363)
                      +|--+-+++++||+|+..=.++-.+.|.    .++.+.+   ..+||+||....+++.-++       ...-++||...+
T Consensus       136 LLGIrhvvvAVNKmDLvdy~e~~F~~I~~dy~~fa~~L~~~~~~~IPiSAl~GDNV~~~s~~mpWY~GptLLe~LE~v~i  215 (431)
T COG2895         136 LLGIRHVVVAVNKMDLVDYSEEVFEAIVADYLAFAAQLGLKDVRFIPISALLGDNVVSKSENMPWYKGPTLLEILETVEI  215 (431)
T ss_pred             HhCCcEEEEEEeeecccccCHHHHHHHHHHHHHHHHHcCCCcceEEechhccCCcccccccCCCcccCccHHHHHhhccc
Confidence            4456677778999996321233333333    3333333   4689999999999886532       223456665544

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=97.75  E-value=2.7e-05  Score=70.75  Aligned_cols=35  Identities=31%  Similarity=0.422  Sum_probs=31.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -++|+||+|||||||+|.|.+           ...|+.|.+.+.+.
T Consensus        33 ~vaI~GpSGSGKSTLLniig~-----------ld~pt~G~v~i~g~   67 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGG-----------LDKPTSGEVLINGK   67 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhc-----------ccCCCCceEEECCE
Confidence            589999999999999999998           66788899988884

>COG0410 LivF ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=97.74  E-value=3.1e-05  Score=69.90  Aligned_cols=38  Identities=24%  Similarity=0.402  Sum_probs=33.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      --++++|+||+|||||+++|+|           ...+..|.+.+.|..+
T Consensus        30 eiv~llG~NGaGKTTlLkti~G-----------l~~~~~G~I~~~G~di   67 (237)
T COG0410          30 EIVALLGRNGAGKTTLLKTIMG-----------LVRPRSGRIIFDGEDI   67 (237)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCeeEEECCeec
Confidence            3589999999999999999999           6667789999998643

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=97.73  E-value=3.4e-05  Score=67.90  Aligned_cols=36  Identities=25%  Similarity=0.240  Sum_probs=31.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        26 e~~~l~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~   61 (177)
T cd03222          26 EVIGIVGPNGTGKTTAVKILAG-----------QLIPNGDNDEWDGI   61 (177)
T ss_pred             CEEEEECCCCChHHHHHHHHHc-----------CCCCCCcEEEECCE
Confidence            4689999999999999999999           56688899998873

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=97.73  E-value=3.1e-05  Score=67.58  Aligned_cols=36  Identities=28%  Similarity=0.353  Sum_probs=32.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -+++|+|++|+|||||+|.+.|           -..|..|.+.++|.
T Consensus        26 e~vAi~GpSGaGKSTLLnLIAG-----------F~~P~~G~i~i~g~   61 (231)
T COG3840          26 EIVAILGPSGAGKSTLLNLIAG-----------FETPASGEILINGV   61 (231)
T ss_pred             cEEEEECCCCccHHHHHHHHHh-----------ccCCCCceEEEcCe
Confidence            4799999999999999999999           55689999999885

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=97.71  E-value=3.9e-05  Score=70.32  Aligned_cols=36  Identities=25%  Similarity=0.409  Sum_probs=31.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.+++.
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G-----------~~~p~~G~i~~~g~   62 (235)
T cd03261          27 EILAIIGPSGSGKSTLLRLIVG-----------LLRPDSGEVLIDGE   62 (235)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           55678899988874

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=97.71  E-value=4e-05  Score=69.28  Aligned_cols=36  Identities=25%  Similarity=0.326  Sum_probs=31.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.+++.
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~G-----------l~~~~~G~i~~~g~   65 (216)
T TIGR00960        30 EMVFLVGHSGAGKSTFLKLILG-----------IEKPTRGKIRFNGQ   65 (216)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           55677899998874

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=97.70  E-value=4.3e-05  Score=69.13  Aligned_cols=36  Identities=31%  Similarity=0.386  Sum_probs=31.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.+++.
T Consensus        31 ~~~~l~G~nGsGKSTLl~~i~G-----------l~~~~~G~i~~~g~   66 (218)
T cd03255          31 EFVAIVGPSGSGKSTLLNILGG-----------LDRPTSGEVRVDGT   66 (218)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhC-----------CcCCCceeEEECCE
Confidence            4689999999999999999999           55678899988874

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>COG4148 ModC ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.69  E-value=0.00023  Score=66.14  Aligned_cols=35  Identities=29%  Similarity=0.489  Sum_probs=32.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++.|++|+|||||+|.++|           +..|..|.+.++|.
T Consensus        26 vTAlFG~SGsGKTslin~IaG-----------L~rPdeG~I~lngr   60 (352)
T COG4148          26 ITALFGPSGSGKTSLINMIAG-----------LTRPDEGRIELNGR   60 (352)
T ss_pred             eEEEecCCCCChhhHHHHHhc-----------cCCccccEEEECCE
Confidence            368999999999999999999           88999999999995

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=97.68  E-value=4.7e-05  Score=68.31  Aligned_cols=36  Identities=31%  Similarity=0.314  Sum_probs=31.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.+++.
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~   62 (205)
T cd03226          27 EIIALTGKNGAGKTTLAKILAG-----------LIKESSGSILLNGK   62 (205)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           55678899988874

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=97.68  E-value=4.8e-05  Score=67.39  Aligned_cols=36  Identities=28%  Similarity=0.414  Sum_probs=31.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.+++.
T Consensus        19 e~~~i~G~nGsGKSTLl~~i~G-----------~~~~~~G~i~~~g~   54 (190)
T TIGR01166        19 EVLALLGANGAGKSTLLLHLNG-----------LLRPQSGAVLIDGE   54 (190)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCceeEEECCE
Confidence            4689999999999999999999           55677888888873

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=97.67  E-value=4.4e-05  Score=68.72  Aligned_cols=36  Identities=31%  Similarity=0.357  Sum_probs=31.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        28 ~~~~l~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   63 (211)
T cd03225          28 EFVLIVGPNGSGKSTLLRLLNG-----------LLGPTSGEVLVDGK   63 (211)
T ss_pred             cEEEEECCCCCCHHHHHHHHhc-----------CCCCCCceEEECCE
Confidence            4689999999999999999999           55677888888873

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=97.67  E-value=4.9e-05  Score=68.57  Aligned_cols=36  Identities=25%  Similarity=0.378  Sum_probs=31.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.+++.
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~G-----------~~~p~~G~i~~~g~   62 (213)
T cd03259          27 EFLALLGPSGCGKTTLLRLIAG-----------LERPDSGEILIDGR   62 (213)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CCCCCCeEEEECCE
Confidence            4689999999999999999999           55678899988874

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=97.66  E-value=5.3e-05  Score=67.87  Aligned_cols=36  Identities=28%  Similarity=0.308  Sum_probs=31.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        25 e~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   60 (206)
T TIGR03608        25 KMYAIIGESGSGKSTLLNIIGL-----------LEKFDSGQVYLNGK   60 (206)
T ss_pred             cEEEEECCCCCCHHHHHHHHhc-----------CCCCCCeEEEECCE
Confidence            4689999999999999999999           55678899888874

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=97.66  E-value=4.6e-05  Score=68.67  Aligned_cols=35  Identities=31%  Similarity=0.550  Sum_probs=30.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      .++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~G-----------l~~~~~G~i~~~g~   61 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILAT-----------LTPPSSGTIRIDGQ   61 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhC-----------CCCCCccEEEECCC
Confidence            689999999999999999999           45677888888874

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=97.65  E-value=5.5e-05  Score=68.64  Aligned_cols=36  Identities=31%  Similarity=0.450  Sum_probs=31.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.+++.
T Consensus        27 e~~~i~G~nGsGKSTLl~~i~G-----------~~~~~~G~i~~~g~   62 (220)
T cd03265          27 EIFGLLGPNGAGKTTTIKMLTT-----------LLKPTSGRATVAGH   62 (220)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           45677888888773

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.64  E-value=6.1e-05  Score=67.38  Aligned_cols=37  Identities=24%  Similarity=0.297  Sum_probs=32.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++..
T Consensus        28 e~~~l~G~nGsGKSTLl~~i~G-----------~~~~~~G~v~~~g~~   64 (200)
T PRK13540         28 GLLHLKGSNGAGKTTLLKLIAG-----------LLNPEKGEILFERQS   64 (200)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCCeeEEECCCc
Confidence            4689999999999999999999           556788999888743

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=97.64  E-value=6.2e-05  Score=63.87  Aligned_cols=35  Identities=34%  Similarity=0.582  Sum_probs=30.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD   48 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~   48 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.+++
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G-----------~~~~~~G~i~~~~   61 (144)
T cd03221          27 DRIGLVGRNGAGKSTLLKLIAG-----------ELEPDEGIVTWGS   61 (144)
T ss_pred             CEEEEECCCCCCHHHHHHHHcC-----------CCCCCceEEEECC
Confidence            4689999999999999999999           5567889998877

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=97.64  E-value=2.7e-05  Score=75.32  Aligned_cols=39  Identities=23%  Similarity=0.414  Sum_probs=34.4

Q ss_pred             EEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcccccc
Q psy2401           5 CGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHL   54 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l   54 (363)
                      ++|+||+|||||||+++|+|           -..|+.|.+.++|..+..+
T Consensus        34 ~~lLGPSGcGKTTlLR~IAG-----------fe~p~~G~I~l~G~~i~~l   72 (352)
T COG3842          34 VTLLGPSGCGKTTLLRMIAG-----------FEQPSSGEILLDGEDITDV   72 (352)
T ss_pred             EEEECCCCCCHHHHHHHHhC-----------CCCCCCceEEECCEECCCC
Confidence            68999999999999999999           6679999999999765544

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=97.64  E-value=5.6e-05  Score=68.19  Aligned_cols=36  Identities=25%  Similarity=0.358  Sum_probs=30.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.+++.
T Consensus        29 ~~~~l~G~nGsGKSTLl~~i~G-----------l~~~~~G~i~~~g~   64 (214)
T TIGR02673        29 EFLFLTGPSGAGKTTLLKLLYG-----------ALTPSRGQVRIAGE   64 (214)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCceEEECCE
Confidence            4689999999999999999999           44577888888773

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=97.64  E-value=6.1e-05  Score=67.80  Aligned_cols=36  Identities=28%  Similarity=0.377  Sum_probs=31.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.+++.
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   62 (210)
T cd03269          27 EIFGLLGPNGAGKTTTIRMILG-----------IILPDSGEVLFDGK   62 (210)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECCC
Confidence            4689999999999999999999           45678899998874

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=97.63  E-value=0.0025  Score=64.31  Aligned_cols=92  Identities=17%  Similarity=0.152  Sum_probs=52.4

Q ss_pred             cccEEEeccccccCC--C-----chHHHHHHH----HHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHH
Q psy2401         199 IKPIIFVANVKENGF--K-----NNLLLDQLK----IYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLN  267 (363)
Q Consensus       199 ~kp~i~v~Nk~d~~~--~-----~~~~~~~i~----~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~  267 (363)
                      ..|+++|++|+|.-.  .     .++..+.|+    .++-.+|..++.+|.+.+                      ..++
T Consensus       196 Gipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~yts~~~~----------------------~n~~  253 (472)
T PF05783_consen  196 GIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGASLIYTSVKEE----------------------KNLD  253 (472)
T ss_pred             CcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEEEeecccc----------------------ccHH
Confidence            579999999999521  0     134444444    444567888999998733                      3343


Q ss_pred             HHHHHHHHhCCCEEEEeCC--CCceEEEeecCCCCHHHhhhhhhcchh
Q psy2401         268 DLIRASFSLLDLRTYFTVG--KKEIRAWTIPNGTTAEQAAGIIHTDIK  313 (363)
Q Consensus       268 ~l~~~~~~~l~li~~ft~g--~~e~raw~~~~g~ta~~~A~~IHsD~~  313 (363)
                      .+.+-+...+--.+| +..  -.+..+..||.|.--...-+.+|..|.
T Consensus       254 ~L~~yi~h~l~~~~f-~~~~~vv~~d~ifIP~GwDs~~kI~il~e~f~  300 (472)
T PF05783_consen  254 LLYKYILHRLYGFPF-KTPAQVVERDAIFIPAGWDSWGKIRILRENFD  300 (472)
T ss_pred             HHHHHHHHHhccCCC-CCCceeecccccccCCCCCCHHhcCccccccc
Confidence            333333333221222 211  134579999999755544466665554

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 [].

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=97.63  E-value=5.6e-05  Score=69.09  Aligned_cols=36  Identities=28%  Similarity=0.472  Sum_probs=31.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.++|.
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~   62 (232)
T cd03218          27 EIVGLLGPNGAGKTTTFYMIVG-----------LVKPDSGKILLDGQ   62 (232)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CCCCCCcEEEECCE
Confidence            4689999999999999999999           55678888888874

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=97.63  E-value=6.5e-05  Score=67.75  Aligned_cols=36  Identities=33%  Similarity=0.375  Sum_probs=31.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.+++.
T Consensus        28 ~~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   63 (214)
T cd03292          28 EFVFLVGPSGAGKSTLLKLIYK-----------EELPTSGTIRVNGQ   63 (214)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           44577888888874

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=97.63  E-value=5.8e-05  Score=68.00  Aligned_cols=36  Identities=31%  Similarity=0.380  Sum_probs=31.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.+++.
T Consensus        27 ~~~~l~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   62 (213)
T cd03262          27 EVVVIIGPSGSGKSTLLRCINL-----------LEEPDSGTIIIDGL   62 (213)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCceEEECCE
Confidence            4689999999999999999999           45577888888873

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=97.63  E-value=5.9e-05  Score=68.39  Aligned_cols=36  Identities=25%  Similarity=0.327  Sum_probs=31.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.+++.
T Consensus        32 ~~~~i~G~nGsGKSTLl~~i~G-----------~~~~~~G~i~~~g~   67 (221)
T TIGR02211        32 EIVAIVGSSGSGKSTLLHLLGG-----------LDNPTSGEVLFNGQ   67 (221)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CCCCCCcEEEECCE
Confidence            4689999999999999999999           55678888888874

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=97.62  E-value=6e-05  Score=68.31  Aligned_cols=36  Identities=28%  Similarity=0.409  Sum_probs=31.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.+++.
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G-----------l~~~~~G~i~~~g~   64 (220)
T cd03263          29 EIFGLLGHNGAGKTTTLKMLTG-----------ELRPTSGTAYINGY   64 (220)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CCCCCCcEEEECCE
Confidence            3689999999999999999999           55678899888873

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=97.62  E-value=5.3e-05  Score=72.09  Aligned_cols=35  Identities=34%  Similarity=0.486  Sum_probs=32.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -+||+|+||||||||+++|+|           ...|+.|.+.+.|.
T Consensus        33 i~gllG~NGAGKTTllk~l~g-----------l~~p~~G~i~i~G~   67 (293)
T COG1131          33 IFGLLGPNGAGKTTLLKILAG-----------LLKPTSGEILVLGY   67 (293)
T ss_pred             EEEEECCCCCCHHHHHHHHhC-----------CcCCCceEEEEcCE
Confidence            489999999999999999999           77889999999884

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.62  E-value=6.5e-05  Score=66.93  Aligned_cols=36  Identities=22%  Similarity=0.301  Sum_probs=31.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           ...|+.|.+.+++.
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   62 (195)
T PRK13541         27 AITYIKGANGCGKSSLLRMIAG-----------IMQPSSGNIYYKNC   62 (195)
T ss_pred             cEEEEECCCCCCHHHHHHHHhc-----------CCCCCCcEEEECCc
Confidence            4689999999999999999999           55677899888874

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=97.61  E-value=6.9e-05  Score=67.99  Aligned_cols=36  Identities=28%  Similarity=0.370  Sum_probs=31.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.+++.
T Consensus        31 ~~~~i~G~nGsGKSTLl~~l~G-----------l~~~~~G~i~~~g~   66 (220)
T cd03293          31 EFVALVGPSGCGKSTLLRIIAG-----------LERPTSGEVLVDGE   66 (220)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           45577899888874

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=97.61  E-value=0.00083  Score=61.28  Aligned_cols=36  Identities=33%  Similarity=0.418  Sum_probs=32.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.+||+|++|||||||.++|.|           -..|..|.+.++|.
T Consensus        34 e~lgivGeSGsGKSTL~r~l~G-----------l~~p~~G~I~~~G~   69 (252)
T COG1124          34 ETLGIVGESGSGKSTLARLLAG-----------LEKPSSGSILLDGK   69 (252)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhc-----------ccCCCCceEEECCc
Confidence            4689999999999999999999           77889999999985

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=97.61  E-value=6.1e-05  Score=68.31  Aligned_cols=36  Identities=25%  Similarity=0.438  Sum_probs=31.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           ...|+.|.+.+++.
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~G-----------l~~~~~G~i~~~g~   62 (222)
T cd03224          27 EIVALLGRNGAGKTTLLKTIMG-----------LLPPRSGSIRFDGR   62 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHhC-----------CCCCCCceEEECCE
Confidence            4689999999999999999999           55678899888874

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=97.61  E-value=6.3e-05  Score=68.47  Aligned_cols=36  Identities=36%  Similarity=0.466  Sum_probs=31.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.+++.
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   67 (228)
T cd03257          32 ETLGLVGESGSGKSTLARAILG-----------LLKPTSGSIIFDGK   67 (228)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCceEEECCE
Confidence            4689999999999999999999           55678888888874

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.60  E-value=6.1e-05  Score=68.28  Aligned_cols=36  Identities=31%  Similarity=0.477  Sum_probs=32.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -|+|||++|||||||+++|.+           +.+|+.|.+.+++.+
T Consensus        32 ~VaiIG~SGaGKSTLLR~lng-----------l~d~t~G~i~~~g~~   67 (258)
T COG3638          32 MVAIIGPSGAGKSTLLRSLNG-----------LVDPTSGEILFNGVQ   67 (258)
T ss_pred             EEEEECCCCCcHHHHHHHHhc-----------ccCCCcceEEecccc
Confidence            589999999999999999999           889999999988853

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=97.60  E-value=7.2e-05  Score=68.53  Aligned_cols=36  Identities=25%  Similarity=0.307  Sum_probs=31.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.+++.
T Consensus        36 e~~~l~G~nGsGKSTLl~~l~G-----------l~~~~~G~i~~~g~   71 (233)
T PRK11629         36 EMMAIVGSSGSGKSTLLHLLGG-----------LDTPTSGDVIFNGQ   71 (233)
T ss_pred             cEEEEECCCCCCHHHHHHHHhc-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           55678899998884

>COG1101 PhnK ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=97.59  E-value=5.8e-05  Score=67.60  Aligned_cols=35  Identities=34%  Similarity=0.520  Sum_probs=31.7

Q ss_pred             EEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           5 CGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      |.++|.||+|||||+|+++|           ...|..|.+.+++.+
T Consensus        35 vtViGsNGAGKSTlln~iaG-----------~l~~t~G~I~Idg~d   69 (263)
T COG1101          35 VTVIGSNGAGKSTLLNAIAG-----------DLKPTSGQILIDGVD   69 (263)
T ss_pred             EEEEcCCCccHHHHHHHhhC-----------ccccCCceEEECcee
Confidence            67899999999999999999           788999999998853

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.59  E-value=7.2e-05  Score=65.91  Aligned_cols=36  Identities=31%  Similarity=0.366  Sum_probs=31.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   62 (182)
T cd03215          27 EIVGIAGLVGNGQTELAEALFG-----------LRPPASGEITLDGK   62 (182)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CCCCCCceEEECCE
Confidence            4689999999999999999999           55678888888873

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=97.59  E-value=6.4e-05  Score=67.82  Aligned_cols=36  Identities=33%  Similarity=0.445  Sum_probs=31.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        26 e~~~l~G~nGsGKSTLl~~l~G-----------~~~p~~G~i~~~g~   61 (213)
T cd03235          26 EFLAIVGPNGAGKSTLLKAILG-----------LLKPTSGSIRVFGK   61 (213)
T ss_pred             CEEEEECCCCCCHHHHHHHHcC-----------CCCCCCCEEEECCc
Confidence            4689999999999999999999           45677889888874

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.59  E-value=8.4e-05  Score=64.36  Aligned_cols=37  Identities=35%  Similarity=0.434  Sum_probs=31.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -.++|+|++|+|||||++.|+|           ...|..|.+.+++..
T Consensus        27 e~~~l~G~nGsGKSTLl~~i~G-----------~~~~~~G~v~~~g~~   63 (163)
T cd03216          27 EVHALLGENGAGKSTLMKILSG-----------LYKPDSGEILVDGKE   63 (163)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCeEEEECCEE
Confidence            4689999999999999999999           456778888888743

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=97.58  E-value=7.3e-05  Score=67.64  Aligned_cols=36  Identities=31%  Similarity=0.466  Sum_probs=31.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.+++.
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~G-----------l~~~~~G~i~~~g~   67 (218)
T cd03266          32 EVTGLLGPNGAGKTTTLRMLAG-----------LLEPDAGFATVDGF   67 (218)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CcCCCCceEEECCE
Confidence            4689999999999999999999           55678899988874

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=97.58  E-value=7.5e-05  Score=71.32  Aligned_cols=36  Identities=28%  Similarity=0.420  Sum_probs=32.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.+||+|+||||||||++.|+|           ...|..|.+.++|.
T Consensus        20 e~~~l~G~NGaGKSTLl~~l~G-----------l~~p~~G~i~~~g~   55 (302)
T TIGR01188        20 EVFGFLGPNGAGKTTTIRMLTT-----------LLRPTSGTARVAGY   55 (302)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           66788899999884

This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc.

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.58  E-value=8e-05  Score=67.40  Aligned_cols=36  Identities=25%  Similarity=0.298  Sum_probs=31.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        38 e~~~i~G~nGsGKSTLl~~i~G-----------~~~~~~G~i~~~g~   73 (214)
T PRK13543         38 EALLVQGDNGAGKTTLLRVLAG-----------LLHVESGQIQIDGK   73 (214)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhC-----------CCCCCCeeEEECCE
Confidence            4789999999999999999999           55678899988874

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=97.58  E-value=8.5e-05  Score=65.21  Aligned_cols=36  Identities=31%  Similarity=0.440  Sum_probs=30.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           -..|..|.+.+++.
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   62 (178)
T cd03229          27 EIVALLGPSGSGKSTLLRCIAG-----------LEEPDSGSILIDGE   62 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           44567888888773

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=97.58  E-value=7.7e-05  Score=68.68  Aligned_cols=36  Identities=31%  Similarity=0.494  Sum_probs=31.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.++|.
T Consensus        29 e~~~l~G~nGsGKSTLl~~l~G-----------l~~~~~G~i~~~g~   64 (243)
T TIGR02315        29 EFVAIIGPSGAGKSTLLRCINR-----------LVEPSSGSILLEGT   64 (243)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CcCCCccEEEECCE
Confidence            4689999999999999999999           55677888888874

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=97.58  E-value=8.1e-05  Score=68.47  Aligned_cols=36  Identities=25%  Similarity=0.363  Sum_probs=31.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.+++.
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G-----------l~~~~~G~i~~~g~   64 (239)
T cd03296          29 ELVALLGPSGSGKTTLLRLIAG-----------LERPDSGTILFGGE   64 (239)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           45577899988874

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=97.57  E-value=8.1e-05  Score=66.45  Aligned_cols=36  Identities=22%  Similarity=0.364  Sum_probs=30.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   62 (198)
T TIGR01189        27 EALQVTGPNGIGKTTLLRILAG-----------LLRPDSGEVRWNGT   62 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CCCCCccEEEECCE
Confidence            4689999999999999999999           44577888888874

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=97.57  E-value=7.5e-05  Score=68.33  Aligned_cols=36  Identities=31%  Similarity=0.429  Sum_probs=31.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.+++.
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   67 (233)
T cd03258          32 EIFGIIGRSGAGKSTLIRCING-----------LERPTSGSVLVDGT   67 (233)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCceEEECCE
Confidence            4689999999999999999999           45677888888873

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>KOG2486|consensus

Probab=97.57  E-value=0.00038  Score=64.53  Aligned_cols=85  Identities=21%  Similarity=0.162  Sum_probs=51.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC--cc-ccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccC-
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK--IS-AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVS-   78 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~--~~-~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~-   78 (363)
                      ..+++.|.+|+|||+|+|.++...  +. .+..|+.|...+...  +.                  -.+.++|.||+.. 
T Consensus       137 pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f~--v~------------------~~~~~vDlPG~~~a  196 (320)
T KOG2486|consen  137 PELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFH--VG------------------KSWYEVDLPGYGRA  196 (320)
T ss_pred             ceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeeee--cc------------------ceEEEEecCCcccc
Confidence            578999999999999999999763  22 233566665544332  22                  4688999999542 


Q ss_pred             ----CCCc-ccchhhHHHhhccccCEEEEEEecc
Q psy2401          79 ----GASK-GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        79 ----~~~~-~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                          .+.. +..+...++..-++--.+.+.+|++
T Consensus       197 ~y~~~~~~d~~~~t~~Y~leR~nLv~~FLLvd~s  230 (320)
T KOG2486|consen  197 GYGFELPADWDKFTKSYLLERENLVRVFLLVDAS  230 (320)
T ss_pred             cCCccCcchHhHhHHHHHHhhhhhheeeeeeecc
Confidence                1111 2223334443334444556667764

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=97.57  E-value=7.6e-05  Score=69.52  Aligned_cols=36  Identities=25%  Similarity=0.313  Sum_probs=31.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.++|.
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~   63 (255)
T PRK11248         28 ELLVVLGPSGCGKTTLLNLIAG-----------FVPYQHGSITLDGK   63 (255)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCcEEEECCE
Confidence            4689999999999999999999           55677888888774

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=97.57  E-value=8.6e-05  Score=66.73  Aligned_cols=36  Identities=28%  Similarity=0.434  Sum_probs=31.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~G-----------l~~~~~G~i~~~g~   62 (208)
T cd03268          27 EIYGFLGPNGAGKTTTMKIILG-----------LIKPDSGEITFDGK   62 (208)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CcCCCceEEEECCC
Confidence            4689999999999999999999           55678899988874

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>PRK10908 cell division protein FtsE; Provisional

Probab=97.57  E-value=8.7e-05  Score=67.43  Aligned_cols=36  Identities=28%  Similarity=0.294  Sum_probs=31.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.+++.
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   64 (222)
T PRK10908         29 EMAFLTGHSGAGKSTLLKLICG-----------IERPSAGKIWFSGH   64 (222)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           45678899888874

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=97.57  E-value=7.4e-05  Score=68.45  Aligned_cols=36  Identities=33%  Similarity=0.519  Sum_probs=31.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.+++.
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G-----------l~~~~~G~i~~~g~   62 (236)
T cd03219          27 EIHGLIGPNGAGKTTLFNLISG-----------FLRPTSGSVLFDGE   62 (236)
T ss_pred             cEEEEECCCCCCHHHHHHHHcC-----------CCCCCCceEEECCE
Confidence            4689999999999999999999           45577888888774

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=97.57  E-value=8.7e-05  Score=66.88  Aligned_cols=36  Identities=25%  Similarity=0.322  Sum_probs=31.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G-----------~~~~~~G~v~~~g~   62 (213)
T cd03301          27 EFVVLLGPSGCGKTTTLRMIAG-----------LEEPTSGRIYIGGR   62 (213)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           45677888888874

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=97.56  E-value=8.8e-05  Score=68.09  Aligned_cols=36  Identities=36%  Similarity=0.438  Sum_probs=31.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.+++.
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G-----------~~~p~~G~i~~~g~   63 (236)
T TIGR03864        28 EFVALLGPNGAGKSTLFSLLTR-----------LYVAQEGQISVAGH   63 (236)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CcCCCceEEEECCE
Confidence            4689999999999999999999           45678899988773

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=97.56  E-value=8.4e-05  Score=67.71  Aligned_cols=36  Identities=33%  Similarity=0.433  Sum_probs=30.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceee-----cceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTI-----EPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~-----~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ..     .|..|.+.+++.
T Consensus        27 e~~~i~G~nGsGKSTLl~~i~G-----------~~~~~~~~~~~G~i~~~g~   67 (227)
T cd03260          27 EITALIGPSGCGKSTLLRLLNR-----------LNDLIPGAPDEGEVLLDGK   67 (227)
T ss_pred             CEEEEECCCCCCHHHHHHHHHh-----------hcccccCCCCCeEEEECCE
Confidence            4689999999999999999999           33     577899888874

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>COG1127 Ttg2A ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=97.56  E-value=5.6e-05  Score=68.72  Aligned_cols=42  Identities=24%  Similarity=0.412  Sum_probs=36.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcccccccc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNN   56 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~   56 (363)
                      -.+++|++|+|||||++.+.|           ...|..|.+.+.|..+..+++
T Consensus        36 i~~iiGgSGsGKStlLr~I~G-----------ll~P~~GeI~i~G~~i~~ls~   77 (263)
T COG1127          36 ILAILGGSGSGKSTLLRLILG-----------LLRPDKGEILIDGEDIPQLSE   77 (263)
T ss_pred             EEEEECCCCcCHHHHHHHHhc-----------cCCCCCCeEEEcCcchhccCH
Confidence            479999999999999999999           888999999999976655544

>KOG4423|consensus

Probab=97.56  E-value=4.5e-06  Score=72.50  Aligned_cols=158  Identities=17%  Similarity=0.123  Sum_probs=92.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .++-++|.-|+|||+++....-....-.-......+.......|++..+              ..+++||++|..++.. 
T Consensus        26 ~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~--------------vRlqLwdIagQerfg~-   90 (229)
T KOG4423|consen   26 FKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTI--------------VRLQLWDIAGQERFGN-   90 (229)
T ss_pred             hhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHH--------------HHHHHhcchhhhhhcc-
Confidence            4678999999999999988864311100001111223334456666433              5688999999875443 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            ...-+.+.+.+..+|+|.+....       -+|                                         
T Consensus        91 ------mtrVyykea~~~~iVfdvt~s~t-------fe~-----------------------------------------  116 (229)
T KOG4423|consen   91 ------MTRVYYKEAHGAFIVFDVTRSLT-------FEP-----------------------------------------  116 (229)
T ss_pred             ------eEEEEecCCcceEEEEEcccccc-------ccH-----------------------------------------
Confidence                  22234478899999999864210       000                                         


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCC-CchHHHHHHHHHHhcCCC-cEEEeeHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGF-KNNLLLDQLKIYAHNQNI-PIIIICAKL  240 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~-~~~~~~~~i~~~~~~~~~-~~i~~sa~~  240 (363)
                           +.+|-.+-....+             +.+-+..|++..+||.|..- ..++....+.++.+++|+ ....+|++-
T Consensus       117 -----~skwkqdldsk~q-------------Lpng~Pv~~vllankCd~e~~a~~~~~~~~d~f~kengf~gwtets~Ke  178 (229)
T KOG4423|consen  117 -----VSKWKQDLDSKLQ-------------LPNGTPVPCVLLANKCDQEKSAKNEATRQFDNFKKENGFEGWTETSAKE  178 (229)
T ss_pred             -----HHHHHHhccCccc-------------CCCCCcchheeccchhccChHhhhhhHHHHHHHHhccCccceeeecccc
Confidence                 1111111000111             12226778899999999642 123344667777788875 478899996


Q ss_pred             HHHHhcC
Q psy2401         241 EEEISDL  247 (363)
Q Consensus       241 e~~i~el  247 (363)
                      +.++.|.
T Consensus       179 nkni~Ea  185 (229)
T KOG4423|consen  179 NKNIPEA  185 (229)
T ss_pred             ccChhHH
Confidence            6665443

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=97.56  E-value=8.9e-05  Score=67.61  Aligned_cols=36  Identities=28%  Similarity=0.327  Sum_probs=31.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        37 e~~~i~G~nGsGKSTLl~~i~G-----------l~~p~~G~i~~~g~   72 (228)
T PRK10584         37 ETIALIGESGSGKSTLLAILAG-----------LDDGSSGEVSLVGQ   72 (228)
T ss_pred             CEEEEECCCCCCHHHHHHHHHc-----------CCCCCCeeEEECCE
Confidence            4689999999999999999999           55678899888874

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=97.56  E-value=7.8e-05  Score=68.07  Aligned_cols=36  Identities=25%  Similarity=0.355  Sum_probs=31.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.+++.
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   62 (230)
T TIGR03410        27 EVTCVLGRNGVGKTTLLKTLMG-----------LLPVKSGSIRLDGE   62 (230)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCCEEEECCE
Confidence            4689999999999999999999           55678899888873

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=97.56  E-value=8.8e-05  Score=65.24  Aligned_cols=36  Identities=33%  Similarity=0.515  Sum_probs=31.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        26 ~~~~l~G~nGsGKStLl~~i~G-----------~~~~~~G~v~~~g~   61 (180)
T cd03214          26 EIVGILGPNGAGKSTLLKTLAG-----------LLKPSSGEILLDGK   61 (180)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCcEEEECCE
Confidence            4689999999999999999999           55678899988873

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=97.54  E-value=9.3e-05  Score=66.28  Aligned_cols=36  Identities=22%  Similarity=0.240  Sum_probs=30.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   62 (201)
T cd03231          27 EALQVTGPNGSGKTTLLRILAG-----------LSPPLAGRVLLNGG   62 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCcEEEECCE
Confidence            4799999999999999999999           44577788888773

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>PRK15056 manganese/iron transporter ATP-binding protein; Provisional

Probab=97.54  E-value=9.4e-05  Score=69.52  Aligned_cols=37  Identities=32%  Similarity=0.442  Sum_probs=31.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.++|..
T Consensus        34 e~~~l~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~~   70 (272)
T PRK15056         34 SIAALVGVNGSGKSTLFKALMG-----------FVRLASGKISILGQP   70 (272)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECCEE
Confidence            4689999999999999999999           556788999888843

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=97.54  E-value=9.1e-05  Score=68.18  Aligned_cols=36  Identities=28%  Similarity=0.431  Sum_probs=31.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        30 e~~~l~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   65 (241)
T PRK10895         30 EIVGLLGPNGAGKTTTFYMVVG-----------IVPRDAGNIIIDDE   65 (241)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CCCCCCcEEEECCE
Confidence            4689999999999999999999           45677888888874

>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP

Probab=97.54  E-value=9.6e-05  Score=66.56  Aligned_cols=36  Identities=25%  Similarity=0.345  Sum_probs=31.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.+++.
T Consensus        25 e~~~l~G~nGsGKSTLl~~l~g-----------l~~~~~G~i~~~g~   60 (211)
T cd03298          25 EITAIVGPSGSGKSTLLNLIAG-----------FETPQSGRVLINGV   60 (211)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCceEEECCE
Confidence            4689999999999999999999           45677888888874

Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.53  E-value=9.7e-05  Score=66.47  Aligned_cols=36  Identities=25%  Similarity=0.355  Sum_probs=30.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   64 (207)
T PRK13539         29 EALVLTGPNGSGKTTLLRLIAG-----------LLPPAAGTIKLDGG   64 (207)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCceEEECCE
Confidence            4689999999999999999999           44577888888773

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=97.53  E-value=9.6e-05  Score=67.90  Aligned_cols=36  Identities=33%  Similarity=0.480  Sum_probs=31.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.+++.
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G-----------l~~~~~G~i~~~g~   63 (241)
T cd03256          28 EFVALIGPSGAGKSTLLRCLNG-----------LVEPTSGSVLIDGT   63 (241)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CcCCCCceEEECCE
Confidence            4689999999999999999999           44577888888874

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13641 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.53  E-value=9.5e-05  Score=70.08  Aligned_cols=36  Identities=28%  Similarity=0.457  Sum_probs=32.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.+++.
T Consensus        34 e~~~iiG~NGaGKSTLl~~l~G-----------l~~p~~G~i~~~g~   69 (287)
T PRK13641         34 SFVALVGHTGSGKSTLMQHFNA-----------LLKPSSGTITIAGY   69 (287)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCCcEEEECCE
Confidence            4689999999999999999999           66788999999884

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.53  E-value=0.0001  Score=66.07  Aligned_cols=36  Identities=36%  Similarity=0.446  Sum_probs=32.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+||+|||||||+++|.+           .-.|+.|.+.++|.
T Consensus        29 evv~iiGpSGSGKSTlLRclN~-----------LE~~~~G~I~i~g~   64 (240)
T COG1126          29 EVVVIIGPSGSGKSTLLRCLNG-----------LEEPDSGSITVDGE   64 (240)
T ss_pred             CEEEEECCCCCCHHHHHHHHHC-----------CcCCCCceEEECCE
Confidence            3689999999999999999998           66789999999884

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=97.52  E-value=9.7e-05  Score=67.63  Aligned_cols=36  Identities=33%  Similarity=0.427  Sum_probs=31.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.++|.
T Consensus        12 e~~~i~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~   47 (230)
T TIGR01184        12 EFISLIGHSGCGKSTLLNLISG-----------LAQPTSGGVILEGK   47 (230)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCceEEECCE
Confidence            4689999999999999999999           55678899988874

This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.52  E-value=9.4e-05  Score=69.44  Aligned_cols=36  Identities=36%  Similarity=0.521  Sum_probs=31.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.+++.
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~   63 (271)
T PRK13638         28 PVTGLVGANGCGKSTLFMNLSG-----------LLRPQKGAVLWQGK   63 (271)
T ss_pred             CEEEEECCCCCCHHHHHHHHcC-----------CCCCCccEEEECCE
Confidence            4689999999999999999999           55688899988874

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=97.52  E-value=0.00011  Score=67.62  Aligned_cols=35  Identities=29%  Similarity=0.489  Sum_probs=31.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD   48 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~   48 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++
T Consensus        48 e~~~i~G~NGsGKSTLl~~i~G-----------l~~p~~G~i~~~g   82 (236)
T cd03267          48 EIVGFIGPNGAGKTTTLKILSG-----------LLQPTSGEVRVAG   82 (236)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CcCCCceEEEECC
Confidence            4689999999999999999999           5567889988877

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.

>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI

Probab=97.52  E-value=0.0001  Score=70.39  Aligned_cols=36  Identities=36%  Similarity=0.454  Sum_probs=31.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.+||+|+||||||||++.|+|           ...|..|.+.++|.
T Consensus        31 e~~~l~G~NGaGKSTLl~~l~G-----------l~~p~~G~i~~~g~   66 (303)
T TIGR01288        31 ECFGLLGPNGAGKSTIARMLLG-----------MISPDRGKITVLGE   66 (303)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           55678899988874

This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=97.52  E-value=0.00011  Score=67.70  Aligned_cols=36  Identities=25%  Similarity=0.380  Sum_probs=31.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   64 (242)
T PRK11124         29 ETLVLLGPSGAGKSSLLRVLNL-----------LEMPRSGTLNIAGN   64 (242)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           55678899998884

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.52  E-value=0.0001  Score=66.15  Aligned_cols=36  Identities=19%  Similarity=0.278  Sum_probs=31.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        28 e~~~l~G~nGsGKSTLl~~l~G-----------~~~p~~G~v~~~g~   63 (204)
T PRK13538         28 ELVQIEGPNGAGKTSLLRILAG-----------LARPDAGEVLWQGE   63 (204)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CCCCCCcEEEECCE
Confidence            4689999999999999999999           45577888888773

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=97.51  E-value=0.00012  Score=64.04  Aligned_cols=36  Identities=33%  Similarity=0.513  Sum_probs=30.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           -..|..|.+.+++.
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G-----------~~~~~~G~i~~~g~   62 (173)
T cd03230          27 EIYGLLGPNGAGKTTLIKIILG-----------LLKPDSGEIKVLGK   62 (173)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CCCCCCeEEEECCE
Confidence            4689999999999999999999           44567888888773

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.51  E-value=0.0001  Score=67.88  Aligned_cols=36  Identities=28%  Similarity=0.454  Sum_probs=31.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.+++.
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~   65 (241)
T PRK14250         30 AIYTIVGPSGAGKSTLIKLINR-----------LIDPTEGSILIDGV   65 (241)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCcEEEECCE
Confidence            4689999999999999999999           45678899988874

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=97.51  E-value=0.00011  Score=67.51  Aligned_cols=36  Identities=31%  Similarity=0.281  Sum_probs=31.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.+++.
T Consensus        28 e~~~l~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   63 (240)
T PRK09493         28 EVVVIIGPSGSGKSTLLRCINK-----------LEEITSGDLIVDGL   63 (240)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           55688899998884

>PRK13652 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.51  E-value=0.00011  Score=69.29  Aligned_cols=36  Identities=28%  Similarity=0.505  Sum_probs=32.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.++|.
T Consensus        31 e~~~i~G~NGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~   66 (277)
T PRK13652         31 SRIAVIGPNGAGKSTLFRHFNG-----------ILKPTSGSVLIRGE   66 (277)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           66788999998884

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=97.51  E-value=0.00011  Score=71.44  Aligned_cols=36  Identities=31%  Similarity=0.388  Sum_probs=32.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.+||+|+||||||||++.|+|           ...|+.|.+.++|.
T Consensus        68 ei~gLlGpNGaGKSTLl~~L~G-----------l~~p~~G~i~i~G~  103 (340)
T PRK13536         68 ECFGLLGPNGAGKSTIARMILG-----------MTSPDAGKITVLGV  103 (340)
T ss_pred             CEEEEECCCCCCHHHHHHHHHc-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           66788999999884

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=97.51  E-value=0.00011  Score=70.38  Aligned_cols=36  Identities=28%  Similarity=0.400  Sum_probs=32.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.+||+|+||||||||++.|+|           ...|+.|.+.++|.
T Consensus        34 ei~gllGpNGaGKSTLl~~l~G-----------l~~p~~G~v~i~G~   69 (306)
T PRK13537         34 ECFGLLGPNGAGKTTTLRMLLG-----------LTHPDAGSISLCGE   69 (306)
T ss_pred             cEEEEECCCCCCHHHHHHHHhc-----------CCCCCceEEEECCE
Confidence            3589999999999999999999           66788999999884

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=97.51  E-value=0.00011  Score=67.86  Aligned_cols=36  Identities=31%  Similarity=0.454  Sum_probs=31.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.+++.
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   65 (250)
T PRK11264         30 EVVAIIGPSGSGKTTLLRCINL-----------LEQPEAGTIRVGDI   65 (250)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCCeEEEECCE
Confidence            4689999999999999999999           45577888888873

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=97.50  E-value=0.00011  Score=67.75  Aligned_cols=36  Identities=31%  Similarity=0.387  Sum_probs=31.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.+++.
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   63 (242)
T cd03295          28 EFLVLIGPSGSGKTTTMKMINR-----------LIEPTSGEIFIDGE   63 (242)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCCceEEECCe
Confidence            4689999999999999999999           45677888888874

ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK01889 GTPase RsgA; Reviewed

Probab=97.50  E-value=0.00011  Score=71.84  Aligned_cols=23  Identities=48%  Similarity=0.546  Sum_probs=21.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      .+++++|.||+|||||+|+|++.
T Consensus       196 ~~~~lvG~sgvGKStLin~L~g~  218 (356)
T PRK01889        196 KTVALLGSSGVGKSTLVNALLGE  218 (356)
T ss_pred             CEEEEECCCCccHHHHHHHHHHh
Confidence            47999999999999999999983

>PRK13637 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.50  E-value=0.00011  Score=69.72  Aligned_cols=36  Identities=36%  Similarity=0.474  Sum_probs=32.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.+||+|+||+|||||+++|+|           ...|+.|.+.++|.
T Consensus        34 e~~~i~G~nGaGKSTLl~~l~G-----------l~~p~~G~i~~~g~   69 (287)
T PRK13637         34 EFVGLIGHTGSGKSTLIQHLNG-----------LLKPTSGKIIIDGV   69 (287)
T ss_pred             CEEEEECCCCCcHHHHHHHHhc-----------CCCCCccEEEECCE
Confidence            4699999999999999999999           66788999999884

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=97.50  E-value=0.0001  Score=66.56  Aligned_cols=35  Identities=29%  Similarity=0.475  Sum_probs=30.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      .++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        25 ~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   59 (214)
T cd03297          25 VTGIFGASGAGKSTLLRCIAG-----------LEKPDGGTIVLNGT   59 (214)
T ss_pred             eEEEECCCCCCHHHHHHHHhC-----------CCCCCCceEEECCE
Confidence            579999999999999999999           55677888888773

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=97.50  E-value=0.00011  Score=67.06  Aligned_cols=36  Identities=25%  Similarity=0.308  Sum_probs=30.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        34 e~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   69 (225)
T PRK10247         34 EFKLITGPSGCGKSTLLKIVAS-----------LISPTSGTLLFEGE   69 (225)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------ccCCCCCeEEECCE
Confidence            4689999999999999999999           44577888888773

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=97.50  E-value=0.00011  Score=67.08  Aligned_cols=36  Identities=28%  Similarity=0.449  Sum_probs=31.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.+++.
T Consensus        30 ~~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   65 (229)
T cd03254          30 ETVAIVGPTGAGKTTLINLLMR-----------FYDPQKGQILIDGI   65 (229)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CcCCCCCEEEECCE
Confidence            4689999999999999999999           45577888888874

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.49  E-value=0.00012  Score=68.69  Aligned_cols=36  Identities=19%  Similarity=0.191  Sum_probs=31.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.++|.
T Consensus        36 e~~~I~G~nGsGKSTLl~~i~G-----------l~~~~~G~i~~~g~   71 (269)
T PRK13648         36 QWTSIVGHNGSGKSTIAKLMIG-----------IEKVKSGEIFYNNQ   71 (269)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           55678899988874

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=97.49  E-value=0.00011  Score=68.49  Aligned_cols=36  Identities=31%  Similarity=0.537  Sum_probs=31.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        33 e~~~i~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~   68 (258)
T PRK11701         33 EVLGIVGESGSGKTTLLNALSA-----------RLAPDAGEVHYRMR   68 (258)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCCEEEECCc
Confidence            4689999999999999999999           55678888888873

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=97.49  E-value=0.00011  Score=67.19  Aligned_cols=36  Identities=28%  Similarity=0.397  Sum_probs=31.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.++|.
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~   64 (234)
T cd03251          29 ETVALVGPSGSGKSTLVNLIPR-----------FYDVDSGRILIDGH   64 (234)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------cccCCCCEEEECCE
Confidence            4689999999999999999999           55678888888874

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.49  E-value=0.00012  Score=69.08  Aligned_cols=36  Identities=31%  Similarity=0.412  Sum_probs=31.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.+++.
T Consensus        34 e~~~l~G~nGsGKSTLl~~i~G-----------l~~p~~G~i~~~g~   69 (280)
T PRK13649         34 SYTAFIGHTGSGKSTIMQLLNG-----------LHVPTQGSVRVDDT   69 (280)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECCE
Confidence            3689999999999999999999           55678899998874

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=97.49  E-value=0.00011  Score=68.18  Aligned_cols=37  Identities=35%  Similarity=0.468  Sum_probs=32.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.+++..
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~G-----------l~~~~~G~i~~~g~~   68 (255)
T PRK11300         32 EIVSLIGPNGAGKTTVFNCLTG-----------FYKPTGGTILLRGQH   68 (255)
T ss_pred             eEEEEECCCCCCHHHHHHHHhC-----------CcCCCcceEEECCEE
Confidence            4689999999999999999999           556788999988843

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=97.49  E-value=0.00011  Score=67.64  Aligned_cols=36  Identities=22%  Similarity=0.333  Sum_probs=31.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.+++.
T Consensus        29 e~~~l~G~nGsGKSTLl~~l~G-----------~~~p~~G~i~~~g~   64 (242)
T TIGR03411        29 ELRVIIGPNGAGKTTMMDVITG-----------KTRPDEGSVLFGGT   64 (242)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CCCCCCCeEEECCe
Confidence            4689999999999999999999           55678899988874

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.49  E-value=0.00012  Score=64.22  Aligned_cols=36  Identities=36%  Similarity=0.500  Sum_probs=30.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G-----------~~~~~~G~i~~~g~   64 (178)
T cd03247          29 EKIALLGRSGSGKSTLLQLLTG-----------DLKPQQGEITLDGV   64 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------cCCCCCCEEEECCE
Confidence            4689999999999999999999           44567788888773

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=97.48  E-value=0.00013  Score=66.55  Aligned_cols=36  Identities=36%  Similarity=0.565  Sum_probs=31.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.+++.
T Consensus        49 e~~~i~G~nGsGKSTLl~~l~G-----------~~~p~~G~i~~~g~   84 (224)
T cd03220          49 ERIGLIGRNGAGKSTLLRLLAG-----------IYPPDSGTVTVRGR   84 (224)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           45678899988873

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>KOG3886|consensus

Probab=97.48  E-value=5e-05  Score=68.40  Aligned_cols=90  Identities=18%  Similarity=0.126  Sum_probs=61.1

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCC
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      |-.||.|+|.+|||||++=..+... .+.-...+|.|++...+++.+-|.                -.+++||.-|...+
T Consensus         3 ~~kKvlLMGrsGsGKsSmrsiiF~ny~a~D~~rlg~tidveHsh~RflGn----------------l~LnlwDcGgqe~f   66 (295)
T KOG3886|consen    3 MKKKVLLMGRSGSGKSSMRSIIFANYIARDTRRLGATIDVEHSHVRFLGN----------------LVLNLWDCGGQEEF   66 (295)
T ss_pred             ccceEEEeccCCCCccccchhhhhhhhhhhhhccCCcceeeehhhhhhhh----------------heeehhccCCcHHH
Confidence            4578999999999999986666532 222234467788888888877764                56889999886422


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ...  .+..+--...++++++++|.|++.
T Consensus        67 men--~~~~q~d~iF~nV~vli~vFDves   93 (295)
T KOG3886|consen   67 MEN--YLSSQEDNIFRNVQVLIYVFDVES   93 (295)
T ss_pred             HHH--HHhhcchhhheeheeeeeeeeccc
Confidence            110  000011234688999999999964

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=97.48  E-value=0.00011  Score=68.05  Aligned_cols=35  Identities=29%  Similarity=0.515  Sum_probs=30.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD   48 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~   48 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.+++
T Consensus        26 e~~~i~G~NGsGKSTLlk~L~G-----------~~~p~~G~i~~~g   60 (246)
T cd03237          26 EVIGILGPNGIGKTTFIKMLAG-----------VLKPDEGDIEIEL   60 (246)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCcCCCCeEEECC
Confidence            4689999999999999999999           5567788888776

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK15112 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional

Probab=97.48  E-value=0.00011  Score=68.75  Aligned_cols=36  Identities=36%  Similarity=0.476  Sum_probs=31.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        40 e~~~i~G~NGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~   75 (267)
T PRK15112         40 QTLAIIGENGSGKSTLAKMLAG-----------MIEPTSGELLIDDH   75 (267)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhC-----------CCCCCCCEEEECCE
Confidence            4689999999999999999999           55678899888873

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=97.48  E-value=0.00013  Score=66.22  Aligned_cols=36  Identities=33%  Similarity=0.482  Sum_probs=31.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~~~   62 (223)
T TIGR03740        27 SVYGLLGPNGAGKSTLLKMITG-----------ILRPTSGEIIFDGH   62 (223)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           45678888888773

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>PRK13646 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.48  E-value=0.00012  Score=69.36  Aligned_cols=36  Identities=28%  Similarity=0.496  Sum_probs=31.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           -..|+.|.+.++|.
T Consensus        34 e~~~i~G~nGsGKSTLl~~L~G-----------l~~p~~G~i~~~g~   69 (286)
T PRK13646         34 KYYAIVGQTGSGKSTLIQNINA-----------LLKPTTGTVTVDDI   69 (286)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCCcEEEECCE
Confidence            4689999999999999999999           55678899988874

>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1

Probab=97.48  E-value=0.00012  Score=67.23  Aligned_cols=36  Identities=28%  Similarity=0.411  Sum_probs=31.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.+++.
T Consensus        30 e~~~l~G~nGsGKSTLl~~i~G-----------~~~~~~G~i~~~g~   65 (238)
T cd03249          30 KTVALVGSSGCGKSTVVSLLER-----------FYDPTSGEILLDGV   65 (238)
T ss_pred             CEEEEEeCCCCCHHHHHHHHhc-----------cCCCCCCEEEECCE
Confidence            4689999999999999999999           45677888888874

In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=97.48  E-value=0.00011  Score=68.76  Aligned_cols=36  Identities=36%  Similarity=0.466  Sum_probs=31.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.+++.
T Consensus        38 e~~~i~G~nGsGKSTLl~~l~G-----------l~~~~~G~i~~~g~   73 (265)
T PRK10575         38 KVTGLIGHNGSGKSTLLKMLGR-----------HQPPSEGEILLDAQ   73 (265)
T ss_pred             CEEEEECCCCCCHHHHHHHHcC-----------CCCCCCCEEEECCE
Confidence            4689999999999999999999           45677889888874

>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=97.47  E-value=0.00012  Score=67.28  Aligned_cols=36  Identities=31%  Similarity=0.335  Sum_probs=31.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.+++.
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~G-----------~~~p~~G~i~~~g~   67 (237)
T PRK11614         32 EIVTLIGANGAGKTTLLGTLCG-----------DPRATSGRIVFDGK   67 (237)
T ss_pred             cEEEEECCCCCCHHHHHHHHcC-----------CCCCCCceEEECCE
Confidence            4689999999999999999999           55677888888874

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=97.47  E-value=0.00013  Score=67.61  Aligned_cols=36  Identities=33%  Similarity=0.393  Sum_probs=31.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.+++.
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   62 (252)
T TIGR03005        27 EKVALIGPSGSGKSTILRILMT-----------LEPIDEGQIQVEGE   62 (252)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           55677888888873

Members of this family are the ATP-binding protein of a conserved four gene ABC transporter operon found next to ectoine unilization operons and ectoine biosynthesis operons. Ectoine is a compatible solute that protects enzymes from high osmolarity. It is released by some species in response to hypoosmotic shock, and it is taken up by a number of bacteria as a compatible solute or for consumption. This family shows strong sequence similiarity to a number of amino acid ABC transporter ATP-binding proteins.

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=97.47  E-value=0.00013  Score=63.69  Aligned_cols=35  Identities=26%  Similarity=0.382  Sum_probs=30.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD   48 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~   48 (363)
                      -.++|+|++|+|||||++.|+|           -..|..|.+.+++
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G-----------~~~~~~G~i~~~g   63 (173)
T cd03246          29 ESLAIIGPSGSGKSTLARLILG-----------LLRPTSGRVRLDG   63 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHh-----------ccCCCCCeEEECC
Confidence            4689999999999999999999           4457788888877

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=97.47  E-value=0.00012  Score=66.99  Aligned_cols=36  Identities=25%  Similarity=0.386  Sum_probs=31.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.+++.
T Consensus        28 e~~~l~G~nGsGKSTLl~~i~G-----------l~~~~~G~v~~~g~   63 (236)
T cd03253          28 KKVAIVGPSGSGKSTILRLLFR-----------FYDVSSGSILIDGQ   63 (236)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------ccCCCCCEEEECCE
Confidence            4689999999999999999999           45677888888874

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=97.47  E-value=0.00013  Score=68.44  Aligned_cols=36  Identities=31%  Similarity=0.514  Sum_probs=31.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.++|.
T Consensus        51 e~~~l~G~nGsGKSTLl~~L~G-----------l~~p~~G~i~i~g~   86 (269)
T cd03294          51 EIFVIMGLSGSGKSTLLRCINR-----------LIEPTSGKVLIDGQ   86 (269)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCCeEEEECCE
Confidence            4689999999999999999999           55677899888874

This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02769 nickel_nikE nickel import ATP-binding protein NikE

Probab=97.47  E-value=0.00013  Score=68.36  Aligned_cols=36  Identities=31%  Similarity=0.422  Sum_probs=31.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        38 e~~~i~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~   73 (265)
T TIGR02769        38 ETVGLLGRSGCGKSTLARLLLG-----------LEKPAQGTVSFRGQ   73 (265)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCcEEEECCE
Confidence            4689999999999999999999           55678899988873

This family represents the NikE subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase.

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=97.47  E-value=0.00013  Score=65.83  Aligned_cols=37  Identities=38%  Similarity=0.555  Sum_probs=31.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      +-.++|+|+||+|||||+++|+|           ...|..|.+.+++.
T Consensus        24 Ge~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   60 (213)
T TIGR01277        24 GEIVAIMGPSGAGKSTLLNLIAG-----------FIEPASGSIKVNDQ   60 (213)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc-----------CCCCCCcEEEECCE
Confidence            34689999999999999999999           55677888888874

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=97.47  E-value=0.00014  Score=67.91  Aligned_cols=35  Identities=26%  Similarity=0.333  Sum_probs=30.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD   48 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~   48 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.+++
T Consensus        39 e~~~I~G~NGsGKSTLlk~l~G-----------l~~p~~G~i~~~g   73 (257)
T PRK11247         39 QFVAVVGRSGCGKSTLLRLLAG-----------LETPSAGELLAGT   73 (257)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCCeEEEECC
Confidence            4689999999999999999999           4557788887766

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=97.46  E-value=0.00013  Score=66.46  Aligned_cols=37  Identities=32%  Similarity=0.499  Sum_probs=31.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      +-.++|+|+||||||||+++|+|           ...|..|.+.+++.
T Consensus         6 Ge~~~l~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g~   42 (223)
T TIGR03771         6 GELLGLLGPNGAGKTTLLRAILG-----------LIPPAKGTVKVAGA   42 (223)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC-----------CCCCCCceEEECCc
Confidence            35799999999999999999999           45677888888874

This protein family is the ATP-binding cassette subunit of binding protein-dependent ABC transporter complex that strictly co-occurs with TIGR03769. TIGRFAMs model TIGR03769 describes a protein domain that occurs singly or as one of up to three repeats in proteins of a number of Actinobacteria, including Propionibacterium acnes KPA171202. The TIGR03769 domain occurs both in an adjacent gene for the substrate-binding protein and in additional (often nearby) proteins, often with LPXTG-like sortase recognition signals. Homologous ATP-binding subunits outside the scope of this family include manganese transporter MntA in Synechocystis sp. PCC 6803 and chelated iron transporter subunits. The function of this transporter complex is unknown.

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=97.46  E-value=0.00012  Score=67.87  Aligned_cols=35  Identities=29%  Similarity=0.416  Sum_probs=30.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD   48 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~   48 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~g   64 (253)
T TIGR02323        30 EVLGIVGESGSGKSTLLGCLAG-----------RLAPDHGTATYIM   64 (253)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CCCCCCcEEEEec
Confidence            4689999999999999999999           4557788888876

Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=97.45  E-value=0.00015  Score=67.47  Aligned_cols=35  Identities=29%  Similarity=0.414  Sum_probs=30.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD   48 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~   48 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++
T Consensus        31 e~~~I~G~NGsGKSTLl~~i~G-----------l~~p~~G~i~~~~   65 (251)
T PRK09544         31 KILTLLGPNGAGKSTLVRVVLG-----------LVAPDEGVIKRNG   65 (251)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECC
Confidence            4689999999999999999999           5567788888765

>PRK13643 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.45  E-value=0.00013  Score=69.12  Aligned_cols=36  Identities=36%  Similarity=0.485  Sum_probs=32.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.++|.
T Consensus        33 e~v~i~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~   68 (288)
T PRK13643         33 SYTALIGHTGSGKSTLLQHLNG-----------LLQPTEGKVTVGDI   68 (288)
T ss_pred             CEEEEECCCCChHHHHHHHHhc-----------CCCCCCcEEEECCE
Confidence            4699999999999999999999           66788899998884

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=97.44  E-value=0.00015  Score=65.14  Aligned_cols=36  Identities=31%  Similarity=0.298  Sum_probs=30.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeec---ceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIE---PNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~---~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           ...   |..|.+.+++.
T Consensus        34 e~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~~~~G~i~i~g~   72 (202)
T cd03233          34 EMVLVLGRPGSGCSTLLKALAN-----------RTEGNVSVEGDIHYNGI   72 (202)
T ss_pred             cEEEEECCCCCCHHHHHHHhcc-----------cCCCCCCcceEEEECCE
Confidence            4689999999999999999999           333   67888888773

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=97.44  E-value=0.00016  Score=64.70  Aligned_cols=38  Identities=26%  Similarity=0.222  Sum_probs=31.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|..         ...|..|.+.+++.
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~~---------~~~p~~G~i~~~g~   64 (200)
T cd03217          27 EVHALMGPNGSGKSTLAKTIMGHP---------KYEVTEGEILFKGE   64 (200)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC---------cCCCCccEEEECCE
Confidence            468999999999999999999820         13578899988874

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=97.44  E-value=0.00015  Score=62.94  Aligned_cols=35  Identities=31%  Similarity=0.383  Sum_probs=29.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD   48 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~   48 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G-----------~~~~~~G~i~~~~   62 (166)
T cd03223          28 DRLLITGPSGTGKSSLFRALAG-----------LWPWGSGRIGMPE   62 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCCceEEECC
Confidence            4689999999999999999999           4456677777765

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional

Probab=97.44  E-value=0.00014  Score=66.56  Aligned_cols=37  Identities=24%  Similarity=0.472  Sum_probs=31.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++..
T Consensus        26 e~~~l~G~nGsGKSTLl~~l~G-----------l~~~~~G~i~~~g~~   62 (232)
T PRK10771         26 ERVAILGPSGAGKSTLLNLIAG-----------FLTPASGSLTLNGQD   62 (232)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCceEEECCee
Confidence            4689999999999999999999           456778888888743

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.44  E-value=0.00013  Score=64.50  Aligned_cols=36  Identities=28%  Similarity=0.508  Sum_probs=32.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -++++|++|||||||+|.+.|           -+.|..|.+..++.+
T Consensus        33 ~vv~lGpSGcGKTTLLnl~AG-----------f~~P~~G~i~l~~r~   68 (259)
T COG4525          33 LVVVLGPSGCGKTTLLNLIAG-----------FVTPSRGSIQLNGRR   68 (259)
T ss_pred             EEEEEcCCCccHHHHHHHHhc-----------CcCcccceEEECCEe
Confidence            478999999999999999999           677999999999854

>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.44  E-value=0.00015  Score=68.24  Aligned_cols=36  Identities=33%  Similarity=0.427  Sum_probs=31.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.++|.
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~   67 (274)
T PRK13647         32 SKTALLGPNGAGKSTLLLHLNG-----------IYLPQRGRVKVMGR   67 (274)
T ss_pred             CEEEEECCCCCcHHHHHHHHhc-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           55678899998884

>TIGR02314 ABC_MetN D-methionine ABC transporter, ATP-binding protein

Probab=97.44  E-value=0.00013  Score=70.90  Aligned_cols=36  Identities=31%  Similarity=0.438  Sum_probs=32.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.+||+|+||||||||+++|+|           ...|+.|.+.++|.
T Consensus        32 ei~gIiG~sGaGKSTLlr~I~g-----------l~~p~~G~I~i~G~   67 (343)
T TIGR02314        32 QIYGVIGASGAGKSTLIRCVNL-----------LERPTSGSVIVDGQ   67 (343)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCceEEEECCE
Confidence            3589999999999999999999           66788999999884

Members of this family are the ATP-binding protein of the D-methionine ABC transporter complex. Known members belong to the Proteobacteria.

>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional

Probab=97.44  E-value=0.00014  Score=67.78  Aligned_cols=36  Identities=28%  Similarity=0.511  Sum_probs=31.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        29 e~~~i~G~nGsGKSTLl~~i~G-----------~~~p~~G~i~~~g~   64 (258)
T PRK13548         29 EVVAILGPNGAGKSTLLRALSG-----------ELSPDSGEVRLNGR   64 (258)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCCEEEECCE
Confidence            4689999999999999999999           55678899888773

>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional

Probab=97.44  E-value=0.00015  Score=70.57  Aligned_cols=36  Identities=31%  Similarity=0.427  Sum_probs=31.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.++|.
T Consensus        32 ei~~iiG~nGsGKSTLlk~L~G-----------l~~p~~G~I~~~g~   67 (343)
T PRK11153         32 EIFGVIGASGAGKSTLIRCINL-----------LERPTSGRVLVDGQ   67 (343)
T ss_pred             CEEEEECCCCCcHHHHHHHHhC-----------CCCCCceEEEECCE
Confidence            4689999999999999999999           56688899999884

>PRK13635 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.43  E-value=0.00015  Score=68.54  Aligned_cols=36  Identities=31%  Similarity=0.365  Sum_probs=31.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.++|.
T Consensus        34 e~~~i~G~nGaGKSTLl~~i~G-----------~~~p~~G~i~~~g~   69 (279)
T PRK13635         34 EWVAIVGHNGSGKSTLAKLLNG-----------LLLPEAGTITVGGM   69 (279)
T ss_pred             CEEEEECCCCCcHHHHHHHHhc-----------CCCCCCcEEEECCE
Confidence            4689999999999999999999           56688999999884

>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional

Probab=97.43  E-value=0.00015  Score=68.11  Aligned_cols=36  Identities=25%  Similarity=0.429  Sum_probs=31.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.+++.
T Consensus        34 e~~~i~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~   69 (269)
T PRK11831         34 KITAIMGPSGIGKTTLLRLIGG-----------QIAPDHGEILFDGE   69 (269)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCceEEECCE
Confidence            4689999999999999999999           45577888888874

>PRK13644 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.43  E-value=0.00015  Score=68.31  Aligned_cols=36  Identities=33%  Similarity=0.380  Sum_probs=31.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.++|.
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~   64 (274)
T PRK13644         29 EYIGIIGKNGSGKSTLALHLNG-----------LLRPQKGKVLVSGI   64 (274)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCCceEEECCE
Confidence            4689999999999999999999           45678899888874

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=97.43  E-value=0.00016  Score=63.07  Aligned_cols=36  Identities=31%  Similarity=0.457  Sum_probs=30.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        29 ~~~~l~G~nGsGKstLl~~i~G-----------~~~~~~G~i~~~g~   64 (171)
T cd03228          29 EKVAIVGPSGSGKSTLLKLLLR-----------LYDPTSGEILIDGV   64 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHc-----------CCCCCCCEEEECCE
Confidence            4689999999999999999999           44566788888773

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=97.43  E-value=0.00015  Score=65.07  Aligned_cols=36  Identities=39%  Similarity=0.514  Sum_probs=31.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|++|+|||||+++|+|           ...|..|.+.+++.
T Consensus        35 ~~~~i~G~nGsGKSTLl~~l~G-----------l~~~~~G~i~~~g~   70 (207)
T cd03369          35 EKIGIVGRTGAGKSTLILALFR-----------FLEAEEGKIEIDGI   70 (207)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------ccCCCCCeEEECCE
Confidence            4689999999999999999999           55677888888874

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=97.43  E-value=0.00014  Score=69.45  Aligned_cols=35  Identities=29%  Similarity=0.494  Sum_probs=31.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      .+||+|+||+|||||++.|+|           ...|+.|.+.++|.
T Consensus        30 i~~l~G~NGaGKTTLl~~l~G-----------l~~~~~G~i~i~g~   64 (301)
T TIGR03522        30 IVGFLGPNGAGKSTTMKIITG-----------YLPPDSGSVQVCGE   64 (301)
T ss_pred             EEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECCE
Confidence            589999999999999999999           55688899998884

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=97.43  E-value=0.00015  Score=66.59  Aligned_cols=38  Identities=24%  Similarity=0.255  Sum_probs=30.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|..         ...|..|.+.+++.
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~Gl~---------~~~~~~G~i~~~g~   64 (243)
T TIGR01978        27 EIHAIMGPNGSGKSTLSKTIAGHP---------SYEVTSGTILFKGQ   64 (243)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC---------CCCCCcceEEECCE
Confidence            468999999999999999999821         02467888888874

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.42  E-value=0.00014  Score=68.86  Aligned_cols=36  Identities=28%  Similarity=0.249  Sum_probs=30.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.+++.
T Consensus        38 e~~~l~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~   73 (289)
T PRK13645         38 KVTCVIGTTGSGKSTMIQLTNG-----------LIISETGQTIVGDY   73 (289)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCCceEEECCE
Confidence            4689999999999999999999           55677888888773

>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.42  E-value=0.00015  Score=68.37  Aligned_cols=36  Identities=25%  Similarity=0.281  Sum_probs=31.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.++|.
T Consensus        34 e~~~i~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~   69 (279)
T PRK13650         34 EWLSIIGHNGSGKSTTVRLIDG-----------LLEAESGQIIIDGD   69 (279)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCCcEEEECCE
Confidence            4689999999999999999999           56788899998884

>cd03248 ABCC_TAP TAP, the Transporter Associated with Antigen Processing; TAP is essential for peptide delivery from the cytosol into the lumen of the endoplasmic reticulum (ER), where these peptides are loaded on major histocompatibility complex (MHC) I molecules

Probab=97.42  E-value=0.00016  Score=65.81  Aligned_cols=37  Identities=27%  Similarity=0.338  Sum_probs=31.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.+++..
T Consensus        41 e~~~i~G~nGsGKSTLl~~l~G-----------l~~~~~G~i~~~g~~   77 (226)
T cd03248          41 EVTALVGPSGSGKSTVVALLEN-----------FYQPQGGQVLLDGKP   77 (226)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CcCCCCcEEEECCCc
Confidence            4689999999999999999999           556778898888843

Loaded MHC I leave the ER and display their antigenic cargo on the cell surface to cytotoxic T cells. Subsequently, virus-infected or malignantly transformed cells can be eliminated. TAP belongs to the large family of ATP-binding cassette (ABC) transporters, which translocate a vast variety of solutes across membranes.

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=97.42  E-value=0.00016  Score=64.82  Aligned_cols=35  Identities=31%  Similarity=0.457  Sum_probs=30.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD   48 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~   48 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++
T Consensus        32 ~~~~i~G~nG~GKSTLl~~i~G-----------~~~~~~G~i~~~g   66 (204)
T cd03250          32 ELVAIVGPVGSGKSSLLSALLG-----------ELEKLSGSVSVPG   66 (204)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------cCCCCCCeEEEcC
Confidence            4689999999999999999999           4457788888776

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>PRK11231 fecE iron-dicitrate transporter ATP-binding subunit; Provisional

Probab=97.41  E-value=0.00016  Score=67.16  Aligned_cols=36  Identities=33%  Similarity=0.518  Sum_probs=30.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.+++.
T Consensus        29 e~~~l~G~nGsGKSTLl~~l~G-----------l~~~~~G~i~~~g~   64 (255)
T PRK11231         29 KITALIGPNGCGKSTLLKCFAR-----------LLTPQSGTVFLGDK   64 (255)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC-----------CcCCCCcEEEECCE
Confidence            3589999999999999999999           44577888888774

>TIGR03873 F420-0_ABC_ATP proposed F420-0 ABC transporter, ATP-binding protein

Probab=97.41  E-value=0.00015  Score=67.44  Aligned_cols=36  Identities=31%  Similarity=0.553  Sum_probs=31.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.+++.
T Consensus        28 e~~~i~G~nGsGKSTLl~~i~G-----------~~~~~~G~i~~~g~   63 (256)
T TIGR03873        28 SLTGLLGPNGSGKSTLLRLLAG-----------ALRPDAGTVDLAGV   63 (256)
T ss_pred             cEEEEECCCCCCHHHHHHHHcC-----------CCCCCCCEEEECCE
Confidence            4689999999999999999999           55677888888874

This small clade of ABC-type transporter ATP-binding protein components is found as a three gene cassette along with a periplasmic substrate-binding protein (TIGR03868) and a permease (TIGR03869). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with a F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this ATP-binding protein is a component of an F420-0 (that is, F420 lacking only the polyglutamate tail) transporter.

>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family

Probab=97.41  E-value=0.00019  Score=65.16  Aligned_cols=36  Identities=22%  Similarity=0.206  Sum_probs=31.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        32 ~~~~I~G~nGsGKStLl~~l~G-----------~~~~~~G~i~~~g~   67 (220)
T TIGR02982        32 EIVILTGPSGSGKTTLLTLIGG-----------LRSVQEGSLKVLGQ   67 (220)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCeEEEECCE
Confidence            4689999999999999999999           55678899988874

Members of this protein family are found mostly in the Cyanobacteria, but also in the Planctomycetes. Cyanobacterial examples are involved in heterocyst formation, by which some fraction of members of the colony undergo a developmental change and become capable of nitrogen fixation. The DevBCA proteins are thought export of either heterocyst-specific glycolipids or an enzyme essential for formation of the laminated layer found in heterocysts.

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=97.41  E-value=0.00016  Score=66.30  Aligned_cols=36  Identities=28%  Similarity=0.394  Sum_probs=31.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G-----------l~~~~~G~i~~~g~   64 (237)
T cd03252          29 EVVGIVGRSGSGKSTLTKLIQR-----------FYVPENGRVLVDGH   64 (237)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CcCCCCCEEEECCe
Confidence            4689999999999999999999           45677888888874

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional

Probab=97.41  E-value=0.00017  Score=67.51  Aligned_cols=35  Identities=31%  Similarity=0.546  Sum_probs=30.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD   48 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~   48 (363)
                      -.++|+|+||+|||||+++|+|           ...|..|.+.+++
T Consensus        51 e~~~liG~NGsGKSTLlk~L~G-----------l~~p~~G~I~~~g   85 (264)
T PRK13546         51 DVIGLVGINGSGKSTLSNIIGG-----------SLSPTVGKVDRNG   85 (264)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CcCCCceEEEECC
Confidence            4689999999999999999999           5567788888876

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=97.40  E-value=0.00013  Score=73.04  Aligned_cols=76  Identities=22%  Similarity=0.316  Sum_probs=52.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeC-CccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVP-DKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~-~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +-++++||||+|||||++.|...      +...|++-..|.+++- ++.               ..|+++.+|.-   . 
T Consensus        70 fIvavvGPpGtGKsTLirSlVrr------~tk~ti~~i~GPiTvvsgK~---------------RRiTflEcp~D---l-  124 (1077)
T COG5192          70 FIVAVVGPPGTGKSTLIRSLVRR------FTKQTIDEIRGPITVVSGKT---------------RRITFLECPSD---L-  124 (1077)
T ss_pred             eEEEeecCCCCChhHHHHHHHHH------HHHhhhhccCCceEEeecce---------------eEEEEEeChHH---H-
Confidence            56889999999999999999863      1122555555555442 222               56888888842   1 


Q ss_pred             cccchhhHHHhhccccCEEEEEEecccC
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFKD  109 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~~  109 (363)
                            +++.....-||++++++|+.-+
T Consensus       125 ------~~miDvaKIaDLVlLlIdgnfG  146 (1077)
T COG5192         125 ------HQMIDVAKIADLVLLLIDGNFG  146 (1077)
T ss_pred             ------HHHHhHHHhhheeEEEeccccC
Confidence                  3666677789999999997543

>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.40  E-value=0.00017  Score=67.76  Aligned_cols=36  Identities=28%  Similarity=0.399  Sum_probs=31.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.+++.
T Consensus        36 e~~~l~G~nGsGKSTLl~~l~G-----------l~~p~~G~I~~~g~   71 (271)
T PRK13632         36 EYVAILGHNGSGKSTISKILTG-----------LLKPQSGEIKIDGI   71 (271)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCCceEEECCE
Confidence            4689999999999999999999           55678899988874

>PRK10253 iron-enterobactin transporter ATP-binding protein; Provisional

Probab=97.40  E-value=0.00016  Score=67.64  Aligned_cols=36  Identities=28%  Similarity=0.434  Sum_probs=30.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.+++.
T Consensus        34 e~~~i~G~nGsGKSTLl~~i~G-----------~~~~~~G~i~~~g~   69 (265)
T PRK10253         34 HFTAIIGPNGCGKSTLLRTLSR-----------LMTPAHGHVWLDGE   69 (265)
T ss_pred             CEEEEECCCCCCHHHHHHHHcC-----------CCCCCCcEEEECCE
Confidence            4689999999999999999999           44577888888874

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=97.40  E-value=0.00017  Score=65.36  Aligned_cols=36  Identities=31%  Similarity=0.420  Sum_probs=30.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||+|||||++.|+|           ...|..|.+.+++.
T Consensus        31 ~~~~i~G~nGsGKSTLl~~i~G-----------~~~~~~G~i~~~g~   66 (220)
T cd03245          31 EKVAIIGRVGSGKSTLLKLLAG-----------LYKPTSGSVLLDGT   66 (220)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CcCCCCCeEEECCE
Confidence            4689999999999999999999           44567788888774

Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	363
1jal_A	363	Ychf Protein (Hi0393) Length = 363		1e-111
2dwq_A	368	Thermus Thermophilus Ychf Gtp-Binding Protein Lengt		2e-85
2dby_A	368	Crystal Structure Of The Gtp-Binding Protein Ychf I		4e-85
2ohf_A	396	Crystal Structure Of Human Ola1 In Complex With Amp		9e-72
1ni3_A	392	Structure Of The Schizosaccharomyces Pombe Ychf Gtp		2e-62
1wxq_A	397	Crystal Structure Of Gtp Binding Protein From Pyroc		2e-19
1udx_A	416	Crystal Structure Of The Conserved Protein Tt1381 F		4e-15
1lnz_A	342	Structure Of The Obg Gtp-Binding Protein Length = 3		9e-14
4a9a_A	376	Structure Of Rbg1 In Complex With Tma46 Dfrp Domain		1e-07
3k53_A	271	Crystal Structure Of Nfeob From P. Furiosus Length		7e-06
3a1s_A	258	Crystal Structue Of The Cytosolic Domain Of T. Mari		8e-05
3a1t_A	258	Crystal Structue Of The Cytosolic Domain Of T. Mari		8e-05
3a1w_A	168	Crystal Structue Of The G Domain Of T. Maritima Feo		1e-04
2wjj_A	168	Structure And Function Of The Feob G-Domain From Me		3e-04
2wji_A	165	Structure And Function Of The Feob G-Domain From Me		3e-04
2wjh_A	166	Structure And Function Of The Feob G-Domain From Me		3e-04
2wjg_A	188	Structure And Function Of The Feob G-Domain From Me		3e-04

>pdb|1JAL|A Chain A, Ychf Protein (Hi0393) Length = 363

Iteration: 1
 Score =  397 bits (1020), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 185/363 (50%), Positives = 266/363 (73%)
Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M  KCG++GLPNVGKSTLFNALTK  I A NYPFCTIEPN G++ +PD RL  L  IVK 
Sbjct: 1   MGFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKP 60
Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           ++I P  ++ VDIAGLV+GASKGEGLGNKFLA+IRET+ + HV+RCF++D I H++G+I+
Sbjct: 61  ERILPTTMEFVDIAGLVAGASKGEGLGNKFLANIRETDAIGHVVRCFENDDIVHVAGKID 120
Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           P+ D + I TEL L+DL   E+ I +  K+    ++ +   L ++++I+  L  +  IR 
Sbjct: 121 PLDDIDTINTELALADLDSCERAIQRLQKRAKGGDKEAKFELSVMEKILPVLENAGMIRS 180
Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           + L+ EEL +IK  N LT+KP +++ANV E+GF+NN  LD+++  A  +   ++ +CA +
Sbjct: 181 VGLDKEELQAIKSYNFLTLKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAAI 240
Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
           E EI++L++ +K  FL +LG++E  LN +IRA ++LL+L+TYFT G KE+RAWT+  G T
Sbjct: 241 ESEIAELDDEEKVEFLQDLGIEEPGLNRVIRAGYALLNLQTYFTAGVKEVRAWTVSVGAT 300
Query: 301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
           A +AA +IHTD ++GFIRA  I+Y+DF+ + GE G K AGK R EGK Y+V+DGD+++F 
Sbjct: 301 APKAAAVIHTDFEKGFIRAEVIAYEDFIQFNGENGAKEAGKWRLEGKDYIVQDGDVMHFR 360
Query: 361 FNI 363
           FN+
Sbjct: 361 FNV 363

>pdb|2DWQ|A Chain A, Thermus Thermophilus Ychf Gtp-Binding Protein Length = 368

Iteration: 1
 Score =  312 bits (800), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 155/367 (42%), Positives = 231/367 (62%), Gaps = 8/367 (2%)
Query: 3   LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLN-NIVKTK 61
           L  G++GLPNVGKSTLFNALT+    A NYPF TI+ N+G++ + D+RL  L     K +
Sbjct: 2   LAVGIVGLPNVGKSTLFNALTRANALAANYPFATIDKNVGVVPLEDERLYALQRTFAKGE 61
Query: 62  KIFPAI---IKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGE 118
           ++ P +   ++ VDIAGLV GA KGEGLGN+FLAHIRE   + HV+RCF D  + H+ G 
Sbjct: 62  RVPPVVPTHVEFVDIAGLVKGAHKGEGLGNQFLAHIREVAAIAHVLRCFPDPDVVHVMGR 121
Query: 119 INPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPI 178
           ++P+ DAEV++TEL+L+DLA LE+ +++  K+     E  + LL+  + +  +L +  P 
Sbjct: 122 VDPLEDAEVVETELLLADLATLERRLERLRKEARADRER-LPLLEAAEGLYVHLQEGKPA 180
Query: 179 RLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGF---KNNLLLDQLKIYAHNQNIPIII 235
           R    +      +K   LLT KP+I+VANV E      + N  ++ ++  A  +   +++
Sbjct: 181 RTFPPSEAVARFLKETPLLTAKPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEGAEVVV 240
Query: 236 ICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTI 295
           + A+LE E+++L+  + +  L   GL+E+ L  L RA +  LDL T+FT G+KE+RAWT+
Sbjct: 241 VSARLEAELAELSGEEARELLAAYGLQESGLQRLARAGYRALDLLTFFTAGEKEVRAWTV 300
Query: 296 PNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGD 355
             GT A +AAG IH+D++RGFIRA  I +   +   G    K  G +R EGK Y V+DGD
Sbjct: 301 RRGTKAPRAAGEIHSDMERGFIRAEVIPWDKLVEAGGWARAKERGWVRLEGKDYEVQDGD 360
Query: 356 ILNFLFN 362
           ++  LFN
Sbjct: 361 VIYVLFN 367

>pdb|2DBY|A Chain A, Crystal Structure Of The Gtp-Binding Protein Ychf In Complexed With Gdp Length = 368

Iteration: 1
 Score =  311 bits (797), Expect = 4e-85,   Method: Compositional matrix adjust.
 Identities = 154/367 (41%), Positives = 227/367 (61%), Gaps = 8/367 (2%)
Query: 3   LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIV---- 58
           L  G++GLPNVGKSTLFNALT+    A NYPF TI+ N+G++ + D+RL  L        
Sbjct: 2   LAVGIVGLPNVGKSTLFNALTRANALAANYPFATIDKNVGVVPLEDERLYALQRTFAKGE 61
Query: 59  KTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGE 118
           +   + P  ++ VDIAGLV GA KGEGLGN+FLAHIRE   + HV+RCF D  + H+ G 
Sbjct: 62  RVPPVVPTHVEFVDIAGLVKGAHKGEGLGNQFLAHIREVAAIAHVLRCFPDPDVVHVMGR 121
Query: 119 INPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPI 178
           ++P+ DAEV++TEL+L+DLA LE+ +++  K+     E  + LL+  + +  +L +  P 
Sbjct: 122 VDPLEDAEVVETELLLADLATLERRLERLRKEARADRER-LPLLEAAEGLYVHLQEGKPA 180
Query: 179 RLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGF---KNNLLLDQLKIYAHNQNIPIII 235
           R    +      +K   LLT KP+I+VANV E      + N  ++ ++  A  +   +++
Sbjct: 181 RTFPPSEAVARFLKETPLLTAKPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEGAEVVV 240
Query: 236 ICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTI 295
           + A+LE E+++L+  + +  L   GL+E+ L  L RA +  LDL T+FT G+KE+RAWT+
Sbjct: 241 VSARLEAELAELSGEEARELLAAYGLQESGLQRLARAGYRALDLLTFFTAGEKEVRAWTV 300
Query: 296 PNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGD 355
             GT A +AAG IH+D +RGFIRA  I +   +   G    K  G +R EGK Y V+DGD
Sbjct: 301 RRGTKAPRAAGEIHSDXERGFIRAEVIPWDKLVEAGGWARAKERGWVRLEGKDYEVQDGD 360
Query: 356 ILNFLFN 362
           ++  LFN
Sbjct: 361 VIYVLFN 367

>pdb|2OHF|A Chain A, Crystal Structure Of Human Ola1 In Complex With Amppcp Length = 396

Iteration: 1
 Score =  266 bits (681), Expect = 9e-72,   Method: Compositional matrix adjust.
 Identities = 149/372 (40%), Positives = 219/372 (58%), Gaps = 16/372 (4%)
Query: 2   NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTK 61
           +LK G++GLPNVGKST FN LT  + SAEN+PFCTI+PN   + VPD+R   L    K  
Sbjct: 22  SLKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKPA 81
Query: 62  KIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINP 121
              PA + +VDIAGLV GA  G+GLGN FL+HI   + + H+ R F+DD ITH+ G ++P
Sbjct: 82  SKIPAFLNVVDIAGLVKGAHNGQGLGNAFLSHISACDGIFHLTRAFEDDDITHVEGSVDP 141
Query: 122 IHDAEVIQTELILSDLAILEKYIDKENKKFF------LKNEHSIELLKLLKRIIFNLNKS 175
           I D E+I  EL L D  ++   IDK  K         LK E+ I    + K   + +++ 
Sbjct: 142 IRDIEIIHEELQLKDEEMIGPIIDKLEKVAVRGGDKKLKPEYDI----MCKVKSWVIDQK 197
Query: 176 IPIRLM-SLNNEELMSIKFLNLLTIKPIIFVANVKENGF--KNNLLLDQLKIYA--HNQN 230
            P+R     N++E+  +     LT KP++++ N+ E  +  K N  L ++K +   ++  
Sbjct: 198 KPVRFYHDWNDKEIEVLNKHLFLTSKPMVYLVNLSEKDYIRKKNKWLIKIKEWVDKYDPG 257
Query: 231 IPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEI 290
             +I     LE ++ +L+  +++ +L+   + ++ L  +I+A F+ L L  +FT G  E+
Sbjct: 258 ALVIPFSGALELKLQELSAEERQKYLE-ANMTQSALPKIIKAGFAALQLEYFFTAGPDEV 316
Query: 291 RAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYL 350
           RAWTI  GT A QAAG IHTD ++GFI A  + Y+DF     E   K AGK R +G+ Y+
Sbjct: 317 RAWTIRKGTKAPQAAGKIHTDFEKGFIMAEVMKYEDFKEEGSENAVKAAGKYRQQGRNYI 376
Query: 351 VEDGDILNFLFN 362
           VEDGDI+ F FN
Sbjct: 377 VEDGDIIFFKFN 388

>pdb|1NI3|A Chain A, Structure Of The Schizosaccharomyces Pombe Ychf Gtpase Length = 392

Iteration: 1
 Score =  236 bits (602), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 135/370 (36%), Positives = 207/370 (55%), Gaps = 14/370 (3%)
Query: 2   NLKCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           NLK G++G PNVGKST F A+TK  +    NYP+ TI+P    + VPD+R   L    K 
Sbjct: 20  NLKTGIVGXPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKP 79
Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           K   PA + + DIAGL  GAS G GLGN FL+H+R  + +  V+R F D +I H+ G+++
Sbjct: 80  KSRVPAFLTVFDIAGLTKGASTGVGLGNAFLSHVRAVDAIYQVVRAFDDAEIIHVEGDVD 139
Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENK-----KFFLKNEHSIELLKLLKRIIFNLNKS 175
           PI D  +I  EL++ D   +EK+++   K        L+ +   E   +++++   L ++
Sbjct: 140 PIRDLSIIVDELLIKDAEFVEKHLEGLRKITSRGANTLEXKAKKEEQAIIEKVYQYLTET 199
Query: 176 -IPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGF--KNNLLLDQLKIYAHNQNIP 232
             PIR    +N E+  I  L LLT KP+I++ N  E  F  + N  L ++K +  ++N P
Sbjct: 200 KQPIRKGDWSNREVEIINSLYLLTAKPVIYLVNXSERDFLRQKNKYLPKIKKWI-DENSP 258
Query: 233 ---IIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKE 289
              +I      EE +++    +       L  K + L  +I   ++ L+L  YFT G+ E
Sbjct: 259 GDTLIPXSVAFEERLTNFTEEEAIEECKKLNTK-SXLPKIIVTGYNALNLINYFTCGEDE 317
Query: 290 IRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKY 349
           +R+WTI  GT A QAAG+IHTD ++ F+      Y+D   YK E  C+ AGK  ++GK+Y
Sbjct: 318 VRSWTIRKGTKAPQAAGVIHTDFEKAFVVGEIXHYQDLFDYKTENACRAAGKYLTKGKEY 377
Query: 350 LVEDGDILNF 359
           + E GDI ++
Sbjct: 378 VXESGDIAHW 387

>pdb|1WXQ|A Chain A, Crystal Structure Of Gtp Binding Protein From Pyrococcus Horikoshii Ot3 Length = 397

Iteration: 1
 Score = 93.2 bits (230), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 59/157 (37%), Positives = 83/157 (52%), Gaps = 8/157 (5%)
Query: 6   GLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGII-EVPDKRLKHL------NNIV 58
           G++G PNVGKST F+A T + +   NYPF TIE N+G+   + D   K L       N  
Sbjct: 4   GVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYE 63
Query: 59  KTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCF-KDDKITHISG 117
               +    +K VD+AGLV GA +G GLGNKFL  +R  + +IHV+    K D     + 
Sbjct: 64  YRNGLALIPVKXVDVAGLVPGAHEGRGLGNKFLDDLRXASALIHVVDATGKTDPEGQPTD 123
Query: 118 EINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLK 154
             +P+ D E ++ E+      IL K  DK  K+  L+
Sbjct: 124 YHDPVEDIEFLEREIDYWIYGILSKGWDKFAKRIKLQ 160

>pdb|1UDX|A Chain A, Crystal Structure Of The Conserved Protein Tt1381 From Thermus Thermophilus Hb8 Length = 416

Iteration: 1
 Score = 79.0 bits (193), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 43/138 (31%), Positives = 70/138 (50%), Gaps = 27/138 (19%)
Query: 5   CGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF 64
            GL+G PN GKS+L  A+T+       YPF T+ PN+G++EV ++               
Sbjct: 160 VGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSEEER------------- 206
Query: 65  PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHD 124
                L DI G++ GAS+G+GLG +FL HI  T ++++V+    +           P+  
Sbjct: 207 ---FTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLDAADE-----------PLKT 252
Query: 125 AEVIQTELILSDLAILEK 142
            E ++ E+   D A+L +
Sbjct: 253 LETLRKEVGAYDPALLRR 270

>pdb|1LNZ|A Chain A, Structure Of The Obg Gtp-Binding Protein Length = 342

Iteration: 1
 Score = 74.3 bits (181), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 37/100 (37%), Positives = 54/100 (54%), Gaps = 16/100 (16%)
Query: 5   CGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF 64
            GL+G P+VGKSTL + ++  K    +Y F T+ PN+G +E  D R              
Sbjct: 161 VGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGXVETDDGR-------------- 206
Query: 65  PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVI 104
                  D+ GL+ GA +G GLG++FL HI  T +++HVI
Sbjct: 207 --SFVXADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVI 244

>pdb|4A9A|A Chain A, Structure Of Rbg1 In Complex With Tma46 Dfrp Domain Length = 376

Iteration: 1
 Score = 53.9 bits (128), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 36/127 (28%), Positives = 61/127 (48%), Gaps = 29/127 (22%)
Query: 6   GLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFP 65
           G +G P+VGKSTL + LT  +  A  Y F T      ++ VP         +++ K    
Sbjct: 76  GFVGFPSVGKSTLLSKLTGTESEAAEYEFTT------LVTVP--------GVIRYKG--- 118
Query: 66  AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDA 125
           A I+++D+ G++ GA  G G G + +A  R  N++  ++   K            P+H  
Sbjct: 119 AKIQMLDLPGIIDGAKDGRGRGKQVIAVARTCNLLFIILDVNK------------PLHHK 166
Query: 126 EVIQTEL 132
           ++I+ EL
Sbjct: 167 QIIEKEL 173

>pdb|3K53|A Chain A, Crystal Structure Of Nfeob From P. Furiosus Length = 271

Iteration: 1
 Score = 48.1 bits (113), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 22/45 (48%), Positives = 30/45 (66%)
Query: 5  CGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK 49
            L+G PNVGK+T+FNALT L+    N+P  T+E   GI+E  +K
Sbjct: 6  VALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYREK 50

>pdb|3A1S|A Chain A, Crystal Structue Of The Cytosolic Domain Of T. Maritima Feob Iron Iransporter In Gdp Form I Length = 258

Iteration: 1
 Score = 44.7 bits (104), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 20/41 (48%), Positives = 26/41 (63%)
Query: 3  LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGI 43
          +K  L G PNVGK++LFNALT  K    N+P  T+E   G+
Sbjct: 6  VKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGV 46

>pdb|3A1T|A Chain A, Crystal Structue Of The Cytosolic Domain Of T. Maritima Feob Iron Iransporter In Gdp Form Ii Length = 258

Iteration: 1
 Score = 44.7 bits (104), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 20/41 (48%), Positives = 26/41 (63%)
Query: 3  LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGI 43
          +K  L G PNVGK++LFNALT  K    N+P  T+E   G+
Sbjct: 6  VKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGV 46

>pdb|3A1W|A Chain A, Crystal Structue Of The G Domain Of T. Maritima Feob Iron Iransporter Length = 168

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 20/41 (48%), Positives = 26/41 (63%)
Query: 3  LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGI 43
          +K  L G PNVGK++LFNALT  K    N+P  T+E   G+
Sbjct: 6  VKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGV 46

>pdb|2WJJ|A Chain A, Structure And Function Of The Feob G-Domain From Methanococcus Jannaschii Length = 168

Iteration: 1
 Score = 42.7 bits (99), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/49 (44%), Positives = 29/49 (59%)
Query: 4  KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLK 52
          +  LIG PNVGKST+FNALT   +   N+P  T+E   G  E   ++ K
Sbjct: 6  EIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNGEKFK 54

>pdb|2WJI|A Chain A, Structure And Function Of The Feob G-Domain From Methanococcus Jannaschii Length = 165

Iteration: 1
 Score = 42.7 bits (99), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/49 (44%), Positives = 29/49 (59%)
Query: 4  KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLK 52
          +  LIG PNVGKST+FNALT   +   N+P  T+E   G  E   ++ K
Sbjct: 5  EIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNGEKFK 53

>pdb|2WJH|A Chain A, Structure And Function Of The Feob G-Domain From Methanococcus Jannaschii Length = 166

Iteration: 1
 Score = 42.7 bits (99), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/49 (44%), Positives = 29/49 (59%)
Query: 4  KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLK 52
          +  LIG PNVGKST+FNALT   +   N+P  T+E   G  E   ++ K
Sbjct: 5  EIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNGEKFK 53

>pdb|2WJG|A Chain A, Structure And Function Of The Feob G-Domain From Methanococcus Jannaschii Length = 188

Iteration: 1
 Score = 42.7 bits (99), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/49 (44%), Positives = 29/49 (59%)
Query: 4  KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLK 52
          +  LIG PNVGKST+FNALT   +   N+P  T+E   G  E   ++ K
Sbjct: 9  EIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNGEKFK 57

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	363
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	0.0
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	0.0
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	0.0
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	0.0
1wxq_A	397	GTP-binding protein; structural genomics, riken st	1e-139
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	2e-24
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	3e-24
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	4e-14
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	7e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-07
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	7e-07
2wji_A	165	Ferrous iron transport protein B homolog; membrane	7e-07
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	2e-06
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	3e-06
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	4e-06
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	4e-06
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	3e-05
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	3e-05
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	6e-05
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	1e-04
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	2e-04
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	2e-04
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	2e-04
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	4e-04
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	5e-04
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	5e-04

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2 Length = 363

 Score =  577 bits (1491), Expect = 0.0
 Identities = 185/362 (51%), Positives = 265/362 (73%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M  KCG++GLPNVGKSTLFNALTK  I A NYPFCTIEPN G++ +PD RL  L  IVK 
Sbjct: 1   MGFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           ++I P  ++ VDIAGLV+GASKGEGLGNKFLA+IRET+ + HV+RCF++D I H++G+I+
Sbjct: 61  ERILPTTMEFVDIAGLVAGASKGEGLGNKFLANIRETDAIGHVVRCFENDDIVHVAGKID 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           P+ D + I TEL L+DL   E+ I +  K+    ++ +   L ++++I+  L  +  IR 
Sbjct: 121 PLDDIDTINTELALADLDSCERAIQRLQKRAKGGDKEAKFELSVMEKILPVLENAGMIRS 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           + L+ EEL +IK  N LT+KP +++ANV E+GF+NN  LD+++  A  +   ++ +CA +
Sbjct: 181 VGLDKEELQAIKSYNFLTLKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAAI 240

Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTT 300
           E EI++L++ +K  FL +LG++E  LN +IRA ++LL+L+TYFT G KE+RAWT+  G T
Sbjct: 241 ESEIAELDDEEKVEFLQDLGIEEPGLNRVIRAGYALLNLQTYFTAGVKEVRAWTVSVGAT 300

Query: 301 AEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
           A +AA +IHTD ++GFIRA  I+Y+DF+ + GE G K AGK R EGK Y+V+DGD+++F 
Sbjct: 301 APKAAAVIHTDFEKGFIRAEVIAYEDFIQFNGENGAKEAGKWRLEGKDYIVQDGDVMHFR 360

Query: 361 FN 362
           FN
Sbjct: 361 FN 362

>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 Length = 368

 Score =  540 bits (1395), Expect = 0.0
 Identities = 153/368 (41%), Positives = 229/368 (62%), Gaps = 10/368 (2%)

Query: 3   LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKK 62
           L  G++GLPNVGKSTLFNALT+    A NYPF TI+ N+G++ + D+RL  L       +
Sbjct: 2   LAVGIVGLPNVGKSTLFNALTRANALAANYPFATIDKNVGVVPLEDERLYALQRTFAKGE 61

Query: 63  ----IFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGE 118
               + P  ++ VDIAGLV GA KGEGLGN+FLAHIRE   + HV+RCF D  + H+ G 
Sbjct: 62  RVPPVVPTHVEFVDIAGLVKGAHKGEGLGNQFLAHIREVAAIAHVLRCFPDPDVVHVMGR 121

Query: 119 INPIHDAEVIQTELILSDLAILEKYIDKENKKFFLK-NEHSIELLKLLKRIIFNLNKSIP 177
           ++P+ DAEV++TEL+L+DLA LE+ +++  K+   + +   + LL+  + +  +L +  P
Sbjct: 122 VDPLEDAEVVETELLLADLATLERRLERLRKE--ARADRERLPLLEAAEGLYVHLQEGKP 179

Query: 178 IRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKN---NLLLDQLKIYAHNQNIPII 234
            R    +      +K   LLT KP+I+VANV E    +   N  ++ ++  A  +   ++
Sbjct: 180 ARTFPPSEAVARFLKETPLLTAKPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEGAEVV 239

Query: 235 IICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWT 294
           ++ A+LE E+++L+  + +  L   GL+E+ L  L RA +  LDL T+FT G+KE+RAWT
Sbjct: 240 VVSARLEAELAELSGEEARELLAAYGLQESGLQRLARAGYRALDLLTFFTAGEKEVRAWT 299

Query: 295 IPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDG 354
           +  GT A +AAG IH+D++RGFIRA  I +   +   G    K  G +R EGK Y V+DG
Sbjct: 300 VRRGTKAPRAAGEIHSDMERGFIRAEVIPWDKLVEAGGWARAKERGWVRLEGKDYEVQDG 359

Query: 355 DILNFLFN 362
           D++  LFN
Sbjct: 360 DVIYVLFN 367

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens} Length = 396

 Score =  537 bits (1387), Expect = 0.0
 Identities = 144/369 (39%), Positives = 218/369 (59%), Gaps = 8/369 (2%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
            +LK G++GLPNVGKST FN LT  + SAEN+PFCTI+PN   + VPD+R   L    K 
Sbjct: 21  TSLKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKP 80

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
               PA + +VDIAGLV GA  G+GLGN FL+HI   + + H+ R F+DD ITH+ G ++
Sbjct: 81  ASKIPAFLNVVDIAGLVKGAHNGQGLGNAFLSHISACDGIFHLTRAFEDDDITHVEGSVD 140

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFF-LKNEHSIELLKLLKRII-FNLNKSIPI 178
           PI D E+I  EL L D  ++   IDK  K      ++       ++ ++  + +++  P+
Sbjct: 141 PIRDIEIIHEELQLKDEEMIGPIIDKLEKVAVRGGDKKLKPEYDIMCKVKSWVIDQKKPV 200

Query: 179 RLM-SLNNEELMSIKFLNLLTIKPIIFVANVKENGF--KNNLLLDQLKIYA--HNQNIPI 233
           R     N++E+  +     LT KP++++ N+ E  +  K N  L ++K +   ++    +
Sbjct: 201 RFYHDWNDKEIEVLNKHLFLTSKPMVYLVNLSEKDYIRKKNKWLIKIKEWVDKYDPGALV 260

Query: 234 IIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAW 293
           I     LE ++ +L+  +++ +L+   + ++ L  +I+A F+ L L  +FT G  E+RAW
Sbjct: 261 IPFSGALELKLQELSAEERQKYLE-ANMTQSALPKIIKAGFAALQLEYFFTAGPDEVRAW 319

Query: 294 TIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVED 353
           TI  GT A QAAG IHTD ++GFI A  + Y+DF     E   K AGK R +G+ Y+VED
Sbjct: 320 TIRKGTKAPQAAGKIHTDFEKGFIMAEVMKYEDFKEEGSENAVKAAGKYRQQGRNYIVED 379

Query: 354 GDILNFLFN 362
           GDI+ F FN
Sbjct: 380 GDIIFFKFN 388

>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 Length = 392

 Score =  529 bits (1366), Expect = 0.0
 Identities = 132/373 (35%), Positives = 211/373 (56%), Gaps = 12/373 (3%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKI-SAENYPFCTIEPNIGIIEVPDKRLKHLNNIVK 59
            NLK G++G+PNVGKST F A+TK  + +  NYP+ TI+P    + VPD+R   L    K
Sbjct: 19  NNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYK 78

Query: 60  TKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEI 119
            K   PA + + DIAGL  GAS G GLGN FL+H+R  + +  V+R F D +I H+ G++
Sbjct: 79  PKSRVPAFLTVFDIAGLTKGASTGVGLGNAFLSHVRAVDAIYQVVRAFDDAEIIHVEGDV 138

Query: 120 NPIHDAEVIQTELILSDLAILEKYIDKENKK-----FFLKNEHSIELLKLLKRIIFNLNK 174
           +PI D  +I  EL++ D   +EK+++   K        L+ +   E   +++++   L +
Sbjct: 139 DPIRDLSIIVDELLIKDAEFVEKHLEGLRKITSRGANTLEMKAKKEEQAIIEKVYQYLTE 198

Query: 175 S-IPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGF--KNNLLLDQLKIYA--HNQ 229
           +  PIR    +N E+  I  L LLT KP+I++ N+ E  F  + N  L ++K +   ++ 
Sbjct: 199 TKQPIRKGDWSNREVEIINSLYLLTAKPVIYLVNMSERDFLRQKNKYLPKIKKWIDENSP 258

Query: 230 NIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKE 289
              +I +    EE +++    +       L   ++ L  +I   ++ L+L  YFT G+ E
Sbjct: 259 GDTLIPMSVAFEERLTNFTEEEAIEECKKLNT-KSMLPKIIVTGYNALNLINYFTCGEDE 317

Query: 290 IRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKY 349
           +R+WTI  GT A QAAG+IHTD ++ F+    + Y+D   YK E  C+ AGK  ++GK+Y
Sbjct: 318 VRSWTIRKGTKAPQAAGVIHTDFEKAFVVGEIMHYQDLFDYKTENACRAAGKYLTKGKEY 377

Query: 350 LVEDGDILNFLFN 362
           ++E GDI ++   
Sbjct: 378 VMESGDIAHWKAG 390

>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 Length = 397

 Score =  400 bits (1031), Expect = e-139
 Identities = 97/412 (23%), Positives = 160/412 (38%), Gaps = 73/412 (17%)

Query: 3   LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGII-EVPDKRLKHLNNIVKTK 61
           ++ G++G PNVGKST F+A T + +   NYPF TIE N+G+   + D   K L      +
Sbjct: 1   MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQ 60

Query: 62  KIF------PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKD-DKITH 114
                       +K+VD+AGLV GA +G GLGNKFL  +R  + +IHV+      D    
Sbjct: 61  NYEYRNGLALIPVKMVDVAGLVPGAHEGRGLGNKFLDDLRMASALIHVVDATGKTDPEGQ 120

Query: 115 ISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNK 174
            +   +P+ D E ++ E+      IL K  DK  K+  L+       +      I     
Sbjct: 121 PTDYHDPVEDIEFLEREIDYWIYGILSKGWDKFAKRIKLQKIKLESAIAEHLSGIGVNEN 180

Query: 175 SI---------PIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIY 225
            +         P      + ++L++         KP++  AN  +    ++  + +L   
Sbjct: 181 DVWEAMHKLNLPEDPTKWSQDDLLAFASEIRRVNKPMVIAANKADAA--SDEQIKRLVRE 238

Query: 226 AHNQNIPIIIICAKLE------------------EEISDLNNIDKKFFLDNLGLKETKLN 267
              +   +I   A  E                   E   L ++ +K     + +KE  L+
Sbjct: 239 EEKRGYIVIPTSAAAELTLRKAAKAGFIEYIPGASEFKVLRDMSEKQKRALMVIKEKVLD 298

Query: 268 ---------DLIRASFSLLDLRTYFTV----------GKKEIRAWTIPNGTTAEQAAGII 308
                     + R  F LL L   + V          G      + +  G+T    A  +
Sbjct: 299 RFGSTGVQEVINRVVFDLLKLIPVYPVHDENKLTDQFGNVLPHVFLMKKGSTPRDLAFKV 358

Query: 309 HTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL 360
           HTD+ +GF+ A                  NA   R  G+ Y ++  DI+  +
Sbjct: 359 HTDLGKGFLYA-----------------INARTKRRVGEDYELQFNDIVKIV 393

>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 Length = 342

 Score =  101 bits (253), Expect = 2e-24
 Identities = 49/139 (35%), Positives = 77/139 (55%), Gaps = 27/139 (19%)

Query: 6   GLIGLPNVGKSTLFNALT--KLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKI 63
           GL+G P+VGKSTL + ++  K KI+  +Y F T+ PN+G++E  D R     + V     
Sbjct: 162 GLVGFPSVGKSTLLSVVSSAKPKIA--DYHFTTLVPNLGMVETDDGR-----SFV----- 209

Query: 64  FPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIH 123
                 + D+ GL+ GA +G GLG++FL HI  T +++HVI    D  ++ + G  +P  
Sbjct: 210 ------MADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVI----D--MSGLEGR-DPYD 256

Query: 124 DAEVIQTELILSDLAILEK 142
           D   I  EL   +L + E+
Sbjct: 257 DYLTINQELSEYNLRLTER 275

>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 Length = 416

 Score =  101 bits (254), Expect = 3e-24
 Identities = 45/139 (32%), Positives = 72/139 (51%), Gaps = 31/139 (22%)

Query: 6   GLIGLPNVGKSTLFNALT--KLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKI 63
           GL+G PN GKS+L  A+T    KI+   YPF T+ PN+G++EV ++              
Sbjct: 161 GLVGYPNAGKSSLLAAMTRAHPKIA--PYPFTTLSPNLGVVEVSEEE-----RFT----- 208

Query: 64  FPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIH 123
                 L DI G++ GAS+G+GLG +FL HI  T ++++V+    +           P+ 
Sbjct: 209 ------LADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLDAADE-----------PLK 251

Query: 124 DAEVIQTELILSDLAILEK 142
             E ++ E+   D A+L +
Sbjct: 252 TLETLRKEVGAYDPALLRR 270

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum} Length = 228

 Score = 69.8 bits (171), Expect = 4e-14
 Identities = 22/103 (21%), Positives = 41/103 (39%), Gaps = 23/103 (22%)

Query: 6   GLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFP 65
            L G PNVGKS+  N +++  +  ++Y F T    +G  +    +               
Sbjct: 33  ILSGAPNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHKLNK--------------- 77

Query: 66  AIIKLVDIAGLVSGASKGEGLGNK----FLAHIRETNIVIHVI 104
              +++D  GL+  A +            LAHI    +++ +I
Sbjct: 78  --YQIIDTPGLLDRAFENRNTIEMTTITALAHIN--GVILFII 116

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii} Length = 357

 Score = 61.8 bits (150), Expect = 7e-11
 Identities = 29/102 (28%), Positives = 41/102 (40%), Gaps = 19/102 (18%)

Query: 5   CGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF 64
             + G PNVGKSTL  ALT  K    +YPF T   N+G  E    R              
Sbjct: 170 VVIAGHPNVGKSTLLKALTTAKPEIASYPFTTRGINVGQFEDGYFR-------------- 215

Query: 65  PAIIKLVDIAGLVSGAS--KGEGLGNKFLAHIRETNIVIHVI 104
               +++D  GL+      + E      LA     N++I++ 
Sbjct: 216 ---YQIIDTPGLLDRPISERNEIEKQAILALRYLGNLIIYIF 254

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 62.6 bits (151), Expect = 8e-11
 Identities = 68/389 (17%), Positives = 130/389 (33%), Gaps = 110/389 (28%)

Query: 20  NALTKLKISAENYPFCTIEPNIGII-EVPDKR-LKHLNNIVKT------KKIF----PAI 67
             L +L + ++ Y  C +     ++  V + +     N   K       K++      A 
Sbjct: 232 AELRRL-LKSKPYENCLL-----VLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAAT 285

Query: 68  IKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEV 127
              + +       +  E              +++  + C +   +       NP   + +
Sbjct: 286 TTHISLDHHSMTLTPDEVKS-----------LLLKYLDC-RPQDLPREVLTTNPRRLS-I 332

Query: 128 IQTELILSDLAILEKY----IDKENK--KFFLKNEHSIELLKLLKRI-IFNLNKSIPIRL 180
           I  E I   LA  + +     DK     +  L      E  K+  R+ +F  +  IP  L
Sbjct: 333 I-AESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTIL 391

Query: 181 MSL-----NNEELMSIKFLNLLTIKPIIFVANVKENGFKNNL-LLD-QLKIYAHNQNIPI 233
           +SL        ++M +  +N L    ++     ++   ++ + +    L++    +N   
Sbjct: 392 LSLIWFDVIKSDVMVV--VNKLHKYSLV-----EKQPKESTISIPSIYLELKVKLENEY- 443

Query: 234 IIICAKLEEEISDLNNIDKKFFLDNLG---------------LKETKLNDLIRASFS--L 276
                 L   I D  NI K F  D+L                LK  +  + +   F    
Sbjct: 444 -----ALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERM-TLFRMVF 497

Query: 277 LDLRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHT--DIKRGFIRALTISYKDFLLYKGEQ 334
           LD R  F + +K IR     + T    +  I++T   +K          YK ++      
Sbjct: 498 LDFR--F-LEQK-IRH----DSTAWNASGSILNTLQQLKF---------YKPYI------ 534

Query: 335 GCKNAGKIRSEGKKYLVEDGDILNFLFNI 363
            C N  K     ++ +     IL+FL  I
Sbjct: 535 -CDNDPKY----ERLV---NAILDFLPKI 555

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 49.9 bits (118), Expect = 9e-07
 Identities = 53/344 (15%), Positives = 97/344 (28%), Gaps = 113/344 (32%)

Query: 17  TLFNALTKLKISAENYP--FCTIEP-NIGII-----EVPD--KRLKHLNNIVKTKKIFPA 66
           +L   L  L    ++ P    T  P  + II     +        KH+N   K   I  +
Sbjct: 305 SLL--LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCD-KLTTIIES 361

Query: 67  IIKLVDIAGLVSGASKGEGLGNKFLAHIRE--TNIVIHVIRCFKDDKITHISGEINPI-- 122
            + +++ A                    R+    + +     F      HI   +  +  
Sbjct: 362 SLNVLEPAEY------------------RKMFDRLSV-----FPPS--AHIPTILLSLIW 396

Query: 123 HDAEVIQTELILSDLAILEKY--IDKENKKF--------FLKNEHSIELLKLLKRII--- 169
            D       ++++ L    KY  ++K+ K+                     L + I+   
Sbjct: 397 FDVIKSDVMVVVNKL---HKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHY 453

Query: 170 -----FNLNKSIPIR------------LMSLNNEE---LMSIKFLNL--LTIKPIIFVAN 207
                F+ +  IP              L ++ + E   L  + FL+   L  K       
Sbjct: 454 NIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTA 513

Query: 208 VKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLN 267
              +G   N L   LK Y                          K +  DN    E  +N
Sbjct: 514 WNASGSILNTLQQ-LKFY--------------------------KPYICDNDPKYERLVN 546

Query: 268 DLIRASFSLLDLRTYFTVGK-KEI--RAWTIPNGTTAEQAAGII 308
            ++   F L  +       K  ++   A    +    E+A   +
Sbjct: 547 AILD--F-LPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQV 587

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii} Length = 188

 Score = 47.9 bits (115), Expect = 7e-07
 Identities = 22/51 (43%), Positives = 30/51 (58%)

Query: 2  NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLK 52
          + +  LIG PNVGKST+FNALT   +   N+P  T+E   G  E   ++ K
Sbjct: 7  SYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNGEKFK 57

>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* Length = 165

 Score = 47.5 bits (114), Expect = 7e-07
 Identities = 22/51 (43%), Positives = 30/51 (58%)

Query: 2  NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLK 52
          + +  LIG PNVGKST+FNALT   +   N+P  T+E   G  E   ++ K
Sbjct: 3  SYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNGEKFK 53

>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* Length = 274

 Score = 47.7 bits (114), Expect = 2e-06
 Identities = 20/51 (39%), Positives = 26/51 (50%)

Query: 2  NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLK 52
           L  GLIG PN GK+TLFN LT  +    N+   T+E   G     D ++ 
Sbjct: 3  KLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTDHQVT 53

>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 Length = 258

 Score = 46.9 bits (112), Expect = 3e-06
 Identities = 20/50 (40%), Positives = 27/50 (54%)

Query: 3  LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLK 52
          +K  L G PNVGK++LFNALT  K    N+P  T+E   G+       + 
Sbjct: 6  VKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYKGYTIN 55

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus} Length = 271

 Score = 46.9 bits (112), Expect = 4e-06
 Identities = 22/52 (42%), Positives = 31/52 (59%)

Query: 1  MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLK 52
          +     L+G PNVGK+T+FNALT L+    N+P  T+E   GI+E  +K   
Sbjct: 2  VLKTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYREKEFL 53

>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} Length = 256

 Score = 46.5 bits (111), Expect = 4e-06
 Identities = 19/49 (38%), Positives = 26/49 (53%)

Query: 4  KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLK 52
             LIG PN GK+TLFNALT       N+P  T+E   G   + +  ++
Sbjct: 3  HALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGEHLIE 51

>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 Length = 190

 Score = 43.1 bits (102), Expect = 3e-05
 Identities = 13/39 (33%), Positives = 16/39 (41%)

Query: 7  LIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIE 45
            G  NVGKSTL   LT  K+     P  T +      +
Sbjct: 6  FAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKIIEIEWK 44

>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* Length = 272

 Score = 43.8 bits (104), Expect = 3e-05
 Identities = 16/42 (38%), Positives = 24/42 (57%)

Query: 3  LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGII 44
           +  LIG PN GK++LFN +T       N+P  T+E   G++
Sbjct: 4  TEIALIGNPNSGKTSLFNLITGHNQRVGNWPGVTVERKSGLV 45

>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 Length = 364

 Score = 43.8 bits (104), Expect = 6e-05
 Identities = 13/33 (39%), Positives = 20/33 (60%)

Query: 7   LIGLPNVGKSTLFNALTKLKISAENYPFCTIEP 39
           ++G  N GK++LFN+LT L    +   F T+ P
Sbjct: 184 IVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSP 216

>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* Length = 308

 Score = 42.1 bits (100), Expect = 1e-04
 Identities = 15/30 (50%), Positives = 20/30 (66%), Gaps = 3/30 (10%)

Query: 2  NLKCG---LIGLPNVGKSTLFNALTKLKIS 28
          ++K G   ++G PNVGKSTL N L   K+S
Sbjct: 7  HMKVGYVAIVGKPNVGKSTLLNNLLGTKVS 36

>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 Length = 301

 Score = 42.1 bits (100), Expect = 2e-04
 Identities = 13/28 (46%), Positives = 18/28 (64%), Gaps = 3/28 (10%)

Query: 4  KCG---LIGLPNVGKSTLFNALTKLKIS 28
            G   ++G PNVGKSTL N L  +K++
Sbjct: 6  YSGFVAIVGKPNVGKSTLLNNLLGVKVA 33

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus} Length = 161

 Score = 40.5 bits (96), Expect = 2e-04
 Identities = 12/22 (54%), Positives = 17/22 (77%)

Query: 7  LIGLPNVGKSTLFNALTKLKIS 28
          ++G PNVGKS+LFN L K + +
Sbjct: 6  IVGRPNVGKSSLFNRLLKKRSA 27

>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 Length = 301

 Score = 42.1 bits (100), Expect = 2e-04
 Identities = 16/28 (57%), Positives = 18/28 (64%), Gaps = 3/28 (10%)

Query: 4  KCG---LIGLPNVGKSTLFNALTKLKIS 28
           CG   ++G PNVGKSTL N L   KIS
Sbjct: 7  YCGFIAIVGRPNVGKSTLLNKLLGQKIS 34

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana} Length = 423

 Score = 40.8 bits (96), Expect = 4e-04
 Identities = 10/23 (43%), Positives = 13/23 (56%)

Query: 6  GLIGLPNVGKSTLFNALTKLKIS 28
           + G  NVGKS+  NAL    +S
Sbjct: 38 VVAGRRNVGKSSFMNALVGQNVS 60

>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 Length = 439

 Score = 40.9 bits (97), Expect = 5e-04
 Identities = 14/22 (63%), Positives = 17/22 (77%)

Query: 7  LIGLPNVGKSTLFNALTKLKIS 28
          ++G PNVGKSTLFN L K K +
Sbjct: 6  IVGRPNVGKSTLFNKLVKKKKA 27

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis} Length = 436

 Score = 40.9 bits (97), Expect = 5e-04
 Identities = 12/22 (54%), Positives = 17/22 (77%)

Query: 7  LIGLPNVGKSTLFNALTKLKIS 28
          ++G PNVGKST+FN +   +IS
Sbjct: 8  IVGRPNVGKSTIFNRIAGERIS 29

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	363
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	100.0
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	100.0
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	100.0
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	100.0
1wxq_A	397	GTP-binding protein; structural genomics, riken st	100.0
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	100.0
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.81
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.8
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.77
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.76
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.76
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.75
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.75
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.74
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.74
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.73
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.73
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.72
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.72
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.72
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.72
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.72
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.72
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.72
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.72
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.72
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.72
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.71
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.71
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.71
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.71
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.71
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.71
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.71
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.71
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.71
2eki_A	93	DRG 1, developmentally-regulated GTP-binding prote	99.71
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.7
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.7
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.7
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.7
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.7
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.7
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.7
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.7
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.7
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.7
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.7
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.7
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.69
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.69
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.69
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.69
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.69
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.69
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.69
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.69
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.69
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.69
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.69
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.69
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.69
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.69
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.69
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.68
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.68
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.68
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.68
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.68
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.68
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.68
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.68
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.68
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.68
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.68
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.68
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.67
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.67
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.67
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.67
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.67
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.67
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.67
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.66
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.66
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.66
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.66
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.66
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.65
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.65
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.65
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.65
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.65
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.65
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.65
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.65
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.65
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.65
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.64
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.64
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.64
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.64
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.64
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.64
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.64
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.64
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.64
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.64
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.63
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.63
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.63
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.63
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.63
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.63
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.63
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.63
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.63
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.62
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.62
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.62
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.62
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.62
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.62
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.61
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.61
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.6
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.6
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.6
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.6
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.6
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.59
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.59
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.59
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.59
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.59
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.59
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.59
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.58
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.58
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.57
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.56
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.56
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.56
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.55
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.55
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.54
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.54
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.53
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.52
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.52
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.51
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.26
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.51
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.49
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.49
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.48
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.48
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.47
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.47
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.46
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.46
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.45
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.45
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.45
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.44
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.44
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.43
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.42
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.42
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.4
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.39
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.38
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.38
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.37
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.37
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.36
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.36
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.36
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.36
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.35
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.35
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.32
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.32
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.32
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.31
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.3
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.3
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.29
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.25
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.24
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.19
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.18
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.16
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.16
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.14
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.11
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.08
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.07
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.05
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	99.03
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	98.98
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	98.92
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	98.91
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	98.89
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	98.87
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.82
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	98.75
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.6
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	98.59
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.59
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.56
3hvz_A	78	Uncharacterized protein; alpha-beta protein, struc	98.49
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	97.9
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	97.89
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	97.86
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	97.84
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	97.81
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	97.8
1g6h_A	257	High-affinity branched-chain amino acid transport	97.8
1b0u_A	262	Histidine permease; ABC transporter, transport pro	97.79
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.79
1sgw_A	214	Putative ABC transporter; structural genomics, P p	97.79
1ji0_A	240	ABC transporter; ATP binding protein, structural g	97.78
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	97.78
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	97.78
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	97.77
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	97.77
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	97.76
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	97.75
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	97.75
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	97.74
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	97.72
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	97.71
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	97.7
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	97.7
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	97.69
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	97.69
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	97.69
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	97.67
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.64
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	97.62
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	97.6
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	97.59
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	97.59
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	97.59
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	97.59
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	97.58
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.58
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	97.57
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	97.54
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	97.53
2ghi_A	260	Transport protein; multidrug resistance protein, M	97.53
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	97.51
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	97.5
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.5
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	97.5
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.45
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.44
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	97.44
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	97.43
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	97.42
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	97.4
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.39
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	97.38
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	97.35
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	97.31
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	97.31
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	97.29
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	97.28
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	97.25
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	97.24
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	97.21
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	97.2
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.19
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	97.19
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	97.19
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.19
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.16
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	97.16
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	97.15
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.15
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.15
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.14
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	97.13
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.1
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	97.06
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	97.04
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.01
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.99
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.96
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.96
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.95
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	96.93
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.93
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.91
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.89
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	96.89
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.85
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.85
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	96.85
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	96.84
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	96.84
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.83
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.82
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.81
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.78
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.77
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	96.76
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.76
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	96.76
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	96.75
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.74
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.72
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.72
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.68
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.67
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.66
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	96.65
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.62
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.62
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	96.62
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.61
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	96.61
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	96.61
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	96.59
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	96.57
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	96.57
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	96.55
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.55
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	96.55
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.55
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.53
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	96.53
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.53
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	96.5
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.48
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	96.46
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.45
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.43
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.43
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	96.37
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	96.36
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.35
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.35
2og2_A	359	Putative signal recognition particle receptor; nuc	96.34
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.31
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	96.28
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.28
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.27
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	96.23
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.23
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.18
3kta_A	182	Chromosome segregation protein SMC; structural mai	96.17
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.1
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.1
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.1
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.08
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.08
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.07
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.07
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.07
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.05
1via_A	175	Shikimate kinase; structural genomics, transferase	96.05
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.03
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.02
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.01
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.01
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.0
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	96.0
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.99
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.99
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	95.97
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.96
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.95
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	95.92
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.91
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.9
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.89
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.88
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.87
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.84
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	95.82
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.76
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	95.74
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	95.73
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.71
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.7
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.69
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	95.67
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.66
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	95.66
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	95.64
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.57
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	95.56
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.55
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.5
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.49
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.49
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.49
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	95.46
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	95.43
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.43
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.41
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	95.41
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.4
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.4
2xxa_A	433	Signal recognition particle protein; protein trans	95.4
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	95.39
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.39
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.33
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.32
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.3
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.22
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.22
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.2
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.2
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	95.2
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.18
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.17
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.16
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.15
4aby_A	415	DNA repair protein RECN; hydrolase, double strand	95.09
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.08
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.08
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.03
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.01
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	94.95
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	94.93
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	94.92
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	94.89
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	94.88
2cvh_A	220	DNA repair and recombination protein RADB; filamen	94.86
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	94.84
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	94.83
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	94.79
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	94.77
3qkt_A	339	DNA double-strand break repair RAD50 ATPase; RECA-	94.69
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	94.64
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	94.63
2kmm_A	73	Guanosine-3',5'-BIS(diphosphate) 3'- pyrophosphohy	94.6
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	94.53
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	94.46
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	94.42
1w1w_A	430	Structural maintenance of chromosome 1; cohesin, c	94.39
2o5v_A	359	DNA replication and repair protein RECF; ABC ATPas	94.38
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	94.37
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.31
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	94.3
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	94.29
1e69_A	322	Chromosome segregation SMC protein; structural mai	94.23
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	94.22
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	94.11
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	94.04
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	94.03
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	94.02
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	93.98
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	93.93
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	93.92
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	93.83
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	93.81
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	93.73
3cwq_A	209	Para family chromosome partitioning protein; alpha	93.68
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	93.64
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	93.63
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	93.58
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	93.58
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	93.48
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	93.45
3bos_A	242	Putative DNA replication factor; P-loop containing	93.44
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	93.31
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	93.27
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	93.06
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	93.05
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	93.0
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	92.99
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	92.95
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	92.79
3auy_A	371	DNA double-strand break repair RAD50 ATPase; DNA r	92.76
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	92.74
1tue_A	212	Replication protein E1; helicase, replication, E1E	92.66
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	92.66
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	92.63
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	92.6
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	92.52
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	92.5
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	92.47
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	92.46
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	92.44
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	92.4
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	92.32
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	92.3
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	92.26
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	92.22
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	92.22
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	92.19
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	92.17
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	92.13
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	92.12
2chg_A	226	Replication factor C small subunit; DNA-binding pr	91.95
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	91.87

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=100.00  E-value=5.1e-91  Score=673.81  Aligned_cols=363  Identities=51%  Similarity=0.892  Sum_probs=332.7

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      |+++|+|+|+||||||||||+|++..+.+++|||||++|+.|.+.+++.+++.+.+.+.|.+.++.++++|||||+.+++
T Consensus         1 m~~kI~IVG~pnvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~g~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~a   80 (363)
T 1jal_A            1 MGFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGA   80 (363)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceECceEEEEecCCcccceeeeeecccceeeeEEEEEECCCCcccc
Confidence            89999999999999999999999988889999999999999999999988888999999999999999999999999988


Q ss_pred             CcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHH
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIE  160 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~  160 (363)
                      +.+++++++|+++++++|+++||+|++++.+++|+.|++||.+|++.++.||.++|++.+++|+.+++|..++|++....
T Consensus        81 ~~~~gl~~~fl~~ir~ad~il~VvD~~~~~~v~~v~~~~dp~~d~~~i~~EL~~~d~~~~~k~~~~~~k~~k~g~~~~~~  160 (363)
T 1jal_A           81 SKGEGLGNKFLANIRETDAIGHVVRCFENDDIVHVAGKIDPLDDIDTINTELALADLDSCERAIQRLQKRAKGGDKEAKF  160 (363)
T ss_dssp             HHHGGGTCCHHHHHHTCSEEEEEEECSCC---------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCHHHHH
T ss_pred             cccchHHHHHHHHHHhcCeEEEEEecCCCCceeeecCCcChHHHHHHHHHHHHhhhHHHHhhHHHHHHHHhhccchhHHH
Confidence            88888999999999999999999999999999999999999999999999999999999999999999887777777777


Q ss_pred             HHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHH
Q psy2401         161 LLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL  240 (363)
Q Consensus       161 ~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~  240 (363)
                      +.+++++++++|+++.+.+.+.|+++|...++.+.+++.||++|++|++|.++.++++.+.+++++..++.+++++||++
T Consensus       161 ~~~~l~~~~~~L~~~~~~~~~~~~~~e~~~l~~~~llt~KPvi~v~N~~e~~~~~n~~~~~v~~~~~~~~~~~i~~sA~~  240 (363)
T 1jal_A          161 ELSVMEKILPVLENAGMIRSVGLDKEELQAIKSYNFLTLKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAAI  240 (363)
T ss_dssp             HHHHHHHHHHHHHTTCCGGGSCCCHHHHHHHGGGCCSTTSCEEEEEECCTTCSSSCHHHHHHHHHHHHTTCEEEEECHHH
T ss_pred             HHHHHHHHHHHHhcCCCccccCCCHHHHHHHHHhhcccCCcEEEEEecccccccccHHHHHHHHHHHHcCCCEEEechHH
Confidence            78899999999999999988899999999999999999999999999999765457899999999988888999999999


Q ss_pred             HHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeCCCCceEEEeecCCCCHHHhhhhhhcchhcccEEEE
Q psy2401         241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRAL  320 (363)
Q Consensus       241 e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~g~~e~raw~~~~g~ta~~~A~~IHsD~~~gfi~A~  320 (363)
                      |++|++|+++++.+||+++|+.++|++++++++|++|+||+|||+||+|+||||+++|+||+||||+|||||+|||||||
T Consensus       241 E~el~~l~~~e~~~~l~~~g~~~~gl~~li~~~~~~L~li~~ft~g~~e~raw~i~~G~ta~~aAg~IH~D~~~gFi~Ae  320 (363)
T 1jal_A          241 ESEIAELDDEEKVEFLQDLGIEEPGLNRVIRAGYALLNLQTYFTAGVKEVRAWTVSVGATAPKAAAVIHTDFEKGFIRAE  320 (363)
T ss_dssp             HHHGGGSCSSTTHHHHTTSSCCSCTTHHHHHHHHHHTTEEEEEEECSSEEEEEEEETTCBHHHHHHTTCTTHHHHCCEEE
T ss_pred             HHHHHhcCHHHHHHHHHHhCcccccHHHHHHHHHHHhCCEEEECCCCCCcceeEecCCCcHHHHHHhhHHHHHhccEEEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EecccccccccChhhHhhcCceeecCCCeeeeCCCEEEEEecC
Q psy2401         321 TISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFLFNI  363 (363)
Q Consensus       321 v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~~~f~~  363 (363)
                      ||+|+||+++||++.||++|++|+|||||+|||||||+|||||
T Consensus       321 v~~~~d~~~~~~~~~~k~~g~~r~egk~y~v~dgDii~f~fn~  363 (363)
T 1jal_A          321 VIAYEDFIQFNGENGAKEAGKWRLEGKDYIVQDGDVMHFRFNV  363 (363)
T ss_dssp             EECHHHHHHTTSHHHHHHTTCCEEECTTCBCCTTCEEEEESCC
T ss_pred             EcCHHHHHHhCCHHHHHhcCCeeccCCccEecCCCEEEEEecC
Confidence            9999999999999999999999999999999999999999997

>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=100.00  E-value=2.4e-86  Score=644.48  Aligned_cols=360  Identities=43%  Similarity=0.730  Sum_probs=325.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcccccccccccccc----ccceeEEEEeeecccC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKK----IFPAIIKLVDIAGLVS   78 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~----~~~~~i~lvDtpGl~~   78 (363)
                      ++|+|+|+||||||||||+|++..+.+++|||+|+.|+.|.+.+++.+++.+...+++.+    ..+.++++|||||+.+
T Consensus         2 ~~v~IVG~pnvGKSTL~n~L~~~~~~v~~~p~~Ti~pn~g~~~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvDtpGl~~   81 (368)
T 2dby_A            2 LAVGIVGLPNVGKSTLFNALTRANALAANYPFATIDKNVGVVPLEDERLYALQRTFAKGERVPPVVPTHVEFVDIAGLVK   81 (368)
T ss_dssp             CSEEEECCSSSSHHHHHHHHHHHHTTCSSCCGGGGSTTEEEEECCCHHHHHHHHHHCBTTBCCCEECCEEEEEECCSCCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeccceeeEecChHHHHHHHHHhcccccccccCCceEEEEECCCccc
Confidence            789999999999999999999987778999999999999999999988888888888877    6678899999999999


Q ss_pred             CCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchh
Q psy2401          79 GASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHS  158 (363)
Q Consensus        79 ~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~  158 (363)
                      +++.+++++++|+++++.+|+++||+|++++.+++|+.|++||.+|++.+++||.++|++.+++++.++.+..+ +++..
T Consensus        82 ~a~~~~~lg~~fl~~ir~ad~ii~VvD~~~~~~~~~v~~~~dp~~d~~~i~~EL~~~d~~~l~k~~~~~~~~~~-~~~~~  160 (368)
T 2dby_A           82 GAHKGEGLGNQFLAHIREVAAIAHVLRCFPDPDVVHVMGRVDPLEDAEVVETELLLADLATLERRLERLRKEAR-ADRER  160 (368)
T ss_dssp             CCCSSSCTTHHHHHHHHTCSEEEEEEECCCCH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HCGGG
T ss_pred             cccccchHHHHHHHHHHhCCEEEEEEECCCCCceeEeecccChHHHHHHHhhHHHHccHHHHHHHHHHHHhhhc-cchhH
Confidence            99888899999999999999999999999999999999999999999999999999999999999998887644 35566


Q ss_pred             HHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCC-c--hHHHHHHHHHHhcCCCcEEE
Q psy2401         159 IELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFK-N--NLLLDQLKIYAHNQNIPIII  235 (363)
Q Consensus       159 ~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~-~--~~~~~~i~~~~~~~~~~~i~  235 (363)
                      ..+.+++++++++|+++.+.+.++|+++++..++.+.+++.||++|++||+|.++. .  +.+.+.+++++..++.++++
T Consensus       161 ~~~~~~l~~~~~~L~~~~~~~~~~~~~~~~~~l~~~~~lt~KPvi~v~N~~e~d~~~~~~n~~~~~v~~~a~~~g~~vv~  240 (368)
T 2dby_A          161 LPLLEAAEGLYVHLQEGKPARTFPPSEAVARFLKETPLLTAKPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEGAEVVV  240 (368)
T ss_dssp             HHHHHHHHHHHHHHHTTCCGGGSCCCHHHHHHHHHSCCGGGSCEEEEEECCGGGTTTCTTCHHHHHHHHHHHHHTCEEEE
T ss_pred             HHHHHHHHHHHHHHhcCCCcccCCCCHHHHHHHHHHhhhhcCCeEEeccccHHhhcccchhhHHHHHHHHHHHcCCeEEE
Confidence            67788999999999999888878899999999999999999999999999986542 2  67899999998877889999


Q ss_pred             eeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeCCCCceEEEeecCCCCHHHhhhhhhcchhcc
Q psy2401         236 ICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRG  315 (363)
Q Consensus       236 ~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~g~~e~raw~~~~g~ta~~~A~~IHsD~~~g  315 (363)
                      +||++|++|.+|+++++.+||+++|+.++|++++++++|++|+||+|||+||+|+||||+++|+||+||||+|||||+||
T Consensus       241 iSAk~E~el~eL~~~~~~~~l~~~g~~~~gl~~li~~~~~~L~li~~ft~g~~e~~aw~i~~g~ta~~~a~~IH~d~~~~  320 (368)
T 2dby_A          241 VSARLEAELAELSGEEARELLAAYGLQESGLQRLARAGYRALDLLTFFTAGEKEVRAWTVRRGTKAPRAAGEIHSDMERG  320 (368)
T ss_dssp             ECHHHHHHHHTSCHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTEEEEEEESSSCEEEEEEETTCBHHHHHHHHCHHHHHS
T ss_pred             eechhHHHHHHhchHHHHHHHHHhCcchhhHHHHHHHHHHHhCCEEEECCCCCCcceEEecCCCcHHHHHHhhHHHHHhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEEEEEecC
Q psy2401         316 FIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFLFNI  363 (363)
Q Consensus       316 fi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~~~f~~  363 (363)
                      |||||||+|+||+++||++.||++|++|+|||||+|||||||+|||||
T Consensus       321 fi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdi~~~~f~~  368 (368)
T 2dby_A          321 FIRAEVIPWDKLVEAGGWARAKERGWVRLEGKDYEVQDGDVIYVLFNA  368 (368)
T ss_dssp             CCEEEEEEHHHHHHHTSHHHHHHTTCCEEECTTCBCCTTEEEEEEC--
T ss_pred             CeEEEEccHHHHHHhCCHHHHHhcCCccccCCCceecCCCEEEEEecC
Confidence            999999999999999999999999999999999999999999999997

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=100.00  E-value=2.8e-86  Score=646.31  Aligned_cols=362  Identities=40%  Similarity=0.673  Sum_probs=296.1

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      |+++|+|+|+||||||||||+|++..+.++++||||++|+.|.+.+++.++..+++.+.|.+.++.++++|||||+.+++
T Consensus        21 ~~~kvgIVG~pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~~~a  100 (396)
T 2ohf_A           21 TSLKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLVKGA  100 (396)
T ss_dssp             SCCCEEEECCSSSSHHHHHHHHHC-------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC-----
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCccccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCccccc
Confidence            46899999999999999999999988889999999999999999999988888888888988889999999999999999


Q ss_pred             CcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhccccc-CCchhH
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFL-KNEHSI  159 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~-g~~~~~  159 (363)
                      +.++++++.++++++++|+++||+|++++.++.|+.+..||+++++.++.||.+++++.+++++.++.+..++ |++...
T Consensus       101 s~~~glg~~~l~~ir~aD~Il~VvD~~~~~~i~~v~~~~dP~~di~~i~~El~l~d~~~~~k~~~~~~k~~~~~g~~~~~  180 (396)
T 2ohf_A          101 HNGQGLGNAFLSHISACDGIFHLTRAFEDDDITHVEGSVDPIRDIEIIHEELQLKDEEMIGPIIDKLEKVAVRGGDKKLK  180 (396)
T ss_dssp             ------CCHHHHHHHTSSSEEEEEEC------------CTTHHHHHHHHHHHHHHHHHHHHHHHHTTCSCC--------C
T ss_pred             chhhHHHHHHHHHHHhcCeEEEEEecCCCcchhhhcCCCChHHHHHHhhhhhhhhhHHHHHHhhhhhhhhhhcccchhhh
Confidence            8889999999999999999999999999999999999999999999999999999999999999999988654 444444


Q ss_pred             HHHHHHHHHHhhhcCC-Cccc-ccCCChHHHHHHhhhcccccccEEEeccccccCC--CchHHHHHHHHHHhc--CCCcE
Q psy2401         160 ELLKLLKRIIFNLNKS-IPIR-LMSLNNEELMSIKFLNLLTIKPIIFVANVKENGF--KNNLLLDQLKIYAHN--QNIPI  233 (363)
Q Consensus       160 ~~~~~l~~i~~~L~~~-~~~~-~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~--~~~~~~~~i~~~~~~--~~~~~  233 (363)
                      ...+++++++++|+++ .+++ ...|+.+|.+.++.+.+++.||++|++|+.+.++  ..+++.+.+++++..  .+.++
T Consensus       181 ~~~~ll~~i~~~L~e~~~~~~~~~~~~~~e~e~i~~~~llt~KPviy~~Nv~e~~~~~~~n~~~~~v~~~~~~~~~~~~~  260 (396)
T 2ohf_A          181 PEYDIMCKVKSWVIDQKKPVRFYHDWNDKEIEVLNKHLFLTSKPMVYLVNLSEKDYIRKKNKWLIKIKEWVDKYDPGALV  260 (396)
T ss_dssp             CHHHHHHHHHHHTTC--CCGGGCCCCCHHHHHHHHHHCCGGGSCEEEEEECCHHHHHHTCCHHHHHHHHHHHHHSTTCEE
T ss_pred             hHHHHHHHHHHHHHhcCcchhhcccCCHHHHHHHHHHHHHhCCceEEEEEecHHHhcccccHHHHHHHHHHHhhCCCCeE
Confidence            5678999999999998 6665 3479999888889999999999999999986543  236788889988765  46789


Q ss_pred             EEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeCCCCceEEEeecCCCCHHHhhhhhhcchh
Q psy2401         234 IIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIK  313 (363)
Q Consensus       234 i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~g~~e~raw~~~~g~ta~~~A~~IHsD~~  313 (363)
                      +++||++|.+|++|+++++.+||+++|++ +|++++++++|++|+||+|||+||||+||||+++|+||+||||+|||||+
T Consensus       261 v~~sa~~E~~l~~l~~~e~~~~l~~~g~~-~~l~~li~~~~~~L~li~~fT~g~~evrawti~~g~ta~~aAg~IH~D~~  339 (396)
T 2ohf_A          261 IPFSGALELKLQELSAEERQKYLEANMTQ-SALPKIIKAGFAALQLEYFFTAGPDEVRAWTIRKGTKAPQAAGKIHTDFE  339 (396)
T ss_dssp             EEECHHHHHHHHHSCHHHHHHHHHHTTCC-CSHHHHHHHHHHHTTEEEEEEESSSEEEEEEEETTCBHHHHHHTTCTHHH
T ss_pred             EEEEcHHHHHHhhCCHHHHHHHHHHhCCC-chHHHHHHHHHHHhCCEEEECCCCCcceeEEecCCCcHHHHHhhhHHHHH
Confidence            99999999999999999999999999985 99999999999999999999999999999999999999999999999999


Q ss_pred             cccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEEEEEecC
Q psy2401         314 RGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFLFNI  363 (363)
Q Consensus       314 ~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~~~f~~  363 (363)
                      |||||||||+|+||+++||++.||++|++|++||||+|||||||+|||||
T Consensus       340 ~gFi~Aev~~~~d~~~~g~~~~~k~~g~~r~~Gk~y~v~dgDii~f~fn~  389 (396)
T 2ohf_A          340 KGFIMAEVMKYEDFKEEGSENAVKAAGKYRQQGRNYIVEDGDIIFFKFNT  389 (396)
T ss_dssp             HHEEEEEEECHHHHHHHCSHHHHHHTTCCEEECTTCBCCTTCEEEEEEC-
T ss_pred             hcceEEEEccHHHHHHhCCHHHHHhcCcccccCCCceeeCCCEEEEEecC
Confidence            99999999999999999999999999999999999999999999999997

>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=100.00  E-value=6.3e-85  Score=638.20  Aligned_cols=362  Identities=36%  Similarity=0.638  Sum_probs=335.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHcCCc-cccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCC
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTKLKI-SAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~~~~-~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      |+.++||+|+||||||||||+|++..+ .++++||||++|+.|.+.+++.+++.+.+.++|.+.++..+.++|+||+..+
T Consensus        19 ~g~~vgiVG~pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl~~~   98 (392)
T 1ni3_A           19 NNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKG   98 (392)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEeccccccC
Confidence            457999999999999999999999876 8999999999999999999998888888999999999999999999999999


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcc-cccC----
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKK-FFLK----  154 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~-~~~g----  154 (363)
                      .+.++++++.|+.+++.+|++++|+|++++.++.|+.|..||++++..+.+|+..+|++.+++++.++.+. .++|    
T Consensus        99 ~s~~e~L~~~fl~~ir~~d~il~Vvd~~~d~~i~~v~~~~dP~~di~ildeel~~~D~~~~~k~~~~l~~~~~~~g~ti~  178 (392)
T 1ni3_A           99 ASTGVGLGNAFLSHVRAVDAIYQVVRAFDDAEIIHVEGDVDPIRDLSIIVDELLIKDAEFVEKHLEGLRKITSRGANTLE  178 (392)
T ss_dssp             CCSSSSSCHHHHHHHTTCSEEEEEEECCCTTCSSCCSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSSCSSS
T ss_pred             CcHHHHHHHHHHHHHHHHHHHHHHHhccccceeeeeccccCcchhhhhchhhhHHHHHHHHHHHHHHHHHHHHhcCCccc
Confidence            99999999999999999999999999999999999999999999999999999999999999988888877 5554    


Q ss_pred             CchhHHHHHHHHHHHhhhcCC-CcccccCCChHHHHHHhhhcccccccEEEeccccccCCC--chHHHHHHHHHHhcCC-
Q psy2401         155 NEHSIELLKLLKRIIFNLNKS-IPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFK--NNLLLDQLKIYAHNQN-  230 (363)
Q Consensus       155 ~~~~~~~~~~l~~i~~~L~~~-~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~--~~~~~~~i~~~~~~~~-  230 (363)
                      .+......++++++.++|+++ ++++...|+++|++.++.+.+++.||++|++|++|.++.  .+++.+++++++.+++ 
T Consensus       179 sh~~~~~~~l~~~i~~~L~~G~~~~~~~~~~~~e~e~i~~~~~lt~kp~~y~~Nv~e~~~~~~~~~~~~~~~~~~~~~~p  258 (392)
T 1ni3_A          179 MKAKKEEQAIIEKVYQYLTETKQPIRKGDWSNREVEIINSLYLLTAKPVIYLVNMSERDFLRQKNKYLPKIKKWIDENSP  258 (392)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCSCGGGSCCCHHHHHHHHTTCCGGGSCEEEEEECCHHHHTTTCCSSHHHHHHHHHTTST
T ss_pred             cccHHHHHHHHHHHHHHhccCCceeecCCCCHHHHHHHHHHhhhccCceEEEEEecchhhcccchHHHHHHHHHHHhcCC
Confidence            344455677899999999999 888877899999889999999999999999999996532  3678999999988765 


Q ss_pred             -CcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeCCCCceEEEeecCCCCHHHhhhhhh
Q psy2401         231 -IPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNGTTAEQAAGIIH  309 (363)
Q Consensus       231 -~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~g~~e~raw~~~~g~ta~~~A~~IH  309 (363)
                       .+++++||++|.+|++|+++++.+||+++| +++|++++++++|++|+||+|||+||+|+||||+++|+||+||||+||
T Consensus       259 ~~~~v~~sa~~E~~l~~l~~~~~~~~l~~~g-~~~gl~~~i~~~~~~L~l~~~ft~g~~e~rawti~~G~~a~~aag~IH  337 (392)
T 1ni3_A          259 GDTLIPMSVAFEERLTNFTEEEAIEECKKLN-TKSMLPKIIVTGYNALNLINYFTCGEDEVRSWTIRKGTKAPQAAGVIH  337 (392)
T ss_dssp             TCCEEEECHHHHHHHTTSCHHHHHHHHHHTT-CCCSHHHHHHHHHHHTTEEEEEECCSSEEEEEEEETTCBHHHHHHHHC
T ss_pred             CCeEEEEEhHHHHHHhhCCHHHHHHHHHHhC-CcccHHHHHHHHHHHhCCEEEECCCCCcceeEEeCCCCcHHHHccccc
Confidence             789999999999999999999999999999 899999999999999999999999999999999999999999999999


Q ss_pred             cchhcccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEEEEEecC
Q psy2401         310 TDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFLFNI  363 (363)
Q Consensus       310 sD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~~~f~~  363 (363)
                      |||+|||||||||+|+||+++||++.||++|++|+|||||+|||||||+||||+
T Consensus       338 ~d~~~gfi~ae~~~~~d~~~~g~~~~~k~~g~~r~~gk~y~v~dgdv~~f~f~~  391 (392)
T 1ni3_A          338 TDFEKAFVVGEIMHYQDLFDYKTENACRAAGKYLTKGKEYVMESGDIAHWKAGK  391 (392)
T ss_dssp             HHHHHTCSEEEEECHHHHHHHTSHHHHHHTTCSCEEETTCBCCTTCEEECC---
T ss_pred             hhhhhccEEEEECCHHHHHHcCCHHHHHHcCCccccCCceeeeCCCEEEEEccC
Confidence            999999999999999999999999999999999999999999999999999996

>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=100.00  E-value=2.2e-57  Score=446.04  Aligned_cols=334  Identities=28%  Similarity=0.406  Sum_probs=240.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEE----eCCccccccccccccc------cccceeEEEEe
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIE----VPDKRLKHLNNIVKTK------KIFPAIIKLVD   72 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~----~~~~~~~~l~~~~~~~------~~~~~~i~lvD   72 (363)
                      ++|+|+|+||||||||||+|++..+.++++||||++|+.|.+.    +++.++   ...+.|.      .....++++||
T Consensus         1 ~kI~ivG~pnvGKSTL~n~L~~~~~~~~~~p~tT~~~~~g~~~~~~~~~~~~l---~~~~~p~~~~~~~~~~~~~i~lvD   77 (397)
T 1wxq_A            1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKEL---GCSPNPQNYEYRNGLALIPVKMVD   77 (397)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSS---CCSCCCSSSCEETTEEEEEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCcccCCceEEEeeccCCchHHh---hhhcccccccccCCcceEEEEEEE
Confidence            5899999999999999999999887889999999999999754    334333   3333332      11125699999


Q ss_pred             eecccCCCCcccchhhHHHhhccccCEEEEEEecccCCce-eeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhccc
Q psy2401          73 IAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKI-THISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKF  151 (363)
Q Consensus        73 tpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~-~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~  151 (363)
                      |||+.++++.+++++++++.+++.+|++++|+|++++..+ ..+.+.+||.+|++.++.||.++|++.+++++.++.|..
T Consensus        78 tpG~~~~a~~~~~l~~~~l~~i~~aD~il~VvD~~~~~~~~g~~~~~~dp~~d~~~i~~EL~~~d~~~l~~~~~~~~k~~  157 (397)
T 1wxq_A           78 VAGLVPGAHEGRGLGNKFLDDLRMASALIHVVDATGKTDPEGQPTDYHDPVEDIEFLEREIDYWIYGILSKGWDKFAKRI  157 (397)
T ss_dssp             CC---------------CCCSSTTCSEEEEEEETTCCBCTTSCBCSCCCHHHHHHHHHHHHHHHHHHHHHTTTHHHHSTT
T ss_pred             CCCcccchhhhhhHHHHHHHHHhcCCEEEEEEecccccCCCCcccCCCCcHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            9999988888888899999999999999999999876211 112225699999999999999999999999999998776


Q ss_pred             ccCCchhHHH-----------HHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHH
Q psy2401         152 FLKNEHSIEL-----------LKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLD  220 (363)
Q Consensus       152 ~~g~~~~~~~-----------~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~  220 (363)
                      +.++......           .+.+.++.+.|+.+.+.  ..|+.++...+..+.+++.||++|++||+|..  .+++.+
T Consensus       158 ~~~~~~~~~~~~~~l~g~~~~~~~~~~~l~~l~~~~~~--~~~~~~e~~~l~~~~~~~~kP~i~v~NK~D~~--~~~~l~  233 (397)
T 1wxq_A          158 KLQKIKLESAIAEHLSGIGVNENDVWEAMHKLNLPEDP--TKWSQDDLLAFASEIRRVNKPMVIAANKADAA--SDEQIK  233 (397)
T ss_dssp             TSSCCCHHHHHHHHTGGGTCCHHHHHHHHHHTTCCSCG--GGCCHHHHHHHHHHHHHHHSCEEEEEECGGGS--CHHHHH
T ss_pred             hhcCccHHHHHHHHhcccCCCHHHHHHHHHHhccCCcc--ccCCHHHHHHHHHhhhccCCCEEEEEeCcccc--chHHHH
Confidence            6554332221           24566777777776663  36898887778778788899999999999975  466777


Q ss_pred             HHHHHHhcCCCcEEEeeHHHHHHHhcC---------------------CHHHHH-------HHHhhcCCCchhHHHHHH-
Q psy2401         221 QLKIYAHNQNIPIIIICAKLEEEISDL---------------------NNIDKK-------FFLDNLGLKETKLNDLIR-  271 (363)
Q Consensus       221 ~i~~~~~~~~~~~i~~sa~~e~~i~el---------------------~~~~~~-------~~l~~~~l~~~~l~~l~~-  271 (363)
                      ++.+.+...+.+++++||+.|.++.++                     ++++++       +||+.+|  ++|++++++ 
T Consensus       234 ~l~~~~~~~~~~vv~iSA~~e~~l~~L~~~~l~~~~p~~~~~~~~~~l~~~~~~~~e~ire~~l~~~g--~~g~~~~i~~  311 (397)
T 1wxq_A          234 RLVREEEKRGYIVIPTSAAAELTLRKAAKAGFIEYIPGASEFKVLRDMSEKQKRALMVIKEKVLDRFG--STGVQEVINR  311 (397)
T ss_dssp             HHHHHHHHTTCEEEEECHHHHHHHHSCSSSCCCCSCC-----------------CTTHHHHHHTSSSS--SCSHHHHHHH
T ss_pred             HHHHHHhhcCCcEEEEeccchhhHHHHHhhhhhhhcCCCccccccccCCHHHHHHHHHHHHHHHHHhC--cchHHHHHHH
Confidence            777766555678999999999999874                     444433       7888888  799999997 


Q ss_pred             HHHHhCCCEEEEeCC----------CCceEEEeecCCCCHHHhhhhhhcchhcccEEEEEecccccccccChhhHhhcCc
Q psy2401         272 ASFSLLDLRTYFTVG----------KKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGK  341 (363)
Q Consensus       272 ~~~~~l~li~~ft~g----------~~e~raw~~~~g~ta~~~A~~IHsD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~  341 (363)
                      ++|++|+||+|||+|          ++++|||++++|+||+|+|++|||||+++|++|+              ++  +|+
T Consensus       312 ~~~~~L~li~vft~~~~~~~~~~~g~~~~~~~~l~~G~t~~d~a~~iH~d~~~~f~~a~--------------~~--~~~  375 (397)
T 1wxq_A          312 VVFDLLKLIPVYPVHDENKLTDQFGNVLPHVFLMKKGSTPRDLAFKVHTDLGKGFLYAI--------------NA--RTK  375 (397)
T ss_dssp             HHHTTSCEEEEEEESCC-----CCSCSSCCCEEEETTCCHHHHHHHHCHHHHHTEEEEE--------------ET--TTC
T ss_pred             HHHHHhCCeEEEeecccccccCCcCcccceeEEeCCCCCHHHHHHHHhHHHHhhhhhhH--------------Hh--cCC
Confidence            569999999999976          4577999999999999999999999999999998              23  367


Q ss_pred             eeecCCCeeeeCCCEEEEEec
Q psy2401         342 IRSEGKKYLVEDGDILNFLFN  362 (363)
Q Consensus       342 ~r~~gk~y~v~dgdii~~~f~  362 (363)
                      +|+ |++|+|+|||||+|.-.
T Consensus       376 ~~~-g~~~~l~dgDvv~i~~~  395 (397)
T 1wxq_A          376 RRV-GEDYELQFNDIVKIVSV  395 (397)
T ss_dssp             SBC-CTTCCCCTTEEEEEEEC
T ss_pred             EEc-CCCccccCCCEEEEEeC
Confidence            776 99999999999999753

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=100.00  E-value=2.6e-54  Score=419.44  Aligned_cols=290  Identities=24%  Similarity=0.356  Sum_probs=208.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|||||+||||||||||+||++.+.+++|||||++|+.|.+.+++                 .+++++||||+.++++.
T Consensus        73 a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~~~-----------------~~i~l~D~pGl~~~a~~  135 (376)
T 4a9a_A           73 ASVGFVGFPSVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRYKG-----------------AKIQMLDLPGIIDGAKD  135 (376)
T ss_dssp             EEEEEECCCCHHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEETT-----------------EEEEEEECGGGCCC---
T ss_pred             CeEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEeCC-----------------cEEEEEeCCCccCCchh
Confidence            3799999999999999999999999999999999999999999999                 78999999999999999


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhh-hhhhhcccccCCchhHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKY-IDKENKKFFLKNEHSIEL  161 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~-~~~i~k~~~~g~~~~~~~  161 (363)
                      +.++++++++.++.||+++||+|+            .||+++++.++.||..+++...+++ ...++|..+.|...    
T Consensus       136 ~~~~g~~~l~~i~~ad~il~vvD~------------~~p~~~~~~i~~EL~~~~~~l~~k~~~i~~nK~d~~gi~i----  199 (376)
T 4a9a_A          136 GRGRGKQVIAVARTCNLLFIILDV------------NKPLHHKQIIEKELEGVGIRLNKTPPDILIKKKEKGGISI----  199 (376)
T ss_dssp             --CHHHHHHHHHHHCSEEEEEEET------------TSHHHHHHHHHHHHHHTTEEETCCCCCEEEEECSSSCEEE----
T ss_pred             hhHHHHHHHHHHHhcCcccccccc------------CccHHHHHHHHHHHHHhhHhhccCChhhhhhHhhhhhhhh----
Confidence            999999999999999999999999            4799999999999998887766664 45667765543210    


Q ss_pred             HHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHH
Q psy2401         162 LKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLE  241 (363)
Q Consensus       162 ~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e  241 (363)
                                   ........++.++...+....+++.+|++|++|..+.     +..+.+. .......+++.++++.+
T Consensus       200 -------------~~~~~~~~l~~eeik~il~~~~lt~kpv~~~~nv~ed-----dl~d~~~-~~~~~~~p~i~v~nKid  260 (376)
T 4a9a_A          200 -------------TNTVPLTHLGNDEIRAVMSEYRINSAEIAFRCDATVD-----DLIDVLE-ASSRRYMPAIYVLNKID  260 (376)
T ss_dssp             -------------EESSCCSSCCHHHHHHHHHHTTCCSEEEEECSCCCHH-----HHHHHHT-TTTCEEECEEEEEECGG
T ss_pred             -------------hcchhhhhccHHHHHHHHHHhcccCCCeeecccCCHH-----HHHHHHH-HHHhhccceEEEEeccc
Confidence                         0001111234444444444445555555555554331     1111111 00111234444444432


Q ss_pred             HHHhcCCHHHHH------HHHhhcCCCchhHHHHHHHHHHhCCCEEEEeCCCCceEEEeecCC-----CCHHHhhhhhhc
Q psy2401         242 EEISDLNNIDKK------FFLDNLGLKETKLNDLIRASFSLLDLRTYFTVGKKEIRAWTIPNG-----TTAEQAAGIIHT  310 (363)
Q Consensus       242 ~~i~el~~~~~~------~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~g~~e~raw~~~~g-----~ta~~~A~~IHs  310 (363)
                          +.+.++.+      .++...+..+++++++++++|+.|+|++|||+||+|+|||+++.|     +|+.|+|+.||+
T Consensus       261 ----~~~~eele~l~~~~~~~~is~~~e~gLd~Li~~~y~~L~Li~~fT~g~~E~rawt~~~~~~a~~at~~D~a~~ih~  336 (376)
T 4a9a_A          261 ----SLSIEELELLYRIPNAVPISSGQDWNLDELLQVMWDRLNLVRIYTKPKGQIPDFTDPVVLRSDRCSVKDFCNQIHK  336 (376)
T ss_dssp             ----GSCHHHHHHHTTSTTEEECCTTTCTTHHHHHHHHHHHHCCEEEEECCSSSCCCSSSCEEEBTTBCBHHHHHHHHCG
T ss_pred             ----ccCHHHHHHHhcccchhhhhhhhcccchhHHHHHHHHcCCcEEEeCCCCCcCCCCccccccCCCCcHHHHHHHHHH
Confidence                11111111      111122336789999999999999999999999999999997554     667788999999


Q ss_pred             chhcccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEEEEE
Q psy2401         311 DIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL  360 (363)
Q Consensus       311 D~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~~~  360 (363)
                      ||.++|++|+||+        +  .||.+|  |++||||+|||||||+|.
T Consensus       337 d~~~~F~~a~v~G--------s--~~K~~~--r~eGkdyvv~DGDVi~iv  374 (376)
T 4a9a_A          337 SLVDDFRNALVYG--------S--SVKHQP--QYVGLSHILEDEDVVTIL  374 (376)
T ss_dssp             GGGGGEEEEEEES--------T--TSSSSS--EEECTTCBCCTTCEEEEE
T ss_pred             HHHHhhhHhhhcC--------c--ccCCCC--CccCCCcEEcCCCEEEEE
Confidence            9999999999974        4  467666  578999999999999985

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=99.81  E-value=2.1e-20  Score=179.80  Aligned_cols=89  Identities=40%  Similarity=0.779  Sum_probs=81.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      +|+|+|.||||||||+|+|++....+++|||+|..|+.+.+.+++.                ..+.+|||||+.++++.+
T Consensus       160 ~V~lvG~~nvGKSTLln~L~~~~~~i~~~~ftTl~p~~g~v~~~~~----------------~~~~l~DtPG~i~~a~~~  223 (342)
T 1lnz_A          160 DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDG----------------RSFVMADLPGLIEGAHQG  223 (342)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSS----------------CEEEEEEHHHHHHHTTCT
T ss_pred             eeeeeCCCCCCHHHHHHHHHcCCCccccCCccccCceEEEEEeCCC----------------ceEEEecCCCCccccccc
Confidence            6999999999999999999998888899999999999999998763                568999999999888888


Q ss_pred             cchhhHHHhhccccCEEEEEEeccc
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      .+++..|+.+++.+|+++||+|++.
T Consensus       224 ~~l~~~fl~~i~~~d~ll~VvD~s~  248 (342)
T 1lnz_A          224 VGLGHQFLRHIERTRVIVHVIDMSG  248 (342)
T ss_dssp             TTTHHHHHHHHHHCCEEEEEEESSC
T ss_pred             chhHHHHHHHHHhccEEEEEEECCc
Confidence            8899999999999999999999964

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=99.80  E-value=1.3e-19  Score=178.20  Aligned_cols=157  Identities=30%  Similarity=0.546  Sum_probs=117.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ..|+|+|+||||||||+++|++....++++|++|..|+.|.+.+++.                ..+.++|+||+.++.+.
T Consensus       158 ~~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~~ftTl~p~~G~V~~~~~----------------~~~~l~DtpGli~~a~~  221 (416)
T 1udx_A          158 ADVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSEE----------------ERFTLADIPGIIEGASE  221 (416)
T ss_dssp             CSEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSSS----------------CEEEEEECCCCCCCGGG
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCccccCcccceecceeeEEEecCc----------------ceEEEEeccccccchhh
Confidence            35899999999999999999998878899999999999999988752                46889999999887777


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                      +.+++..++.++..+|.+++|+|++ .          +|..++.....+                               
T Consensus       222 ~~~L~~~fl~~~era~~lL~vvDls-~----------~~~~~ls~g~~e-------------------------------  259 (416)
T 1udx_A          222 GKGLGLEFLRHIARTRVLLYVLDAA-D----------EPLKTLETLRKE-------------------------------  259 (416)
T ss_dssp             SCCSCHHHHHHHTSSSEEEEEEETT-S----------CHHHHHHHHHHH-------------------------------
T ss_pred             hhhhhHHHHHHHHHHHhhhEEeCCc-c----------CCHHHHHHHHHH-------------------------------
Confidence            7777778888888999999999984 1          122111111000                               


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLE  241 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e  241 (363)
                                                  +..+ ..+..+|.++++||.|..  ..+..+.+.+.+...+.+++++||+..
T Consensus       260 ----------------------------l~~la~aL~~~P~ILVlNKlDl~--~~~~~~~l~~~l~~~g~~vi~iSA~~g  309 (416)
T 1udx_A          260 ----------------------------VGAYDPALLRRPSLVALNKVDLL--EEEAVKALADALAREGLAVLPVSALTG  309 (416)
T ss_dssp             ----------------------------HHHHCHHHHHSCEEEEEECCTTS--CHHHHHHHHHHHHTTTSCEEECCTTTC
T ss_pred             ----------------------------HHHHhHHhhcCCEEEEEECCChh--hHHHHHHHHHHHHhcCCeEEEEECCCc
Confidence                                        0111 113568999999999964  235566676777667788999999965


Q ss_pred             HHHhcC
Q psy2401         242 EEISDL  247 (363)
Q Consensus       242 ~~i~el  247 (363)
                      +++.++
T Consensus       310 ~gi~eL  315 (416)
T 1udx_A          310 AGLPAL  315 (416)
T ss_dssp             TTHHHH
T ss_pred             cCHHHH
Confidence            555444

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=99.77  E-value=7.8e-19  Score=162.31  Aligned_cols=87  Identities=32%  Similarity=0.479  Sum_probs=72.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC-
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS-   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~-   81 (363)
                      .+|+++|.||||||||||+|+|....++++|++|.+...+.+.+++                 ..+.+|||||+..... 
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~-----------------~~~~lvDtpG~~~~~~~   64 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGE-----------------HLIEITDLPGVYSLVAN   64 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETT-----------------EEEEEEECCCCSSCC--
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECC-----------------eEEEEEeCCCccccccc
Confidence            6899999999999999999999988899999999999999999988                 6799999999977653 


Q ss_pred             -----cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 -----KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 -----~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           ..+.+.+.++.. +.+|++++|+|++
T Consensus        65 ~~~~~~~e~i~~~~~~~-~~~d~vi~VvDas   94 (256)
T 3iby_A           65 AEGISQDEQIAAQSVID-LEYDCIINVIDAC   94 (256)
T ss_dssp             ----CHHHHHHHHHHHH-SCCSEEEEEEEGG
T ss_pred             ccCCCHHHHHHHHHHhh-CCCCEEEEEeeCC
Confidence                 222233333322 7899999999995

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=99.76  E-value=1.1e-17  Score=158.15  Aligned_cols=89  Identities=29%  Similarity=0.371  Sum_probs=71.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc-cccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI-SAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~-~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+|+|+|+||||||||+|+|++... .+++.|+||.+...+.+..++                 .++.+|||||+.+...
T Consensus         8 g~V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr~~i~~i~~~~~-----------------~~l~l~DTpG~~~~~~   70 (301)
T 1wf3_A            8 GFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGR-----------------RQIVFVDTPGLHKPMD   70 (301)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETT-----------------EEEEEEECCCCCCCCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCceeeecCCCCceeEEEEEEEEeCC-----------------cEEEEecCccccchhh
Confidence            4799999999999999999999865 478899999988888777666                 7899999999876543


Q ss_pred             c-ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          82 K-GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        82 ~-~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      . .+.+.......++.+|++++|+|+++
T Consensus        71 ~l~~~~~~~~~~~l~~ad~il~VvD~~~   98 (301)
T 1wf3_A           71 ALGEFMDQEVYEALADVNAVVWVVDLRH   98 (301)
T ss_dssp             HHHHHHHHHHHHHTSSCSEEEEEEETTS
T ss_pred             HHHHHHHHHHHHHHhcCCEEEEEEECCC
Confidence            2 12233455678899999999999953

>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=99.76  E-value=1.4e-17  Score=157.98  Aligned_cols=89  Identities=26%  Similarity=0.386  Sum_probs=72.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc-ccCCCceeecceeEEEEeC-CccccccccccccccccceeEEEEeeecccCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVP-DKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~-~~~~p~~t~~~~~g~v~~~-~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      -.|+++|.||||||||+|+|++.... +++.|++|.....+....+ +                 .++.+|||||+.++.
T Consensus        11 g~v~ivG~~nvGKSTLin~l~g~~~~i~s~~~~tT~~~~~~~~~~~~~-----------------~~i~lvDTPG~~~~~   73 (308)
T 3iev_A           11 GYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIPNE-----------------AQIIFLDTPGIYEPK   73 (308)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTT-----------------EEEEEEECCCCCCCC
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCccccCCCCCceeeEEEEEEecCCC-----------------CeEEEEECcCCCccc
Confidence            46999999999999999999998644 7899999999999988887 6                 789999999998654


Q ss_pred             --Cc-ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          81 --SK-GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        81 --~~-~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                        .. ++.+.......++.+|++++|+|+++
T Consensus        74 ~~~~l~~~~~~~~~~~l~~aD~il~VvD~~~  104 (308)
T 3iev_A           74 KSDVLGHSMVEIAKQSLEEADVILFMIDATE  104 (308)
T ss_dssp             TTCHHHHHHHHHHHHHHHHCSEEEEEEETTT
T ss_pred             cchhHHHHHHHHHHHHhhcCCEEEEEEeCCC
Confidence              11 22333455677889999999999953

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*

Probab=99.75  E-value=4.9e-18  Score=170.15  Aligned_cols=90  Identities=30%  Similarity=0.412  Sum_probs=76.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeeccc-CC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLV-SG   79 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~-~~   79 (363)
                      +++|+|+|+||||||||+|+|++.. +.++++|+||.++..+.+.+++                 .++.+|||||+. .+
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g-----------------~~~~l~DTaG~~~~~  305 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG-----------------ILFRIVDTAGVRSET  305 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT-----------------EEEEEEESSCCCSSC
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCC-----------------eEEEEEECCCccccc
Confidence            3689999999999999999999984 6689999999999999999988                 679999999998 66


Q ss_pred             CCcccchh-hHHHhhccccCEEEEEEeccc
Q psy2401          80 ASKGEGLG-NKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        80 ~~~~~~l~-~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ....+.++ ...+.+++.+|++|+|+|+++
T Consensus       306 ~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~  335 (482)
T 1xzp_A          306 NDLVERLGIERTLQEIEKADIVLFVLDASS  335 (482)
T ss_dssp             CTTCCCCCHHHHHHHHHHCSEEEEEEETTS
T ss_pred             hhhHHHHHHHHHHHHhhcccEEEEEecCCC
Confidence            55555443 345778899999999999853

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=99.75  E-value=2.3e-18  Score=160.63  Aligned_cols=89  Identities=31%  Similarity=0.464  Sum_probs=71.2

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .++|+++|.+|||||||+|+|++....++++|++|.++..+.+.+.+                 ..+.+|||||+.+...
T Consensus         3 ~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~-----------------~~~~liDtpG~~~~~~   65 (274)
T 3i8s_A            3 KLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTD-----------------HQVTLVDLPGTYSLTT   65 (274)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSS-----------------CEEEEEECCCCSCSCC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCC-----------------CceEEEECcCCCcccc
Confidence            47999999999999999999999988899999999999999999877                 6789999999987553


Q ss_pred             cc--cchhhHH---HhhccccCEEEEEEecc
Q psy2401          82 KG--EGLGNKF---LAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~--~~l~~~~---l~~~~~aD~il~Vvda~  107 (363)
                      ..  ..+...+   ....+.+|++++|+|++
T Consensus        66 ~~~~~~~~e~i~~~~~~~~~~d~ii~VvD~~   96 (274)
T 3i8s_A           66 ISSQTSLDEQIACHYILSGDADLLINVVDAS   96 (274)
T ss_dssp             ----CCHHHHHHHHHHHHTCCSEEEEEEEGG
T ss_pred             ccccCCHHHHHHHHHHhhcCCCEEEEEecCC
Confidence            21  1111121   22237899999999984

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=99.74  E-value=1.1e-17  Score=143.27  Aligned_cols=87  Identities=32%  Similarity=0.511  Sum_probs=64.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+++|++|||||||+|+|++....++++|++|.++..+.+.+++                 ..+.+|||||+.+....
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~-----------------~~l~i~Dt~G~~~~~~~   66 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG-----------------EKFKVVDLPGVYSLTAN   66 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEETT-----------------EEEEEEECCCCSCSSSS
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEECC-----------------cEEEEEECCCcccCCCc
Confidence            6899999999999999999999877788899999999888888876                 67999999998765322


Q ss_pred             c--cchhhHHHhhccccCEEEEEEecc
Q psy2401          83 G--EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~--~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .  +.+...++. ...+|++++|+|++
T Consensus        67 ~~~~~~~~~~~~-~~~~~~~i~v~D~~   92 (165)
T 2wji_A           67 SIDEIIARDYII-NEKPDLVVNIVDAT   92 (165)
T ss_dssp             SHHHHHHHHHHH-HHCCSEEEEEEETT
T ss_pred             chhHHHHHHHHh-cCCCCEEEEEecCC
Confidence            1  122223322 13799999999984

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=99.74  E-value=9.4e-18  Score=145.03  Aligned_cols=90  Identities=22%  Similarity=0.291  Sum_probs=71.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      +.+|+++|+||||||||+|+|++.. ..++++|++|.+...+.+.+++                 .++.+|||||+.+..
T Consensus         4 ~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~-----------------~~~~l~Dt~G~~~~~   66 (172)
T 2gj8_A            4 GMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDG-----------------MPLHIIDTAGLREAS   66 (172)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETT-----------------EEEEEEECCCCSCCS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECC-----------------eEEEEEECCCcccch
Confidence            4789999999999999999999875 3578899999999889999887                 568999999986543


Q ss_pred             Ccccch-hhHHHhhccccCEEEEEEeccc
Q psy2401          81 SKGEGL-GNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        81 ~~~~~l-~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ...+.. ....+..++.+|++++|+|++.
T Consensus        67 ~~~~~~~~~~~~~~~~~ad~~i~v~D~~~   95 (172)
T 2gj8_A           67 DEVERIGIERAWQEIEQADRVLFMVDGTT   95 (172)
T ss_dssp             SHHHHHHHHHHHHHHHTCSEEEEEEETTT
T ss_pred             hHHHHHHHHHHHHHHHhCCEEEEEEECCC
Confidence            322111 1223456799999999999953

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.73  E-value=2.5e-17  Score=141.72  Aligned_cols=83  Identities=23%  Similarity=0.211  Sum_probs=65.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|+.+.+.....+.+++..               ..+.+|||||...... 
T Consensus        10 ~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~-   73 (181)
T 3tw8_B           10 FKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEK---------------VKLQIWDTAGQERFRT-   73 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEE---------------EEEEEEEETTGGGCSS-
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEE---------------EEEEEEcCCCchhhhh-
Confidence            689999999999999999999987666677777777777788887743               6799999999755433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        74 ------~~~~~~~~~d~~i~v~d~~   92 (181)
T 3tw8_B           74 ------ITSTYYRGTHGVIVVYDVT   92 (181)
T ss_dssp             ------CCGGGGTTCSEEEEEEETT
T ss_pred             ------hHHHHhccCCEEEEEEECC
Confidence                  2234568899999999985

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.73  E-value=4.7e-17  Score=142.27  Aligned_cols=153  Identities=20%  Similarity=0.150  Sum_probs=104.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|+++.+.....+.+++..               ..+.+|||||...... 
T Consensus        17 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~-   80 (196)
T 3tkl_A           17 FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKT---------------IKLQIWDTAGQERFRT-   80 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEE---------------EEEEEEEECCSGGGCT-
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEE---------------EEEEEEECCCcHhhhh-
Confidence            689999999999999999999877666677777777777788887743               5799999999654332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++.+|++++|+|+.+..                                                    
T Consensus        81 ------~~~~~~~~~d~~i~v~d~~~~~----------------------------------------------------  102 (196)
T 3tkl_A           81 ------ITSSYYRGAHGIIVVYDVTDQE----------------------------------------------------  102 (196)
T ss_dssp             ------THHHHHTTCSEEEEEEETTCHH----------------------------------------------------
T ss_pred             ------hHHHHHhhCCEEEEEEECcCHH----------------------------------------------------
Confidence                  3335568899999999985310                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       .++.+..|+.                .+..+ ....+|+++++||.|.........+..+++....+.+++++||+...
T Consensus       103 -s~~~~~~~~~----------------~i~~~-~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~  164 (196)
T 3tkl_A          103 -SFNNVKQWLQ----------------EIDRY-ASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNAT  164 (196)
T ss_dssp             -HHHTHHHHHH----------------HHHHH-SCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEEECTTTCT
T ss_pred             -HHHHHHHHHH----------------HHHHh-cCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEeCCCCC
Confidence             0111111111                11111 11467999999999964212223345666677778899999999655


Q ss_pred             HHhcC
Q psy2401         243 EISDL  247 (363)
Q Consensus       243 ~i~el  247 (363)
                      ++.++
T Consensus       165 gv~~l  169 (196)
T 3tkl_A          165 NVEQS  169 (196)
T ss_dssp             THHHH
T ss_pred             CHHHH
Confidence            55444

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=99.72  E-value=8.5e-18  Score=156.70  Aligned_cols=87  Identities=24%  Similarity=0.447  Sum_probs=69.0

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .++|+++|.||||||||||+|++....++++||+|.++..+.+.. +                 ..+.+|||||......
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~pg~tv~~~~~~~~~-~-----------------~~l~l~DtpG~~~~~~   64 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGHNQRVGNWPGVTVERKSGLVKK-N-----------------KDLEIQDLPGIYSMSP   64 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCCCCCCCSSSCCCCSCEEEECTT-C-----------------TTEEEEECCCCSCSSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCCcEEEEEEEEec-C-----------------CeEEEEECCCcCccCC
Confidence            468999999999999999999998888999999999988887655 4                 6799999999876532


Q ss_pred             c--ccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 K--GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~--~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .  .+.+.+.++.. ..+|++++|+|++
T Consensus        65 ~~~~e~v~~~~~~~-~~~d~vi~V~D~t   91 (272)
T 3b1v_A           65 YSPEAKVARDYLLS-QRADSILNVVDAT   91 (272)
T ss_dssp             SSHHHHHHHHHHHT-TCCSEEEEEEEGG
T ss_pred             CChHHHHHHHHHhc-CCCCEEEEEecCC
Confidence            2  22233344432 4699999999984

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=99.72  E-value=6.1e-17  Score=140.41  Aligned_cols=152  Identities=18%  Similarity=0.180  Sum_probs=98.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++... ...+++++.......+.+++..               ..+.+|||||...... 
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~-   67 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQNHF-VDEYDPTIEDSYRKQVVIDGET---------------CLLDILDTAGQEEYSA-   67 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSSC-CCCCCTTCCEEEEEEEEETTEE---------------EEEEEEECCCC---CT-
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCCC-CCCCCCCchheEEEEEEECCcE---------------EEEEEEECCCcHHHHH-
Confidence            6899999999999999999998643 4455556655555666666643               5688999999655433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++.+|++++|+|+.+..                                                    
T Consensus        68 ------~~~~~~~~~~~~i~v~d~~~~~----------------------------------------------------   89 (189)
T 4dsu_A           68 ------MRDQYMRTGEGFLCVFAINNTK----------------------------------------------------   89 (189)
T ss_dssp             ------THHHHHHHCSEEEEEEETTCHH----------------------------------------------------
T ss_pred             ------HHHHHHhcCCEEEEEEECCCHH----------------------------------------------------
Confidence                  2224457899999999985310                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       .++.+..++.                .+..+......|+++++||.|.. ......+.++++....+.+++++||+...
T Consensus        90 -s~~~~~~~~~----------------~~~~~~~~~~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~  151 (189)
T 4dsu_A           90 -SFEDIHHYRE----------------QIKRVKDSEDVPMVLVGNKCDLP-SRTVDTKQAQDLARSYGIPFIETSAKTRQ  151 (189)
T ss_dssp             -HHHHHHHHHH----------------HHHHHTTCSCCCEEEEEECTTSS-SCSSCHHHHHHHHHHHTCCEEECCTTTCT
T ss_pred             -HHHHHHHHHH----------------HHHHhcCCCCCcEEEEEECccCc-ccccCHHHHHHHHHHcCCeEEEEeCCCCC
Confidence             0111111111                11112122578999999999974 22334455666666667899999999655


Q ss_pred             HHhcC
Q psy2401         243 EISDL  247 (363)
Q Consensus       243 ~i~el  247 (363)
                      ++.++
T Consensus       152 gi~~l  156 (189)
T 4dsu_A          152 GVDDA  156 (189)
T ss_dssp             THHHH
T ss_pred             CHHHH
Confidence            55444

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=99.72  E-value=6.7e-17  Score=143.00  Aligned_cols=154  Identities=19%  Similarity=0.166  Sum_probs=103.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|+.+.+.....+.+++..               ..+.+|||||.......
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~l~Dt~G~~~~~~~   73 (206)
T 2bcg_Y            9 FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKT---------------VKLQIWDTAGQERFRTI   73 (206)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEE---------------EEEEEECCTTTTTTTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEE---------------EEEEEEeCCChHHHHHH
Confidence            699999999999999999999876665566766666666677777643               57999999997654432


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                             ....++.+|++++|+|+....                                                    
T Consensus        74 -------~~~~~~~~d~vilv~d~~~~~----------------------------------------------------   94 (206)
T 2bcg_Y           74 -------TSSYYRGSHGIIIVYDVTDQE----------------------------------------------------   94 (206)
T ss_dssp             -------CGGGGTTCSEEEEEEETTCHH----------------------------------------------------
T ss_pred             -------HHHhccCCCEEEEEEECcCHH----------------------------------------------------
Confidence                   234568899999999985310                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       .++.+..|+.                .+..+ .....|+++|+||.|.........+..+++....+.+++++||+...
T Consensus        95 -s~~~~~~~~~----------------~i~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~  156 (206)
T 2bcg_Y           95 -SFNGVKMWLQ----------------EIDRY-ATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDST  156 (206)
T ss_dssp             -HHHHHHHHHH----------------HHHHH-SCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCT
T ss_pred             -HHHHHHHHHH----------------HHHHh-cCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEeCCCCC
Confidence             1111111111                11111 11467999999999974211223455666667778899999999766


Q ss_pred             HHhcCC
Q psy2401         243 EISDLN  248 (363)
Q Consensus       243 ~i~el~  248 (363)
                      ++.++.
T Consensus       157 gi~~l~  162 (206)
T 2bcg_Y          157 NVEDAF  162 (206)
T ss_dssp             THHHHH
T ss_pred             CHHHHH
Confidence            555543

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.72  E-value=3.1e-17  Score=162.89  Aligned_cols=88  Identities=33%  Similarity=0.422  Sum_probs=62.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+|+|+|.||||||||||+|++.. +.++++|++|.+...+.+.+.+                 ..+.+|||||+.....
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~-----------------~~~~l~DT~G~~~~~~   64 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYG-----------------KTFKLVDTCGVFDNPQ   64 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETT-----------------EEEEEEECTTTTSSGG
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEECC-----------------eEEEEEECCCcccccc
Confidence            579999999999999999999985 4589999999999999999988                 6789999999875322


Q ss_pred             c--ccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 K--GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~--~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .  .+.+..+...+++.||++++|+|+.
T Consensus        65 ~~~~~~~~~~~~~~~~~ad~il~V~D~~   92 (439)
T 1mky_A           65 DIISQKMKEVTLNMIREADLVLFVVDGK   92 (439)
T ss_dssp             GCCCHHHHHHHHHHHTTCSEEEEEEETT
T ss_pred             chHHHHHHHHHHHHHHhCCEEEEEEECC
Confidence            1  2234456677889999999999985

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=99.72  E-value=4.3e-17  Score=138.96  Aligned_cols=149  Identities=17%  Similarity=0.122  Sum_probs=88.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|++|||||||+|++++........+..+.+.....+.+++..               ..+.+|||||.......
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~D~~g~~~~~~~   67 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEE---------------VTLIVYDIWEQGDAGGW   67 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC------------CEEEEEEEETTEE---------------EEEEEECCCCC------
T ss_pred             EEEEEECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEECCeE---------------EEEEEEECCCccccchh
Confidence            689999999999999999999865554445555666666777777643               67899999998653321


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                         +..   ..++.+|++++|+|+.+..                                                    
T Consensus        68 ---~~~---~~~~~~d~~i~v~d~~~~~----------------------------------------------------   89 (169)
T 3q85_A           68 ---LQD---HCLQTGDAFLIVFSVTDRR----------------------------------------------------   89 (169)
T ss_dssp             -----C---HHHHHCSEEEEEEETTCHH----------------------------------------------------
T ss_pred             ---hhh---hhhccCCEEEEEEECCChH----------------------------------------------------
Confidence               111   2346799999999985310                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLE  241 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e  241 (363)
                       .++.+..++.                .+........+|+++++||.|.........+..++++...+.+++++||+..
T Consensus        90 -s~~~~~~~~~----------------~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  151 (169)
T 3q85_A           90 -SFSKVPETLL----------------RLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALH  151 (169)
T ss_dssp             -HHHTHHHHHH----------------HHHHHSTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTT
T ss_pred             -HHHHHHHHHH----------------HHHhcccCCCCCEEEEeeCcchhhcccCCHHHHHHHHHHcCCcEEEecCccC
Confidence             0111111111                0111111246899999999996421223345566677777889999999843

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=99.72  E-value=6.3e-17  Score=141.19  Aligned_cols=153  Identities=20%  Similarity=0.135  Sum_probs=98.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|..+.+.....+.+++..               ..+.+|||||...... 
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~-   79 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNK---------------AKLAIWDTAGQERFRT-   79 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEE---------------EEEEEEEECSSGGGCC-
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeE---------------EEEEEEeCCCchhhhh-
Confidence            689999999999999999999876554444544444555566666543               6799999999654332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++.+|++++|+|+....                                                    
T Consensus        80 ------~~~~~~~~~d~ii~v~d~~~~~----------------------------------------------------  101 (195)
T 1x3s_A           80 ------LTPSYYRGAQGVILVYDVTRRD----------------------------------------------------  101 (195)
T ss_dssp             ------SHHHHHTTCCEEEEEEETTCHH----------------------------------------------------
T ss_pred             ------hhHHHhccCCEEEEEEECcCHH----------------------------------------------------
Confidence                  2335568899999999985310                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       .++.+..|+.                .+..+.....+|+++++||.|... .....+...+++...+.+++++||+...
T Consensus       102 -s~~~~~~~~~----------------~i~~~~~~~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  163 (195)
T 1x3s_A          102 -TFVKLDNWLN----------------ELETYCTRNDIVNMLVGNKIDKEN-REVDRNEGLKFARKHSMLFIEASAKTCD  163 (195)
T ss_dssp             -HHHTHHHHHH----------------HHTTCCSCSCCEEEEEEECTTSSS-CCSCHHHHHHHHHHTTCEEEECCTTTCT
T ss_pred             -HHHHHHHHHH----------------HHHHhcCcCCCcEEEEEECCcCcc-cccCHHHHHHHHHHcCCEEEEecCCCCC
Confidence             0011111111                111111124689999999999732 2223445666677778899999999544


Q ss_pred             HHhcC
Q psy2401         243 EISDL  247 (363)
Q Consensus       243 ~i~el  247 (363)
                      ++.++
T Consensus       164 gi~~l  168 (195)
T 1x3s_A          164 GVQCA  168 (195)
T ss_dssp             THHHH
T ss_pred             CHHHH
Confidence            44433

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=99.72  E-value=8e-17  Score=139.18  Aligned_cols=153  Identities=20%  Similarity=0.140  Sum_probs=97.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++... ...++.++.......+.+++..               ..+.+|||||.......
T Consensus         7 ~ki~~~G~~~~GKSsli~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~---------------~~~~l~Dt~G~~~~~~~   70 (181)
T 3t5g_A            7 RKIAILGYRSVGKSSLTIQFVEGQF-VDSYDPTIENTFTKLITVNGQE---------------YHLQLVDTAGQDEYSIF   70 (181)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSC-CSCCCTTCCEEEEEEEEETTEE---------------EEEEEEECCCCCTTCCC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcCCC-CCCCCCCccccEEEEEEECCEE---------------EEEEEEeCCCchhhhHH
Confidence            6899999999999999999996543 3444444444445566666643               57899999997665332


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                      .       ...++.+|++++|+|+.+..                                                    
T Consensus        71 ~-------~~~~~~~~~~i~v~d~~~~~----------------------------------------------------   91 (181)
T 3t5g_A           71 P-------QTYSIDINGYILVYSVTSIK----------------------------------------------------   91 (181)
T ss_dssp             C-------GGGTTTCSEEEEEEETTCHH----------------------------------------------------
T ss_pred             H-------HHHHhcCCEEEEEEECCCHH----------------------------------------------------
Confidence            2       24557899999999985310                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       .++.+..|+.                .+........+|+++++||.|.........+..++++...+.+++++||+...
T Consensus        92 -s~~~~~~~~~----------------~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  154 (181)
T 3t5g_A           92 -SFEVIKVIHG----------------KLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQ  154 (181)
T ss_dssp             -HHHHHHHHHH----------------HHHHHC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCTTSHH
T ss_pred             -HHHHHHHHHH----------------HHHHhcCCCCCCEEEEEECccchhcceecHHHHHHHHHHhCCcEEEEecCCCC
Confidence             1111111111                01101112468999999999964222223456677777788899999999766


Q ss_pred             HHhcC
Q psy2401         243 EISDL  247 (363)
Q Consensus       243 ~i~el  247 (363)
                      ++.++
T Consensus       155 ~v~~l  159 (181)
T 3t5g_A          155 TAVDV  159 (181)
T ss_dssp             HHHHH
T ss_pred             CHHHH
Confidence            65544

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=99.72  E-value=1.5e-17  Score=153.80  Aligned_cols=87  Identities=34%  Similarity=0.524  Sum_probs=71.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.||||||||+|+|++....++++|++|.+...+.+...+                 ..+.+|||||.......
T Consensus         6 ~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~~~-----------------~~~~l~DtpG~~~~~~~   68 (258)
T 3a1s_A            6 VKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYKG-----------------YTINLIDLPGTYSLGYS   68 (258)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT-----------------EEEEEEECCCCSSCCSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEECC-----------------eEEEEEECCCcCccCCC
Confidence            6899999999999999999999888899999999999988888876                 68999999998765432


Q ss_pred             c--cchhhHHHhhccccCEEEEEEecc
Q psy2401          83 G--EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~--~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .  +.+.+.++.. ..+|++++|+|++
T Consensus        69 ~~~e~v~~~~~~~-~~~d~ii~V~D~t   94 (258)
T 3a1s_A           69 SIDEKIARDYLLK-GDADLVILVADSV   94 (258)
T ss_dssp             SHHHHHHHHHHHH-SCCSEEEEEEETT
T ss_pred             CHHHHHHHHHHhh-cCCCEEEEEeCCC
Confidence            2  2233344432 6899999999985

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=99.72  E-value=3.3e-17  Score=139.52  Aligned_cols=83  Identities=24%  Similarity=0.204  Sum_probs=59.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|..+.+.....+.+++..               ..+.+|||||...... 
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~l~D~~G~~~~~~-   67 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKK---------------VKLQIWDTAGQERFRT-   67 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCE---------------EEEEEECCTTGGGTSC-
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEE---------------EEEEEEeCCCChhhhh-
Confidence            689999999999999999999876665566666666666667776643               6799999999765433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        68 ------~~~~~~~~~d~~i~v~d~~   86 (170)
T 1g16_A           68 ------ITTAYYRGAMGIILVYDIT   86 (170)
T ss_dssp             ------CCHHHHTTEEEEEEEEETT
T ss_pred             ------hHHHHhccCCEEEEEEECC
Confidence                  2234558899999999985

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.72  E-value=3.2e-17  Score=146.79  Aligned_cols=88  Identities=25%  Similarity=0.240  Sum_probs=66.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC--ccccCCCceeecceeEEEE-eCCccccccccccccccccceeEEEEeeecccCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK--ISAENYPFCTIEPNIGIIE-VPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~--~~~~~~p~~t~~~~~g~v~-~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      .+|+++|.+|||||||+|+|++..  ..++++|++|.......+. ..+                 ..+.+|||||+...
T Consensus        30 ~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-----------------~~~~l~DtpG~~~~   92 (223)
T 4dhe_A           30 PEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAE-----------------PVAHLVDLPGYGYA   92 (223)
T ss_dssp             CEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTS-----------------CSEEEEECCCCCSS
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecCCCC-----------------CcEEEEcCCCCCcc
Confidence            689999999999999999999985  4688889988877655554 223                 57899999998654


Q ss_pred             CCcc------cchhhHHHhhccccCEEEEEEecc
Q psy2401          80 ASKG------EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        80 ~~~~------~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ....      ..+...++.....+|++++|+|+.
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~  126 (223)
T 4dhe_A           93 EVPGAAKAHWEQLLSSYLQTRPQLCGMILMMDAR  126 (223)
T ss_dssp             CCCSTHHHHHHHHHHHHHHHCTTEEEEEEEEETT
T ss_pred             cCChhhHHHHHHHHHHHHhcCcCcCEEEEEEeCC
Confidence            2221      123345566666699999999985

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.71  E-value=5.6e-17  Score=137.00  Aligned_cols=88  Identities=30%  Similarity=0.412  Sum_probs=63.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc-cccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI-SAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~-~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      ++|+++|++|||||||+|++++... ..+++|++|.++....+.+++                 ..+.+|||||......
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------~~~~l~Dt~G~~~~~~   64 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDR-----------------GRFLLVDTGGLWSGDK   64 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEETT-----------------EEEEEEECGGGCSSSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCC-----------------ceEEEEECCCCCCccc
Confidence            6899999999999999999998754 367888889888888888877                 6789999999876543


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ....+.......++.+|++++|+|+.
T Consensus        65 ~~~~~~~~~~~~~~~~~~~i~v~d~~   90 (161)
T 2dyk_A           65 WEKKIQEKVDRALEDAEVVLFAVDGR   90 (161)
T ss_dssp             CCHHHHHHHHHHTTTCSEEEEEEESS
T ss_pred             hHHHHHHHHHHHHHhCCEEEEEEECC
Confidence            22233345566789999999999985

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=99.71  E-value=7e-17  Score=137.61  Aligned_cols=83  Identities=20%  Similarity=0.114  Sum_probs=58.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|++++........|..+.+.....+.+++..               ..+.+|||||..+... 
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~-   70 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKR---------------VNLAIWDTAGQERFHA-   70 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCE---------------EEEEEEECCCC------
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECCEE---------------EEEEEEECCCcHhhhh-
Confidence            689999999999999999999876554455554544555566666543               6789999999654332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        71 ------~~~~~~~~~d~~i~v~d~~   89 (170)
T 1z08_A           71 ------LGPIYYRDSNGAILVYDIT   89 (170)
T ss_dssp             --------CCSSTTCSEEEEEEETT
T ss_pred             ------hHHHHhccCCEEEEEEECc
Confidence                  2224568899999999985

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=99.71  E-value=7.3e-17  Score=139.87  Aligned_cols=153  Identities=18%  Similarity=0.158  Sum_probs=102.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|..+.+.....+.+++..               ..+.+|||||....   
T Consensus        11 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~l~Dt~G~~~~---   72 (186)
T 2bme_A           11 FKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKY---------------VKLQIWDTAGQERF---   72 (186)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEE---------------EEEEEEEECCSGGG---
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEE---------------EEEEEEeCCCcHHH---
Confidence            689999999999999999999876665566666666666667776643               57999999996432   


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                          .......++.+|++++|+|+++..                                                    
T Consensus        73 ----~~~~~~~~~~~d~~i~v~d~~~~~----------------------------------------------------   96 (186)
T 2bme_A           73 ----RSVTRSYYRGAAGALLVYDITSRE----------------------------------------------------   96 (186)
T ss_dssp             ----HHHHHTTSTTCSEEEEEEETTCHH----------------------------------------------------
T ss_pred             ----HHHHHHHHhcCCEEEEEEECcCHH----------------------------------------------------
Confidence                224556778999999999985310                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       .++.+..|+.                .+..+ .....|+++++||.|.........++.++++...+.+++++||+...
T Consensus        97 -s~~~~~~~~~----------------~~~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  158 (186)
T 2bme_A           97 -TYNALTNWLT----------------DARML-ASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGE  158 (186)
T ss_dssp             -HHHTHHHHHH----------------HHHHH-SCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCT
T ss_pred             -HHHHHHHHHH----------------HHHHh-cCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEecCCCCC
Confidence             0111111111                01111 11467999999999974211222345666677778899999999665


Q ss_pred             HHhcC
Q psy2401         243 EISDL  247 (363)
Q Consensus       243 ~i~el  247 (363)
                      ++.++
T Consensus       159 gi~~l  163 (186)
T 2bme_A          159 NVEEA  163 (186)
T ss_dssp             THHHH
T ss_pred             CHHHH
Confidence            55544

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=99.71  E-value=9.3e-17  Score=136.47  Aligned_cols=81  Identities=21%  Similarity=0.113  Sum_probs=46.6

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      .+||+++|++|||||||+|++++.. ....+.++++..   ..+.+++..               ..+.+|||||...+.
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~---~~~~~~~~~---------------~~~~i~D~~g~~~~~   63 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDGPEAEAAGHTYD---RSIVVDGEE---------------ASLMVYDIWEQDGGR   63 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC----------CEEE---EEEEETTEE---------------EEEEEEECC------
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCccccCCCCccccceE---EEEEECCEE---------------EEEEEEECCCCccch
Confidence            3799999999999999999999864 334555555543   334555533               678999999976543


Q ss_pred             CcccchhhHHHhhccccCEEEEEEecc
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .       .....++.+|++++|+|+.
T Consensus        64 ~-------~~~~~~~~~~~~i~v~d~~   83 (166)
T 3q72_A           64 W-------LPGHCMAMGDAYVIVYSVT   83 (166)
T ss_dssp             ----------------CCEEEEEEETT
T ss_pred             h-------hhhhhhhhCCEEEEEEECC
Confidence            3       2224458899999999985

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=99.71  E-value=5.9e-17  Score=137.28  Aligned_cols=82  Identities=20%  Similarity=0.139  Sum_probs=57.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++... ...++.++.......+.+++..               ..+.+|||||.....  
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~---------------~~~~l~D~~G~~~~~--   66 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYDEF-VEDYEPTKADSYRKKVVLDGEE---------------VQIDILDTAGQEDYA--   66 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCC-CSCCCTTCCEEEEEEEEETTEE---------------EEEEEEECCC---CH--
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCcc-CCCCCCCcceEEEEEEEECCEE---------------EEEEEEECCCcchhH--
Confidence            6899999999999999999998653 2344444444444455565532               579999999964322  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           ......++.+|++++|+|+.
T Consensus        67 -----~~~~~~~~~~d~~i~v~d~~   86 (168)
T 1u8z_A           67 -----AIRDNYFRSGEGFLCVFSIT   86 (168)
T ss_dssp             -----HHHHHHHHHCSEEEEEEETT
T ss_pred             -----HHHHHHhhcCCEEEEEEECC
Confidence                 23334568899999999985

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=99.71  E-value=1.3e-16  Score=137.55  Aligned_cols=161  Identities=16%  Similarity=0.062  Sum_probs=104.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|..+.+.....+.+++..               ..+.+|||||...... 
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~-   76 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDAT---------------VKFEIWDTAGQERYHS-   76 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEE---------------EEEEEEECCCSGGGGG-
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEE---------------EEEEEEeCCCChhhhh-
Confidence            689999999999999999999875554444544444445556665533               6799999999643222 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++.+|++++|+|+++..                                                    
T Consensus        77 ------~~~~~~~~~d~~i~v~d~~~~~----------------------------------------------------   98 (181)
T 2efe_B           77 ------LAPMYYRGAAAAIIVFDVTNQA----------------------------------------------------   98 (181)
T ss_dssp             ------GTHHHHTTCSEEEEEEETTCHH----------------------------------------------------
T ss_pred             ------hhHHHhccCCEEEEEEECCCHH----------------------------------------------------
Confidence                  2334568899999999985310                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       .++.+..|+.                .+... .....|+++++||.|.........+.+++++...+.+++++||+   
T Consensus        99 -s~~~~~~~~~----------------~~~~~-~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~---  157 (181)
T 2efe_B           99 -SFERAKKWVQ----------------ELQAQ-GNPNMVMALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAK---  157 (181)
T ss_dssp             -HHHHHHHHHH----------------HHHHH-SCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCSS---
T ss_pred             -HHHHHHHHHH----------------HHHHh-cCCCCcEEEEEECCcccccccCCHHHHHHHHHHcCCEEEEEECC---
Confidence             0111111111                01111 11367999999999974211223456677777788899999998   


Q ss_pred             HHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhC
Q psy2401         243 EISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLL  277 (363)
Q Consensus       243 ~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l  277 (363)
                                         +..+++++.+.+.+.+
T Consensus       158 -------------------~g~gi~~l~~~l~~~~  173 (181)
T 2efe_B          158 -------------------TATNVKEIFYEIARRL  173 (181)
T ss_dssp             -------------------SCTTHHHHHHHHHHTC
T ss_pred             -------------------CCCCHHHHHHHHHHHH
Confidence                               4567777777666654

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=99.71  E-value=8e-17  Score=138.25  Aligned_cols=83  Identities=19%  Similarity=0.188  Sum_probs=63.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|..+.+.....+.+++..               ..+.+|||||...... 
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~Dt~G~~~~~~-   78 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRT---------------VRLQLWDTAGQERFRS-   78 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEE---------------EEEEEEEECCSGGGGG-
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeE---------------EEEEEEECCCcHHHHH-
Confidence            589999999999999999999876655556666666666777777643               5799999999644322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        79 ------~~~~~~~~~d~~i~v~d~~   97 (179)
T 2y8e_A           79 ------LIPSYIRDSTVAVVVYDIT   97 (179)
T ss_dssp             ------GSHHHHHTCSEEEEEEETT
T ss_pred             ------HHHHHhcCCCEEEEEEECC
Confidence                  2334568899999999984

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.71  E-value=8.8e-17  Score=138.45  Aligned_cols=83  Identities=18%  Similarity=0.176  Sum_probs=58.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc-ccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~-~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      ++|+++|++|||||||+|+|++.... ....|.++.+.....+.+++..               ..+.+|||||......
T Consensus        11 ~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~~~Dt~G~~~~~~   75 (180)
T 2g6b_A           11 FKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVK---------------VKLQMWDTAGQERFRS   75 (180)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEE---------------EEEEEEECCCC-----
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEE---------------EEEEEEeCCCcHHHHH
Confidence            68999999999999999999987553 2334544555545555666633               5799999999654332


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                             .....++.+|++++|+|+.
T Consensus        76 -------~~~~~~~~~d~ii~v~d~~   94 (180)
T 2g6b_A           76 -------VTHAYYRDAHALLLLYDVT   94 (180)
T ss_dssp             ----------CCGGGCSEEEEEEETT
T ss_pred             -------HHHHHccCCCEEEEEEECC
Confidence                   3345668899999999985

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=99.71  E-value=7.2e-17  Score=140.28  Aligned_cols=92  Identities=17%  Similarity=0.128  Sum_probs=59.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecce-eEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPN-IGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~-~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      ++|+++|++|||||||+|+|++........|....+.. ...+.+++.....    .  .......+.+|||||...   
T Consensus        12 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~----~--~~~~~~~~~l~Dt~G~~~---   82 (195)
T 3bc1_A           12 IKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGA----V--GRGQRIHLQLWDTAGLER---   82 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCS----S--CCCEEEEEEEEEECCSGG---
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccc----c--ccCcEEEEEEEeCCCcHH---
Confidence            68999999999999999999986544333333222222 2344444321000    0  000025799999999743   


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                          +.......++.+|++++|+|++
T Consensus        83 ----~~~~~~~~~~~~d~~i~v~d~~  104 (195)
T 3bc1_A           83 ----FRSLTTAFFRDAMGFLLLFDLT  104 (195)
T ss_dssp             ----GHHHHHHTTTTCSEEEEEEETT
T ss_pred             ----HHHHHHHHHcCCCEEEEEEECC
Confidence                2234556778999999999985

>2eki_A DRG 1, developmentally-regulated GTP-binding protein 1; protein NEDD3, neural precursor cell expressed developmentally DOWN-regulated protein 3; NMR {Homo sapiens}

Probab=99.71  E-value=5.5e-18  Score=129.64  Aligned_cols=77  Identities=23%  Similarity=0.254  Sum_probs=68.5

Q ss_pred             HHHhCCCEEEEeCC----CCceEEEee-cCCCCHHHhhhhhhcchhcccEEEEEecccccccccChhhHhhcCceeecCC
Q psy2401         273 SFSLLDLRTYFTVG----KKEIRAWTI-PNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGK  347 (363)
Q Consensus       273 ~~~~l~li~~ft~g----~~e~raw~~-~~g~ta~~~A~~IHsD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk  347 (363)
                      .|+.|+||+|||+.    ||...|.++ ++|+|+.|+|.+||+||.+.|.+|.||+.          +||..| +|+ |.
T Consensus         5 ~~~~L~lIrVYtk~~G~~pd~~dpviL~~~GsTv~Dfa~~IH~di~~~fkyA~VwG~----------saK~~~-qrV-gl   72 (93)
T 2eki_A            5 SSGYLKLVRIYTKPKGQLPDYTSPVVLPYSRTTVEDFCMKIHKNLIKEFKYALVWGL----------SVKHNP-QKV-GK   72 (93)
T ss_dssp             SSSSCCEEEEEECCTTSCCCSSSCEEEETTSCCHHHHHHHHCTTCTTTEEEEEEBST----------TSSSSS-EEE-CS
T ss_pred             ChhhcCeEEEEeCCCCCCCCCCCCEEEecCCCCHHHHHHHHHHHHHhhccEEEEecc----------cccCCC-EEC-CC
Confidence            37899999999963    366789999 99999999999999999999999999975          688765 777 99


Q ss_pred             CeeeeCCCEEEEEe
Q psy2401         348 KYLVEDGDILNFLF  361 (363)
Q Consensus       348 ~y~v~dgdii~~~f  361 (363)
                      +|+|+|||||+|-.
T Consensus        73 dh~L~d~DVV~Iv~   86 (93)
T 2eki_A           73 DHTLEDEDVIQIVK   86 (93)
T ss_dssp             SCCCCSSEEECEEE
T ss_pred             CcEecCCCEEEEEe
Confidence            99999999999864

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=99.70  E-value=1.5e-16  Score=134.92  Aligned_cols=82  Identities=17%  Similarity=0.118  Sum_probs=56.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||+|+|++..... .++.++.......+.+++..               ..+.+|||||...... 
T Consensus         4 ~ki~v~G~~~~GKssli~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~---------------~~~~l~D~~G~~~~~~-   66 (167)
T 1c1y_A            4 YKLVVLGSGGVGKSALTVQFVQGIFVE-KYDPTIEDSYRKQVEVDCQQ---------------CMLEILDTAGTEQFTA-   66 (167)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCCCCC-SCCCCSEEEEEEEEESSSCE---------------EEEEEEEECSSCSSTT-
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCC-CCCCCccceEEEEEEECCEE---------------EEEEEEECCChHHHHH-
Confidence            689999999999999999999864332 23222222223344444432               6799999999765433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        67 ------~~~~~~~~~d~~i~v~d~~   85 (167)
T 1c1y_A           67 ------MRDLYMKNGQGFALVYSIT   85 (167)
T ss_dssp             ------HHHHHHHHCSEEEEEEETT
T ss_pred             ------HHHHHhccCCEEEEEEECC
Confidence                  2234457899999999985

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=99.70  E-value=5.8e-17  Score=137.68  Aligned_cols=83  Identities=20%  Similarity=0.143  Sum_probs=61.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|..+.+.....+.+++..               ..+.+|||||...... 
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~l~Dt~G~~~~~~-   69 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDED---------------VRLMLWDTAGQEEFDA-   69 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEE---------------EEEEEECCTTGGGTTC-
T ss_pred             EEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEE---------------EEEEEEcCCCcHhHHH-
Confidence            689999999999999999999875544444544455555666666533               6799999999765433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        70 ------~~~~~~~~~d~~i~v~d~~   88 (168)
T 1z2a_A           70 ------ITKAYYRGAQACVLVFSTT   88 (168)
T ss_dssp             ------CCHHHHTTCCEEEEEEETT
T ss_pred             ------HHHHHhcCCCEEEEEEECc
Confidence                  2234557899999999985

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.70  E-value=1.5e-16  Score=135.28  Aligned_cols=83  Identities=17%  Similarity=0.137  Sum_probs=60.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|..+.+.....+.+++..               ..+.+|||||.....  
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~D~~G~~~~~--   66 (170)
T 1ek0_A            4 IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHT---------------VKFEIWDTAGQERFA--   66 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEE---------------EEEEEEEECCSGGGG--
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEE---------------EEEEEEECCCChhhh--
Confidence            689999999999999999999875544444544444555566666533               579999999964322  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           ......++.+|++++|+|++
T Consensus        67 -----~~~~~~~~~~d~~i~v~d~~   86 (170)
T 1ek0_A           67 -----SLAPXYYRNAQAALVVYDVT   86 (170)
T ss_dssp             -----GGHHHHHTTCSEEEEEEETT
T ss_pred             -----hhhhhhhccCcEEEEEEecC
Confidence                 23345568899999999985

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=99.70  E-value=2e-16  Score=134.48  Aligned_cols=83  Identities=19%  Similarity=0.078  Sum_probs=57.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|..+.......+.+++..               ..+.+|||||.....  
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~D~~G~~~~~--   69 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTT---------------VKFEIWDTAGQERYH--   69 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEE---------------EEEEEEEECCSGGGG--
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEE---------------EEEEEEeCCCcHHhh--
Confidence            689999999999999999999764432222322222233344555432               679999999965322  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           ......++.+|++++|+|++
T Consensus        70 -----~~~~~~~~~~d~~i~v~d~~   89 (170)
T 1r2q_A           70 -----SLAPMYYRGAQAAIVVYDIT   89 (170)
T ss_dssp             -----GGHHHHHTTCSEEEEEEETT
T ss_pred             -----hhhHHhccCCCEEEEEEECC
Confidence                 23345568899999999985

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=99.70  E-value=1.5e-16  Score=136.71  Aligned_cols=83  Identities=20%  Similarity=0.157  Sum_probs=60.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|..+.+.....+.+++..               ..+.+|||||....   
T Consensus         8 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~---   69 (177)
T 1wms_A            8 FKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHF---------------VTMQIWDTAGQERF---   69 (177)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEE---------------EEEEEEECCCCGGG---
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEE---------------EEEEEEeCCCchhh---
Confidence            689999999999999999999876555555555555555666666643               57999999995432   


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                          .......++.+|++++|+|+.
T Consensus        70 ----~~~~~~~~~~~~~~i~v~d~~   90 (177)
T 1wms_A           70 ----RSLRTPFYRGSDCCLLTFSVD   90 (177)
T ss_dssp             ----HHHHGGGGTTCSEEEEEEETT
T ss_pred             ----hhhHHHHHhcCCEEEEEEECc
Confidence                223345668899999999985

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=99.70  E-value=1.3e-16  Score=135.06  Aligned_cols=82  Identities=22%  Similarity=0.152  Sum_probs=56.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|++++..... .++.++.......+.+++..               ..+.+|||||.....  
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~---------------~~~~l~D~~G~~~~~--   65 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTGTFIE-KYDPTIEDFYRKEIEVDSSP---------------SVLEILDTAGTEQFA--   65 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCS-CCCTTCCEEEEEEEEETTEE---------------EEEEEEECCCTTCCH--
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCCCcc-cCCCCcceeEEEEEEECCEE---------------EEEEEEECCCchhhH--
Confidence            699999999999999999999764332 23333333334455555532               568999999964322  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           ......++.+|++++|+|+.
T Consensus        66 -----~~~~~~~~~~~~~i~v~d~~   85 (167)
T 1kao_A           66 -----SMRDLYIKNGQGFILVYSLV   85 (167)
T ss_dssp             -----HHHHHHHHHCSEEEEEEETT
T ss_pred             -----HHHHHHhccCCEEEEEEeCC
Confidence                 12334568899999999985

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=99.70  E-value=1.2e-16  Score=139.43  Aligned_cols=83  Identities=19%  Similarity=0.140  Sum_probs=59.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|..+.+.....+.+.+..               ..+.+|||||...... 
T Consensus        23 ~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~l~Dt~G~~~~~~-   86 (189)
T 2gf9_A           23 FKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKR---------------IKLQIWDTAGQERYRT-   86 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEE---------------EEEEEEECCSCCSSCC-
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeE---------------EEEEEEeCCCcHHHhh-
Confidence            689999999999999999999875543333433333334445555432               6799999999755433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        87 ------~~~~~~~~~d~ii~v~d~~  105 (189)
T 2gf9_A           87 ------ITTAYYRGAMGFLLMYDIA  105 (189)
T ss_dssp             ------SGGGGGTTCSEEEEEEETT
T ss_pred             ------hHHHhccCCCEEEEEEECC
Confidence                  2335568899999999984

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=99.70  E-value=1.3e-16  Score=137.92  Aligned_cols=151  Identities=17%  Similarity=0.113  Sum_probs=96.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++... ...++.++.......+.+++..               ..+.+|||||.....  
T Consensus        19 ~ki~v~G~~~~GKSsli~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~---------------~~~~l~Dt~G~~~~~--   80 (187)
T 2a9k_A           19 HKVIMVGSGGVGKSALTLQFMYDEF-VEDYEPTKADSYRKKVVLDGEE---------------VQIDILDTAGQEDYA--   80 (187)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCC-CCSCCTTCCEEEEEEEEETTEE---------------EEEEEEECCCTTCCH--
T ss_pred             eEEEEECCCCCCHHHHHHHHhhCCC-CCcCCCccceEEEEEEEECCEE---------------EEEEEEECCCCcccH--
Confidence            6899999999999999999998653 3344444444444455665532               578999999965322  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                           ......++.+|++++|+|+.+..                                                    
T Consensus        81 -----~~~~~~~~~~d~~i~v~d~~~~~----------------------------------------------------  103 (187)
T 2a9k_A           81 -----AIRDNYFRSGEGFLCVFSITEME----------------------------------------------------  103 (187)
T ss_dssp             -----HHHHHHHHHCSEEEEEEETTCHH----------------------------------------------------
T ss_pred             -----HHHHHHhccCCEEEEEEECcCHH----------------------------------------------------
Confidence                 23345568899999999985210                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       .++.+..|+.                .+..+.....+|+++++||.|.........+.+++++...+.+++++||+...
T Consensus       104 -s~~~~~~~~~----------------~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  166 (187)
T 2a9k_A          104 -SFAATADFRE----------------QILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRA  166 (187)
T ss_dssp             -HHHHHHHHHH----------------HHHHHHCCTTCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCT
T ss_pred             -HHHHHHHHHH----------------HHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCC
Confidence             0111111111                01111112468999999999964211223456677777788899999999544


Q ss_pred             HHh
Q psy2401         243 EIS  245 (363)
Q Consensus       243 ~i~  245 (363)
                      ++.
T Consensus       167 gi~  169 (187)
T 2a9k_A          167 NVD  169 (187)
T ss_dssp             THH
T ss_pred             CHH
Confidence            443

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=99.70  E-value=3.1e-16  Score=137.43  Aligned_cols=159  Identities=16%  Similarity=0.079  Sum_probs=101.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc--ccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS--AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~--~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      ++|+++|.+|||||||+|+|++....  ..+.++++.  ....+.+++..               ..+.+|||||.....
T Consensus        24 ~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~   86 (192)
T 2fg5_A           24 LKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASF--MTKTVPCGNEL---------------HKFLIWDTAGQERFH   86 (192)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEE--EEEEEECSSSE---------------EEEEEEEECCSGGGG
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeE--EEEEEEeCCEE---------------EEEEEEcCCCchhhH
Confidence            68999999999999999999987533  333333332  23344444432               679999999964432


Q ss_pred             CcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHH
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIE  160 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~  160 (363)
                      .       .....++.+|++++|+|+.+..                                                  
T Consensus        87 ~-------~~~~~~~~~d~iilV~d~~~~~--------------------------------------------------  109 (192)
T 2fg5_A           87 S-------LAPMYYRGSAAAVIVYDITKQD--------------------------------------------------  109 (192)
T ss_dssp             G-------GTHHHHTTCSEEEEEEETTCTH--------------------------------------------------
T ss_pred             h-------hhHHhhccCCEEEEEEeCCCHH--------------------------------------------------
Confidence            2       2334568899999999985311                                                  


Q ss_pred             HHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHH
Q psy2401         161 LLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL  240 (363)
Q Consensus       161 ~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~  240 (363)
                         .++.+..|+.                .+... .....|+++++||.|.........+.+++++...+.+++++||+ 
T Consensus       110 ---s~~~~~~~~~----------------~i~~~-~~~~~piiiv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~-  168 (192)
T 2fg5_A          110 ---SFYTLKKWVK----------------ELKEH-GPENIVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAK-  168 (192)
T ss_dssp             ---HHHHHHHHHH----------------HHHHH-SCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTTTCEEEECBTT-
T ss_pred             ---HHHHHHHHHH----------------HHHHh-CCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCC-
Confidence               0111111111                11111 11467999999999974211223566777777788899999998 


Q ss_pred             HHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhC
Q psy2401         241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLL  277 (363)
Q Consensus       241 e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l  277 (363)
                                           +..+++++.+.+.+.+
T Consensus       169 ---------------------~~~gi~~l~~~l~~~i  184 (192)
T 2fg5_A          169 ---------------------NAINIEELFQGISRQI  184 (192)
T ss_dssp             ---------------------TTBSHHHHHHHHHHTC
T ss_pred             ---------------------CCcCHHHHHHHHHHHH
Confidence                                 4566777777666654

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.70  E-value=1.1e-16  Score=142.07  Aligned_cols=83  Identities=20%  Similarity=0.216  Sum_probs=64.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||+|+|++........|+.+.+.....+.+++..               ..+.+|||||...    
T Consensus        27 ~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~l~l~Dt~G~~~----   87 (201)
T 2ew1_A           27 FKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEK---------------VKLQIWDTAGQER----   87 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEE---------------EEEEEEEECCSGG----
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEE---------------EEEEEEECCCcHH----
Confidence            689999999999999999999876655555655556666677777643               6799999999643    


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                         +.......++.+|++++|+|++
T Consensus        88 ---~~~~~~~~~~~~d~~i~v~D~~  109 (201)
T 2ew1_A           88 ---FRSITQSYYRSANALILTYDIT  109 (201)
T ss_dssp             ---GHHHHGGGSTTCSEEEEEEETT
T ss_pred             ---HHHHHHHHHhcCCEEEEEEECC
Confidence               2224456678999999999985

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=99.70  E-value=1.8e-16  Score=136.00  Aligned_cols=83  Identities=25%  Similarity=0.200  Sum_probs=59.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||+|+|++........|..+.+.....+.+++..               ..+.+|||||.....  
T Consensus        16 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~l~Dt~G~~~~~--   78 (179)
T 1z0f_A           16 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQK---------------IKLQIWDTAGQERFR--   78 (179)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEE---------------EEEEEEECTTGGGTC--
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeE---------------EEEEEEECCCChHhh--
Confidence            689999999999999999999865433323333333334455555532               679999999965432  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           ......++.+|++++|+|+.
T Consensus        79 -----~~~~~~~~~~d~~i~v~d~~   98 (179)
T 1z0f_A           79 -----AVTRSYYRGAAGALMVYDIT   98 (179)
T ss_dssp             -----HHHHHHHHTCSEEEEEEETT
T ss_pred             -----hhHHHHhccCCEEEEEEeCc
Confidence                 24445668899999999985

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=99.70  E-value=8.5e-17  Score=140.42  Aligned_cols=84  Identities=20%  Similarity=0.186  Sum_probs=61.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||+|+|++........|..+.+.....+.+++..               ..+.+|||||...... 
T Consensus        21 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~l~Dt~G~~~~~~-   84 (189)
T 1z06_A           21 FKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGER---------------IKIQLWDTAGQERFRK-   84 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEE---------------EEEEEEECCCSHHHHT-
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEE---------------EEEEEEECCCchhhhh-
Confidence            689999999999999999999876554445555555555666776643               6799999999643210 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           ......++.+|++++|+|++
T Consensus        85 -----~~~~~~~~~~d~iilv~D~~  104 (189)
T 1z06_A           85 -----SMVQHYYRNVHAVVFVYDMT  104 (189)
T ss_dssp             -----TTHHHHHTTCCEEEEEEETT
T ss_pred             -----hhhHHHhcCCCEEEEEEECc
Confidence                 12234568899999999985

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=99.69  E-value=2.8e-16  Score=132.62  Aligned_cols=82  Identities=16%  Similarity=0.134  Sum_probs=56.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++.... ..++.++.......+.+++..               ..+.+|||||..+... 
T Consensus         4 ~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~D~~G~~~~~~-   66 (166)
T 2ce2_X            4 YKLVVVGAGGVGKSALTIQLIQNHFV-DECDPTIEDSYRKQVVIDGET---------------CLLDILDTAGQEEYSA-   66 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCC-SCCCTTCCEEEEEEEEETTEE---------------EEEEEEECCCCSSCCH-
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCcCc-cccCCccceEEEEEEEECCEE---------------EEEEEEECCCchhhhH-
Confidence            68999999999999999999986432 223333333333445555432               5689999999654322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        67 ------~~~~~~~~~~~~i~v~d~~   85 (166)
T 2ce2_X           67 ------MRDQYMRTGEGFLCVFAIN   85 (166)
T ss_dssp             ------HHHHHHHHCSEEEEEEETT
T ss_pred             ------HHHHhhccCCEEEEEEECC
Confidence                  2334557899999999984

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=99.69  E-value=2.2e-16  Score=135.77  Aligned_cols=82  Identities=20%  Similarity=0.148  Sum_probs=59.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||+|+|++... ..+++.++.......+.+++..               ..+.+|||||...... 
T Consensus        10 ~~i~v~G~~~~GKssli~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~---------------~~~~~~Dt~G~~~~~~-   72 (181)
T 2fn4_A           10 HKLVVVGGGGVGKSALTIQFIQSYF-VSDYDPTIEDSYTKICSVDGIP---------------ARLDILDTAGQEEFGA-   72 (181)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSSC-CSSCCTTCCEEEEEEEEETTEE---------------EEEEEEECCCTTTTSC-
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCcC-ccccCCCcCceEEEEEEECCEE---------------EEEEEEECCCchhhHH-
Confidence            6899999999999999999998633 3445544444444556666532               5789999999765432 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                         +.   ...++.+|++++|+|+.
T Consensus        73 ---~~---~~~~~~~d~~i~v~d~~   91 (181)
T 2fn4_A           73 ---MR---EQYMRAGHGFLLVFAIN   91 (181)
T ss_dssp             ---CH---HHHHHHCSEEEEEEETT
T ss_pred             ---HH---HHHHhhCCEEEEEEeCC
Confidence               22   23457899999999985

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=99.69  E-value=1.3e-16  Score=140.55  Aligned_cols=153  Identities=17%  Similarity=0.116  Sum_probs=98.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++... ...+++++.......+.+++..               ..+.+|||||.....  
T Consensus        15 ~ki~v~G~~~~GKSsli~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~---------------~~~~l~Dt~G~~~~~--   76 (206)
T 2bov_A           15 HKVIMVGSGGVGKSALTLQFMYDEF-VEDYEPTKADSYRKKVVLDGEE---------------VQIDILDTAGQEDYA--   76 (206)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCC-CTTCCTTCCEEEEEEEEETTEE---------------EEEEEEECCCTTCCH--
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCCC-CCCCCCccceEEEEEEEECCEE---------------EEEEEEcCCChhhhH--
Confidence            6899999999999999999998653 3455555555445566666633               579999999964422  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                           ......++.+|++++|+|+....                                                    
T Consensus        77 -----~~~~~~~~~~~~~i~v~d~~~~~----------------------------------------------------   99 (206)
T 2bov_A           77 -----AIRDNYFRSGEGFLCVFSITEME----------------------------------------------------   99 (206)
T ss_dssp             -----HHHHHHHHHCSEEEEEEETTCHH----------------------------------------------------
T ss_pred             -----HHHHHHHhhCCEEEEEEECCCHH----------------------------------------------------
Confidence                 23334568899999999985310                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       .++.+..|+.                .+..+.....+|+++++||.|.........+.+.+++...+.+++++||+...
T Consensus       100 -s~~~~~~~~~----------------~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~  162 (206)
T 2bov_A          100 -SFAATADFRE----------------QILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRA  162 (206)
T ss_dssp             -HHHHHHHHHH----------------HHHHHTTCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCT
T ss_pred             -HHHHHHHHHH----------------HHHHhcCCCCCCEEEEEeccCccccccccHHHHHHHHHHhCCeEEEEeCCCCC
Confidence             0111111111                11111112478999999999964211223456666666677899999999766


Q ss_pred             HHhcC
Q psy2401         243 EISDL  247 (363)
Q Consensus       243 ~i~el  247 (363)
                      ++.++
T Consensus       163 gi~~l  167 (206)
T 2bov_A          163 NVDKV  167 (206)
T ss_dssp             THHHH
T ss_pred             CHHHH
Confidence            55554

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=99.69  E-value=1.4e-16  Score=140.49  Aligned_cols=153  Identities=16%  Similarity=0.103  Sum_probs=97.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|..+.+.....+.+++..               ..+.+|||||....   
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~l~Dt~G~~~~---   70 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKR---------------IKLQIWDTAGLERY---   70 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEE---------------EEEEEEEECCSGGG---
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeE---------------EEEEEEECCCchhh---
Confidence            689999999999999999999875443333433333334455555432               67999999997432   


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                          .......++.+|++++|+|+....                                                    
T Consensus        71 ----~~~~~~~~~~~d~ii~v~d~~~~~----------------------------------------------------   94 (203)
T 1zbd_A           71 ----RTITTAYYRGAMGFILMYDITNEE----------------------------------------------------   94 (203)
T ss_dssp             ----HHHHHTTGGGCSEEEEEEETTCHH----------------------------------------------------
T ss_pred             ----cchHHHhhcCCCEEEEEEECcCHH----------------------------------------------------
Confidence                224456678999999999985310                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       .++.+..|+.                .+..+ ....+|+++++||.|.........+.+++++...+.+++++||+...
T Consensus        95 -s~~~~~~~~~----------------~i~~~-~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  156 (203)
T 1zbd_A           95 -SFNAVQDWST----------------QIKTY-SWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNI  156 (203)
T ss_dssp             -HHHHHHHHHH----------------HHHHH-SCSSCEEEEEEECTTCTTSCCSCHHHHHHHHHHHTCEEEECBTTTTB
T ss_pred             -HHHHHHHHHH----------------HHHHh-cCCCCCEEEEEECcccCcccccCHHHHHHHHHHCCCeEEEEECCCCC
Confidence             0111111111                11111 12468999999999974211223445566666667899999999665


Q ss_pred             HHhcC
Q psy2401         243 EISDL  247 (363)
Q Consensus       243 ~i~el  247 (363)
                      ++.++
T Consensus       157 gi~~l  161 (203)
T 1zbd_A          157 NVKQT  161 (203)
T ss_dssp             SSHHH
T ss_pred             CHHHH
Confidence            55443

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.69  E-value=7e-17  Score=138.83  Aligned_cols=84  Identities=18%  Similarity=0.188  Sum_probs=61.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|..+.+.....+.+++..              ...+.+|||||...... 
T Consensus         7 ~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~--------------~~~~~~~Dt~G~~~~~~-   71 (178)
T 2hxs_A            7 LKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNL--------------NVTLQIWDIGGQTIGGK-   71 (178)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTE--------------EEEEEEEECTTCCTTCT-
T ss_pred             EEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCC--------------EEEEEEEECCCCccccc-
Confidence            689999999999999999999865433333433445556667776521              16799999999755433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        72 ------~~~~~~~~~d~~i~v~d~~   90 (178)
T 2hxs_A           72 ------MLDKYIYGAQGVLLVYDIT   90 (178)
T ss_dssp             ------THHHHHTTCSEEEEEEETT
T ss_pred             ------hhhHHHhhCCEEEEEEECC
Confidence                  2334568899999999985

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=99.69  E-value=3.3e-17  Score=141.83  Aligned_cols=153  Identities=18%  Similarity=0.115  Sum_probs=77.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+++|++........|+.+.+.....+.+++..               ..+.+|||||...... 
T Consensus         9 ~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~l~Dt~G~~~~~~-   72 (183)
T 2fu5_C            9 FKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKR---------------IKLQIWDTAGQERFRT-   72 (183)
T ss_dssp             EEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEE---------------EEEEEEEC---------
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEE---------------EEEEEEcCCCChhhhh-
Confidence            689999999999999999999865554455555555555666776643               6799999999765433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++.+|++++|+|+++..                                                    
T Consensus        73 ------~~~~~~~~~d~~i~v~d~~~~~----------------------------------------------------   94 (183)
T 2fu5_C           73 ------ITTAYYRGAMGIMLVYDITNEK----------------------------------------------------   94 (183)
T ss_dssp             -------CCTTTTTCSEEEEEEETTCHH----------------------------------------------------
T ss_pred             ------hHHHHHhcCCEEEEEEECcCHH----------------------------------------------------
Confidence                  2224568899999999985310                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       .++.+..|+.                .+... .....|+++++||.|.........+.+++++...+.+++++||+...
T Consensus        95 -s~~~~~~~~~----------------~i~~~-~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~  156 (183)
T 2fu5_C           95 -SFDNIRNWIR----------------NIEEH-ASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANI  156 (183)
T ss_dssp             -HHHHHHHHHH----------------HHHHH-SCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---C
T ss_pred             -HHHHHHHHHH----------------HHHHh-cCCCCCEEEEEECccCCccCcCCHHHHHHHHHHcCCeEEEEeCCCCC
Confidence             1111112211                01111 11467999999999974211223455666666678899999999665


Q ss_pred             HHhcC
Q psy2401         243 EISDL  247 (363)
Q Consensus       243 ~i~el  247 (363)
                      ++.++
T Consensus       157 ~i~~l  161 (183)
T 2fu5_C          157 NVENA  161 (183)
T ss_dssp             CHHHH
T ss_pred             CHHHH
Confidence            55444

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=99.69  E-value=2.7e-16  Score=137.52  Aligned_cols=83  Identities=22%  Similarity=0.186  Sum_probs=58.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|....+.....+.+.+..               ..+.+|||||...... 
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~-   89 (193)
T 2oil_A           26 FKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAA---------------VKAQIWDTAGLERYRA-   89 (193)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEE---------------EEEEEEEESCCCTTCT-
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEE---------------EEEEEEeCCCchhhhh-
Confidence            689999999999999999999875443333322223333344444432               6799999999865432 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        90 ------~~~~~~~~~d~vi~v~D~~  108 (193)
T 2oil_A           90 ------ITSAYYRGAVGALLVFDLT  108 (193)
T ss_dssp             ------THHHHHTTCCEEEEEEETT
T ss_pred             ------hhHHHhccCCEEEEEEECC
Confidence                  2334568899999999985

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=99.69  E-value=3e-16  Score=133.49  Aligned_cols=83  Identities=19%  Similarity=0.125  Sum_probs=56.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|..........+.+.+..               ..+.+|||||...... 
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~Dt~G~~~~~~-   70 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNEL---------------HKFLIWDTAGLERFRA-   70 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEE---------------EEEEEEEECCSGGGGG-
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeE---------------EEEEEEcCCCchhhhc-
Confidence            689999999999999999999875433222222222223344554432               6789999999743222 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        71 ------~~~~~~~~~~~~i~v~d~~   89 (170)
T 1z0j_A           71 ------LAPMYYRGSAAAIIVYDIT   89 (170)
T ss_dssp             ------GTHHHHTTCSEEEEEEETT
T ss_pred             ------ccHhhCcCCCEEEEEEECc
Confidence                  2334568899999999985

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=99.69  E-value=1.1e-16  Score=141.32  Aligned_cols=84  Identities=20%  Similarity=0.181  Sum_probs=63.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||+++|++........|+++.+.....+.+++..               ..+.+|||||...... 
T Consensus        24 ~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~l~i~Dt~g~~~~~~-   87 (195)
T 3cbq_A           24 FKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEE---------------VTLVVYDIWEQGDAGG-   87 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEE---------------EEEEEECCCCCSGGGH-
T ss_pred             EEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEECCEE---------------EEEEEEecCCCccchh-
Confidence            689999999999999999998765445566777777777777777743               6789999999743210 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                        .+..   ..++.+|++++|+|+.
T Consensus        88 --~~~~---~~~~~~d~~ilv~d~~  107 (195)
T 3cbq_A           88 --WLRD---HCLQTGDAFLIVFSVT  107 (195)
T ss_dssp             --HHHH---HHHHHCSEEEEEEETT
T ss_pred             --hhHH---HhhccCCEEEEEEECC
Confidence              1212   3357899999999985

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=99.69  E-value=4.8e-17  Score=151.21  Aligned_cols=87  Identities=31%  Similarity=0.533  Sum_probs=70.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|+||||||||+|+|++....++++|++|.+...+.+.+.+                 ..+.+|||||+.+....
T Consensus         4 ~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~-----------------~~~~l~DtpG~~~~~~~   66 (271)
T 3k53_A            4 KTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYRE-----------------KEFLVVDLPGIYSLTAH   66 (271)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETT-----------------EEEEEEECCCCSCCCSS
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECC-----------------ceEEEEeCCCccccccC
Confidence            6899999999999999999999988899999999999999999888                 67999999998865432


Q ss_pred             c--cchhhHHHhhccccCEEEEEEecc
Q psy2401          83 G--EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~--~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .  +.+.+.++ ..+.+|++++|+|++
T Consensus        67 ~~~~~~~~~~~-~~~~~d~vi~v~D~~   92 (271)
T 3k53_A           67 SIDELIARNFI-LDGNADVIVDIVDST   92 (271)
T ss_dssp             CHHHHHHHHHH-HTTCCSEEEEEEEGG
T ss_pred             CHHHHHHHHhh-hccCCcEEEEEecCC
Confidence            1  11222222 236799999999985

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.69  E-value=1.8e-16  Score=139.97  Aligned_cols=154  Identities=16%  Similarity=0.085  Sum_probs=92.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||+|+|++.... ..++.++.......+.+++..               ..+.+|||||.......
T Consensus        25 ~ki~vvG~~~~GKSsli~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~---------------~~~~l~Dt~G~~~~~~~   88 (201)
T 3oes_A           25 RKVVILGYRCVGKTSLAHQFVEGEFS-EGYDPTVENTYSKIVTLGKDE---------------FHLHLVDTAGQDEYSIL   88 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCC-SCCCCCSEEEEEEEEC----C---------------EEEEEEEECCCCTTCCC
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCC-CCCCCccceEEEEEEEECCEE---------------EEEEEEECCCccchHHH
Confidence            68999999999999999999986544 233333322223344444322               67899999997654432


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                             ....++.+|++++|+|+.+..                                                    
T Consensus        89 -------~~~~~~~~d~~i~v~d~~~~~----------------------------------------------------  109 (201)
T 3oes_A           89 -------PYSFIIGVHGYVLVYSVTSLH----------------------------------------------------  109 (201)
T ss_dssp             -------CGGGTTTCCEEEEEEETTCHH----------------------------------------------------
T ss_pred             -------HHHHHhcCCEEEEEEeCCCHH----------------------------------------------------
Confidence                   234568899999999985310                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       .++.+..|+.                .+........+|+++|+||.|.........+..+++....+.+++++||+...
T Consensus       110 -s~~~~~~~~~----------------~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~  172 (201)
T 3oes_A          110 -SFQVIESLYQ----------------KLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQ  172 (201)
T ss_dssp             -HHHHHHHHHH----------------HHHC-----CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHH
T ss_pred             -HHHHHHHHHH----------------HHHHhcCCCCCCEEEEEECccCccccccCHHHHHHHHHHhCCeEEEEeCCCCC
Confidence             0111111111                01111112467999999999964211122344556666667899999999776


Q ss_pred             HHhcCC
Q psy2401         243 EISDLN  248 (363)
Q Consensus       243 ~i~el~  248 (363)
                      ++.++.
T Consensus       173 ~v~~l~  178 (201)
T 3oes_A          173 LTQGIF  178 (201)
T ss_dssp             HHHHHH
T ss_pred             CHHHHH
Confidence            665553

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.69  E-value=3.4e-16  Score=136.86  Aligned_cols=162  Identities=24%  Similarity=0.231  Sum_probs=96.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccc---------cccc-------------ccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKH---------LNNI-------------VKT   60 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~---------l~~~-------------~~~   60 (363)
                      ++|+++|++|||||||+|+|++........|.+..+.....+.+++.....         ....             ..+
T Consensus         8 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (208)
T 3clv_A            8 YKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIITNQHNNYN   87 (208)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC-------------------------------CCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCcccccccccccccccccccccccccccccccccc
Confidence            689999999999999999999875543333433333444445554422000         0000             000


Q ss_pred             ccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHH
Q psy2401          61 KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAIL  140 (363)
Q Consensus        61 ~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~  140 (363)
                      .......+.+|||||......       .....++.+|++++|+|+++..                              
T Consensus        88 ~~~~~~~~~i~Dt~G~~~~~~-------~~~~~~~~~d~~i~v~D~~~~~------------------------------  130 (208)
T 3clv_A           88 ENLCNIKFDIWDTAGQERYAS-------IVPLYYRGATCAIVVFDISNSN------------------------------  130 (208)
T ss_dssp             TTTCEEEEEEEECTTGGGCTT-------THHHHHTTCSEEEEEEETTCHH------------------------------
T ss_pred             CccceeEEEEEECCCcHHHHH-------HHHHHhcCCCEEEEEEECCCHH------------------------------
Confidence            011126799999999755433       3345568999999999985310                              


Q ss_pred             HhhhhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHH
Q psy2401         141 EKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLD  220 (363)
Q Consensus       141 ~~~~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~  220 (363)
                                             .++.+..|+.                .+...   ..+|+++|+||.|.. ......+
T Consensus       131 -----------------------s~~~~~~~~~----------------~i~~~---~~~piilv~NK~D~~-~~~~~~~  167 (208)
T 3clv_A          131 -----------------------TLDRAKTWVN----------------QLKIS---SNYIIILVANKIDKN-KFQVDIL  167 (208)
T ss_dssp             -----------------------HHHHHHHHHH----------------HHHHH---SCCEEEEEEECTTCC--CCSCHH
T ss_pred             -----------------------HHHHHHHHHH----------------HHHhh---CCCcEEEEEECCCcc-cccCCHH
Confidence                                   0111111111                11111   238999999999932 2233456


Q ss_pred             HHHHHHhcCCCcEEEeeHHHHHHH
Q psy2401         221 QLKIYAHNQNIPIIIICAKLEEEI  244 (363)
Q Consensus       221 ~i~~~~~~~~~~~i~~sa~~e~~i  244 (363)
                      ++++++.+.+.+++++||+...++
T Consensus       168 ~~~~~~~~~~~~~~~~Sa~~~~~i  191 (208)
T 3clv_A          168 EVQKYAQDNNLLFIQTSAKTGTNI  191 (208)
T ss_dssp             HHHHHHHHTTCEEEEECTTTCTTH
T ss_pred             HHHHHHHHcCCcEEEEecCCCCCH
Confidence            777778878899999999954333

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=99.69  E-value=4.6e-16  Score=137.28  Aligned_cols=158  Identities=17%  Similarity=0.153  Sum_probs=100.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|+.+.+.....+.+++..               ..+.+|||||.......
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~l~Dt~G~~~~~~~   73 (207)
T 1vg8_A            9 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRL---------------VTMQIWDTAGQERFQSL   73 (207)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCE---------------EEEEEEEECSSGGGSCS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEE---------------EEEEEEeCCCcHHHHHh
Confidence            689999999999999999999876555555555555666666666533               67999999997544332


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                             ....++.+|++++|+|+++...             +         ..                        ..
T Consensus        74 -------~~~~~~~~d~~i~v~d~~~~~s-------------~---------~~------------------------~~  100 (207)
T 1vg8_A           74 -------GVAFYRGADCCVLVFDVTAPNT-------------F---------KT------------------------LD  100 (207)
T ss_dssp             -------CCGGGTTCSEEEEEEETTCHHH-------------H---------HT------------------------HH
T ss_pred             -------HHHHHhCCcEEEEEEECCCHHH-------------H---------HH------------------------HH
Confidence                   2245588999999999853110             0         00                        00


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHh-cCCCcEEEeeHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAH-NQNIPIIIICAKLE  241 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~-~~~~~~i~~sa~~e  241 (363)
                      ..+..+.....                    ......+|+++++||.|.. ......+.++++.. ..+.+++++||+..
T Consensus       101 ~~~~~~~~~~~--------------------~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g  159 (207)
T 1vg8_A          101 SWRDEFLIQAS--------------------PRDPENFPFVVLGNKIDLE-NRQVATKRAQAWCYSKNNIPYFETSAKEA  159 (207)
T ss_dssp             HHHHHHHHHHC--------------------CSSGGGSCEEEEEECTTSS-CCCSCHHHHHHHHHHTTSCCEEECBTTTT
T ss_pred             HHHHHHHHhcc--------------------cccCCCCcEEEEEECCCCc-ccccCHHHHHHHHHhcCCceEEEEeCCCC
Confidence            00111100000                    0011467999999999974 22333455666665 56788999999976


Q ss_pred             HHHhcCCH
Q psy2401         242 EEISDLNN  249 (363)
Q Consensus       242 ~~i~el~~  249 (363)
                      .++.++.+
T Consensus       160 ~gi~~l~~  167 (207)
T 1vg8_A          160 INVEQAFQ  167 (207)
T ss_dssp             BSHHHHHH
T ss_pred             CCHHHHHH
Confidence            66655533

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=99.69  E-value=9.2e-17  Score=160.75  Aligned_cols=90  Identities=22%  Similarity=0.274  Sum_probs=49.4

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      +++|+++|+||||||||+|+|++. .+.++++|++|.++....+.+++                 .++.+|||||+.++.
T Consensus       233 ~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g-----------------~~l~liDT~G~~~~~  295 (476)
T 3gee_A          233 GVSTVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDK-----------------TMFRLTDTAGLREAG  295 (476)
T ss_dssp             CEEEEEECCTTSSHHHHHHHCC------------------CEEEEETT-----------------EEEEEEC--------
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC-----------------eEEEEEECCCCCcch
Confidence            468999999999999999999998 46689999999999999999988                 679999999997654


Q ss_pred             Ccccchh-hHHHhhccccCEEEEEEeccc
Q psy2401          81 SKGEGLG-NKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        81 ~~~~~l~-~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ...+.++ ...+..++.+|++++|+|+++
T Consensus       296 ~~ve~~gi~~~~~~~~~aD~vl~VvD~s~  324 (476)
T 3gee_A          296 EEIEHEGIRRSRMKMAEADLILYLLDLGT  324 (476)
T ss_dssp             ------------CCCSSCSEEEEEEETTT
T ss_pred             hHHHHHHHHHHHhhcccCCEEEEEEECCC
Confidence            4333221 345667899999999999954

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.68  E-value=1.4e-16  Score=141.34  Aligned_cols=83  Identities=25%  Similarity=0.213  Sum_probs=65.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|+.+.+.....+.+++..               ..+.+|||||...... 
T Consensus        21 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~l~Dt~G~~~~~~-   84 (213)
T 3cph_A           21 MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKK---------------VKLQLWDTAGQERFRT-   84 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEE---------------EEEEEECCTTGGGGTC-
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEE---------------EEEEEEeCCCcHHHHH-
Confidence            689999999999999999999876666666766666666777777643               5799999999754433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        85 ------~~~~~~~~~d~ii~v~d~~  103 (213)
T 3cph_A           85 ------ITTAYYRGAMGIILVYDVT  103 (213)
T ss_dssp             ------CCHHHHTTCSEEEEEEETT
T ss_pred             ------HHHHHhccCCEEEEEEECC
Confidence                  2234558899999999985

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=99.68  E-value=7.3e-17  Score=143.94  Aligned_cols=164  Identities=15%  Similarity=0.103  Sum_probs=98.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|..+.+.....+.+++....     ....+.....+.+|||||...    
T Consensus        26 ~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~l~l~Dt~G~~~----   96 (217)
T 2f7s_A           26 IKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPN-----GSSGKAFKVHLQLWDTAGQER----   96 (217)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC------------CCEEEEEEEEEEEESHHH----
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCcccc-----ccccCceeEEEEEEECCCcHh----
Confidence            68999999999999999999986554333343333344444555442000     000011126799999999643    


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                         +.......++.+|++++|+|++..                                                     
T Consensus        97 ---~~~~~~~~~~~~d~iilV~D~~~~-----------------------------------------------------  120 (217)
T 2f7s_A           97 ---FRSLTTAFFRDAMGFLLMFDLTSQ-----------------------------------------------------  120 (217)
T ss_dssp             ---HHHHHHHHHTTCCEEEEEEETTCH-----------------------------------------------------
T ss_pred             ---HHhHHHHHhcCCCEEEEEEECcCH-----------------------------------------------------
Confidence               222344667899999999998531                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      ..++.+..|+..-..                ......+|+++|+||.|.........+.+++++...+.+++++||+...
T Consensus       121 ~s~~~~~~~l~~i~~----------------~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~  184 (217)
T 2f7s_A          121 QSFLNVRNWMSQLQA----------------NAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQ  184 (217)
T ss_dssp             HHHHHHHHHHHTCCC----------------CCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTTTTB
T ss_pred             HHHHHHHHHHHHHHH----------------hcCcCCCCEEEEEECCccccccccCHHHHHHHHHHCCCcEEEEECCCCC
Confidence            111122222221100                0111568999999999964211222456667777778899999999665


Q ss_pred             HHhcC
Q psy2401         243 EISDL  247 (363)
Q Consensus       243 ~i~el  247 (363)
                      ++.++
T Consensus       185 gi~~l  189 (217)
T 2f7s_A          185 NVEKA  189 (217)
T ss_dssp             THHHH
T ss_pred             CHHHH
Confidence            55444

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=99.68  E-value=2.7e-16  Score=134.63  Aligned_cols=83  Identities=13%  Similarity=0.052  Sum_probs=53.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc-ccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~-~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      ++|+++|++|||||||+|+|++.... ..+.+++  +.....+.+++..               ..+.+|||||......
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~~~~~~~~~~~~~--~~~~~~~~~~~~~---------------~~~~~~D~~g~~~~~~   67 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAGKQERDLHEQLGE--DVYERTLTVDGED---------------TTLVVVDTWEAEKLDK   67 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC-----CCCSSS--SEEEEEEEETTEE---------------EEEEEECCC-------
T ss_pred             EEEEEECCCCccHHHHHHHHhcCCCccccCcccc--ceeEEEEEECCEE---------------EEEEEEecCCCCccch
Confidence            68999999999999999999987432 3333333  2334556666643               5789999999754211


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                        ..   .....++.+|++++|+|+.
T Consensus        68 --~~---~~~~~~~~~~~~i~v~d~~   88 (175)
T 2nzj_A           68 --SW---SQESCLQGGSAYVIVYSIA   88 (175)
T ss_dssp             --CH---HHHHTTTSCSEEEEEEETT
T ss_pred             --hh---hHHhhcccCCEEEEEEECC
Confidence              11   2234557899999999985

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=99.68  E-value=9.2e-17  Score=151.79  Aligned_cols=88  Identities=27%  Similarity=0.268  Sum_probs=67.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc-cccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeeccc-CCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI-SAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLV-SGA   80 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~-~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~-~~~   80 (363)
                      .+|+|+|+||||||||+|+|++... .+++.|++|.+...|.+..++                 .++.++||||+. ...
T Consensus         9 ~~VaIvG~~nvGKSTLln~L~g~~~~i~s~~~~tTr~~~~gi~~~~~-----------------~~i~~iDTpG~~~~~~   71 (301)
T 1ega_A            9 GFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGA-----------------YQAIYVDTPGLHMEEK   71 (301)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETT-----------------EEEEEESSSSCCHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCccccCCCCCcceeeEEEEEEECC-----------------eeEEEEECcCCCccch
Confidence            4799999999999999999999864 467889999888888887766                 789999999985 211


Q ss_pred             Cc-ccchhhHHHhhccccCEEEEEEecc
Q psy2401          81 SK-GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~-~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .. .+.+.......++.+|++++|+|+.
T Consensus        72 ~~l~~~~~~~~~~~l~~~D~vl~Vvd~~   99 (301)
T 1ega_A           72 RAINRLMNKAASSSIGDVELVIFVVEGT   99 (301)
T ss_dssp             HHHHHHHTCCTTSCCCCEEEEEEEEETT
T ss_pred             hhHHHHHHHHHHHHHhcCCEEEEEEeCC
Confidence            10 1111223346678999999999984

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=99.68  E-value=6.7e-16  Score=139.28  Aligned_cols=89  Identities=21%  Similarity=0.366  Sum_probs=63.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||+|+|++....+++++++|.....+...+.+                 ..+.+|||||+......
T Consensus        30 ~kI~vvG~~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~-----------------~~~~l~DtpG~~~~~~~   92 (228)
T 2qu8_A           30 KTIILSGAPNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHKL-----------------NKYQIIDTPGLLDRAFE   92 (228)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEETT-----------------EEEEEEECTTTTTSCGG
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeecCC-----------------CeEEEEECCCCcCcccc
Confidence            6899999999999999999999877678889999888888777766                 67999999998653321


Q ss_pred             ccc-h-hhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEG-L-GNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~-l-~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ... + ........+.+|++++|+|+++
T Consensus        93 ~~~~~~~~~~~~~~~~~d~~i~v~d~~~  120 (228)
T 2qu8_A           93 NRNTIEMTTITALAHINGVILFIIDISE  120 (228)
T ss_dssp             GCCHHHHHHHHHHHTSSEEEEEEEETTC
T ss_pred             hhhhHHHHHHHHhhccccEEEEEEeccc
Confidence            111 0 1112233577899999999853

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=99.68  E-value=1.2e-16  Score=141.24  Aligned_cols=153  Identities=16%  Similarity=0.152  Sum_probs=93.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||+|+|++........|+.+.+.....+.+++..               ..+.+|||||...... 
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~l~l~Dt~G~~~~~~-   89 (200)
T 2o52_A           26 FKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKT---------------VKLQIWDTAGQERFRS-   89 (200)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEEETTEE---------------EEEEEECCTTHHHHSC-
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCee---------------eEEEEEcCCCcHhHHH-
Confidence            689999999999999999999876655555666666666667776643               6799999999754322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++.+|++++|+|+.+..                                                    
T Consensus        90 ------~~~~~~~~~d~~i~v~d~~~~~----------------------------------------------------  111 (200)
T 2o52_A           90 ------VTRSYYRGAAGALLVYDITSRE----------------------------------------------------  111 (200)
T ss_dssp             ------CCHHHHTTCSEEEEEEETTCHH----------------------------------------------------
T ss_pred             ------HHHHHhccCCEEEEEEECcCHH----------------------------------------------------
Confidence                  1234558899999999985310                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       .++.+..|+.                .+... .....|+++++||.|.........++..+++...+.+++++||+...
T Consensus       112 -s~~~~~~~~~----------------~~~~~-~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~  173 (200)
T 2o52_A          112 -TYNSLAAWLT----------------DARTL-ASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGE  173 (200)
T ss_dssp             -HHHTHHHHHH----------------HHHHH-TCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCT
T ss_pred             -HHHHHHHHHH----------------HHHHh-cCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCC
Confidence             0111111111                01111 11467999999999974211122345666677778899999999655


Q ss_pred             HHhcC
Q psy2401         243 EISDL  247 (363)
Q Consensus       243 ~i~el  247 (363)
                      ++.++
T Consensus       174 gi~~l  178 (200)
T 2o52_A          174 NVEEA  178 (200)
T ss_dssp             THHHH
T ss_pred             CHHHH
Confidence            55444

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=99.68  E-value=1.7e-16  Score=138.86  Aligned_cols=83  Identities=22%  Similarity=0.167  Sum_probs=60.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|++|||||||+|+|++........|..+.+.....+.+++..               ..+.+|||||.......
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~~   86 (191)
T 2a5j_A           22 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQ---------------IKLQIWDTAGQESFRSI   86 (191)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEE---------------EEEEEECCTTGGGTSCC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEE---------------EEEEEEECCCchhhhhh
Confidence            689999999999999999999876554455555555556667776643               67999999997654332


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                             ....++.+|++++|+|++
T Consensus        87 -------~~~~~~~~d~ii~v~d~~  104 (191)
T 2a5j_A           87 -------TRSYYRGAAGALLVYDIT  104 (191)
T ss_dssp             -------CHHHHTTCSEEEEEEETT
T ss_pred             -------HHHHhccCCEEEEEEECC
Confidence                   234558899999999985

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.68  E-value=4e-16  Score=134.09  Aligned_cols=82  Identities=22%  Similarity=0.207  Sum_probs=67.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      ..+|+++|.+|||||||+|+|++........|++|.+.....+.+++                 ..+.+|||||......
T Consensus         8 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------~~~~l~Dt~G~~~~~~   70 (178)
T 2lkc_A            8 PPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVND-----------------KKITFLDTPGHEAFTT   70 (178)
T ss_dssp             CCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETT-----------------EEEEESCCCSSSSSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCC-----------------ceEEEEECCCCHHHHH
Confidence            36899999999999999999999877777788888888777888877                 6788999999865544


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ..       ...++.+|++++|+|+.
T Consensus        71 ~~-------~~~~~~~d~~i~v~d~~   89 (178)
T 2lkc_A           71 MR-------ARGAQVTDIVILVVAAD   89 (178)
T ss_dssp             SC-------CSSCCCCCEEEEEEETT
T ss_pred             HH-------HHHHhhCCEEEEEEECC
Confidence            22       24568899999999984

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.68  E-value=2.8e-17  Score=142.94  Aligned_cols=87  Identities=32%  Similarity=0.527  Sum_probs=68.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++....++.+|++|.++..+.+.+++                 ..+.+|||||.......
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~-----------------~~~~l~Dt~G~~~~~~~   70 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG-----------------EKFKVVDLPGVYSLTAN   70 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT-----------------EEEEEEECCCCSCCSSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeCC-----------------cEEEEEECCCcCccccc
Confidence            5899999999999999999999877788899999999889988877                 67999999998765321


Q ss_pred             c--cchhhHHHhhccccCEEEEEEecc
Q psy2401          83 G--EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~--~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .  +.+...++.. ..+|++++|+|++
T Consensus        71 ~~~~~~~~~~~~~-~~~~~~i~v~d~~   96 (188)
T 2wjg_A           71 SIDEIIARDYIIN-EKPDLVVNIVDAT   96 (188)
T ss_dssp             SHHHHHHHHHHHH-HCCSEEEEEEEGG
T ss_pred             cHHHHHHHHHHhc-cCCCEEEEEecch
Confidence            1  1222223221 3589999999984

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=99.68  E-value=1.7e-16  Score=140.41  Aligned_cols=153  Identities=16%  Similarity=0.127  Sum_probs=93.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||+|+|++........|..+.+.....+.+++..               ..+.+|||||..+.   
T Consensus        30 ~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~---   91 (201)
T 2hup_A           30 FKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKR---------------VKLQIWDTAGQERF---   91 (201)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEETTEE---------------EEEEEECCTTCGGG---
T ss_pred             eEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEE---------------EEEEEEECCCcHhH---
Confidence            689999999999999999999865443333433344545566666533               67999999996432   


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                          .......++.+|++++|+|+.+..                                                    
T Consensus        92 ----~~~~~~~~~~~d~iilv~D~~~~~----------------------------------------------------  115 (201)
T 2hup_A           92 ----RTITQSYYRSANGAILAYDITKRS----------------------------------------------------  115 (201)
T ss_dssp             ----HHHHHHHHTTCSEEEEEEETTBHH----------------------------------------------------
T ss_pred             ----HHHHHHHHhhCCEEEEEEECCCHH----------------------------------------------------
Confidence                123345668999999999985310                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCC-cEEEeeHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNI-PIIIICAKLE  241 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~-~~i~~sa~~e  241 (363)
                       .++.+..|+.                .+... .....|+++++||.|.........+++++++...+. +++.+||+..
T Consensus       116 -s~~~~~~~~~----------------~i~~~-~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g  177 (201)
T 2hup_A          116 -SFLSVPHWIE----------------DVRKY-AGSNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDS  177 (201)
T ss_dssp             -HHHTHHHHHH----------------HHHHH-SCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCSEEEECBTTTT
T ss_pred             -HHHHHHHHHH----------------HHHHh-cCCCCCEEEEEECCccccccccCHHHHHHHHHHcCCCEEEEEeCCCC
Confidence             0111111111                01111 114679999999999742112234566777777788 8999999955


Q ss_pred             HHHhcC
Q psy2401         242 EEISDL  247 (363)
Q Consensus       242 ~~i~el  247 (363)
                      .++.++
T Consensus       178 ~gi~~l  183 (201)
T 2hup_A          178 SNVEEA  183 (201)
T ss_dssp             BSHHHH
T ss_pred             CCHHHH
Confidence            444433

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=99.68  E-value=2.2e-16  Score=152.95  Aligned_cols=88  Identities=28%  Similarity=0.387  Sum_probs=61.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      .|+|+|+||||||||+|+|++....++++||+|.++..+.+.+++                 ..+.++||||+.......
T Consensus       181 ~V~lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g-----------------~~v~l~DT~G~i~~lp~~  243 (364)
T 2qtf_A          181 SIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINN-----------------RKIMLVDTVGFIRGIPPQ  243 (364)
T ss_dssp             EEEEECBTTSSHHHHHHHHHCC-----------CCSCEEEEEETT-----------------EEEEEEECCCBCSSCCGG
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECC-----------------EEEEEEeCCCchhcCCHH
Confidence            399999999999999999999887888999999999999999988                 568999999986542211


Q ss_pred             c-chhhHHHhhccccCEEEEEEeccc
Q psy2401          84 E-GLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        84 ~-~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      . ......+..++.+|++++|+|+++
T Consensus       244 lve~f~~tl~~~~~aD~il~VvD~s~  269 (364)
T 2qtf_A          244 IVDAFFVTLSEAKYSDALILVIDSTF  269 (364)
T ss_dssp             GHHHHHHHHHGGGGSSEEEEEEETTS
T ss_pred             HHHHHHHHHHHHHhCCEEEEEEECCC
Confidence            0 001344567889999999999853

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.68  E-value=2e-16  Score=138.78  Aligned_cols=83  Identities=22%  Similarity=0.219  Sum_probs=57.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||+|+|++........|..+.+.....+.+++..               ..+.+|||||....   
T Consensus        27 ~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~l~l~Dt~G~~~~---   88 (192)
T 2il1_A           27 LQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKK---------------IRLQIWDTAGQERF---   88 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEE---------------EEEEEEEECCSGGG---
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeE---------------EEEEEEeCCCcHHH---
Confidence            689999999999999999999875544445555555555666666643               57999999995432   


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                          .......++.+|++++|+|+.
T Consensus        89 ----~~~~~~~~~~~d~iilV~D~~  109 (192)
T 2il1_A           89 ----NSITSAYYRSAKGIILVYDIT  109 (192)
T ss_dssp             ----HHHHHHHHHHCSEEEEEEETT
T ss_pred             ----HHHHHHHhcCCCEEEEEEECc
Confidence                223445668899999999985

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.67  E-value=8.6e-17  Score=140.76  Aligned_cols=83  Identities=18%  Similarity=0.132  Sum_probs=59.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||+|+|++........|..+.+.....+.+++..               ..+.+|||||.....  
T Consensus        24 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~--   86 (191)
T 3dz8_A           24 FKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKR---------------VKLQIWDTAGQERYR--   86 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTT---------------EEEEEECHHHHHHCH--
T ss_pred             eEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEE---------------EEEEEEeCCChHHHH--
Confidence            799999999999999999999865433333333334444455555533               679999999954322  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           ......++.+|++++|+|+.
T Consensus        87 -----~~~~~~~~~~d~~i~v~d~~  106 (191)
T 3dz8_A           87 -----TITTAYYRGAMGFILMYDIT  106 (191)
T ss_dssp             -----HHHHHHHTTCCEEEEEEETT
T ss_pred             -----HHHHHHHccCCEEEEEEECc
Confidence                 23445678999999999985

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=99.67  E-value=6.6e-16  Score=136.41  Aligned_cols=78  Identities=19%  Similarity=0.342  Sum_probs=55.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+++|++|||||||++++++....  .+. .|..++.+.+.+++                 ..+.+|||||...... 
T Consensus        26 ~ki~lvG~~~vGKSsLi~~l~~~~~~--~~~-~t~~~~~~~~~~~~-----------------~~l~i~Dt~G~~~~~~-   84 (198)
T 1f6b_A           26 GKLVFLGLDNAGKTTLLHMLKDDRLG--QHV-PTLHPTSEELTIAG-----------------MTFTTFDLGGHIQARR-   84 (198)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSCC---------CCCCCSCEEEEETT-----------------EEEEEEEECC----CC-
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCC--ccC-CCCCceeEEEEECC-----------------EEEEEEECCCcHhhHH-
Confidence            58999999999999999999986432  121 25566677888877                 6899999999765443 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        85 ------~~~~~~~~~d~~i~v~D~~  103 (198)
T 1f6b_A           85 ------VWKNYLPAINGIVFLVDCA  103 (198)
T ss_dssp             ------GGGGGGGGCSEEEEEEETT
T ss_pred             ------HHHHHHhcCCEEEEEEECC
Confidence                  2234568899999999985

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=99.67  E-value=4.6e-16  Score=133.84  Aligned_cols=84  Identities=21%  Similarity=0.167  Sum_probs=56.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+++|++|||||||+|+|++........|..+.+.....+.+++..              ...+.+|||||...... 
T Consensus         9 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~l~Dt~G~~~~~~-   73 (182)
T 1ky3_A            9 LKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDK--------------VATMQVWDTAGQERFQS-   73 (182)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSC--------------CEEEEEECCC--------
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCc--------------EEEEEEEECCCChHhhh-
Confidence            689999999999999999999876554445555566666667666321              16789999999654332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        74 ------~~~~~~~~~d~~i~v~d~~   92 (182)
T 1ky3_A           74 ------LGVAFYRGADCCVLVYDVT   92 (182)
T ss_dssp             ---------CCSTTCCEEEEEEETT
T ss_pred             ------hhHHHhhcCCEEEEEEECC
Confidence                  2335568899999999985

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=99.67  E-value=5.2e-16  Score=135.21  Aligned_cols=151  Identities=19%  Similarity=0.175  Sum_probs=90.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||+|+|++.... ..++.++.......+.+++..               ..+.+|||||...... 
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~---------------~~~~l~Dt~G~~~~~~-   84 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQNHFV-DEYDPTIEDSYRKQVVIDGET---------------CLLDILDTAGQEEYSA-   84 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSSCC-SCCCTTCCEEEEEEEEETTEE---------------EEEEEEECCC-------
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCCCc-cccCCccceEEEEEEEECCEE---------------EEEEEEECCChHHHHH-
Confidence            68999999999999999999986432 334444444444455555532               5689999999754332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++.+|++++|+|+.+..                                                    
T Consensus        85 ------~~~~~~~~~d~~i~v~d~~~~~----------------------------------------------------  106 (190)
T 3con_A           85 ------MRDQYMRTGEGFLCVFAINNSK----------------------------------------------------  106 (190)
T ss_dssp             -----------CTTCSEEEEEEETTCHH----------------------------------------------------
T ss_pred             ------HHHHhhCcCCEEEEEEECcCHH----------------------------------------------------
Confidence                  2234568899999999984310                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       .++.+..|+.                .+..+.....+|+++++||.|... .....+.+++++...+.+++++||+...
T Consensus       107 -s~~~~~~~~~----------------~i~~~~~~~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  168 (190)
T 3con_A          107 -SFADINLYRE----------------QIKRVKDSDDVPMVLVGNKCDLPT-RTVDTKQAHELAKSYGIPFIETSAKTRQ  168 (190)
T ss_dssp             -HHHHHHHHHH----------------HHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCT
T ss_pred             -HHHHHHHHHH----------------HHHHHhCCCCCeEEEEEECCcCCc-ccCCHHHHHHHHHHcCCeEEEEeCCCCC
Confidence             0111111111                111111124689999999999642 2223455666666677899999999544


Q ss_pred             HHhc
Q psy2401         243 EISD  246 (363)
Q Consensus       243 ~i~e  246 (363)
                      ++.+
T Consensus       169 gi~~  172 (190)
T 3con_A          169 GVED  172 (190)
T ss_dssp             THHH
T ss_pred             CHHH
Confidence            4433

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.67  E-value=2.6e-16  Score=141.41  Aligned_cols=83  Identities=25%  Similarity=0.204  Sum_probs=59.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+++|++........|+.+.+.....+.+++..               ..+.+|||||.......
T Consensus        14 ~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~~   78 (223)
T 3cpj_B           14 FKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKR---------------IKAQIWDTAGQERYRAI   78 (223)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEE---------------EEEEEECCTTTTTTTCC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEE---------------EEEEEEECCCccchhhh
Confidence            689999999999999999999876655555655666666667776643               57899999997654332


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                             ....++.+|++++|+|+.
T Consensus        79 -------~~~~~~~~d~vilV~D~~   96 (223)
T 3cpj_B           79 -------TSAYYRGAVGALIVYDIS   96 (223)
T ss_dssp             -------CGGGTTTCCEEEEEEC-C
T ss_pred             -------HHHHhccCCEEEEEEeCC
Confidence                   234568899999999985

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=99.67  E-value=1.6e-16  Score=137.42  Aligned_cols=82  Identities=20%  Similarity=0.171  Sum_probs=57.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||+|+|++..... .++.++.......+.+++..               ..+.+|||||...... 
T Consensus        19 ~ki~v~G~~~~GKSsl~~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~-   81 (183)
T 3kkq_A           19 YKLVVVGDGGVGKSALTIQFFQKIFVD-DYDPTIEDSYLKHTEIDNQW---------------AILDVLDTAGQEEFSA-   81 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCS-CCCTTCCEEEEEEEEETTEE---------------EEEEEEECCSCGGGCS-
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCC-CCCCCccceeEEEEEeCCcE---------------EEEEEEECCCchhhHH-
Confidence            689999999999999999999764332 33333333334555665533               5678899999654332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        82 ------~~~~~~~~~d~~i~v~d~~  100 (183)
T 3kkq_A           82 ------MREQYMRTGDGFLIVYSVT  100 (183)
T ss_dssp             ------SHHHHHHHCSEEEEEEETT
T ss_pred             ------HHHHHHhcCCEEEEEEECC
Confidence                  2234457899999999985

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.67  E-value=3.7e-16  Score=155.02  Aligned_cols=184  Identities=21%  Similarity=0.186  Sum_probs=115.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+|+++|+||||||||+|+|++.. ..++++|++|.+.....+.+++                 ..+.+|||||+.+...
T Consensus       176 ~ki~lvG~~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~-----------------~~~~l~DT~G~~~~~~  238 (436)
T 2hjg_A          176 IQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQ-----------------QEFVIVDTAGMRKKGK  238 (436)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSTTEEEC---------CCEEEEETT-----------------EEEEETTHHHHTCBTT
T ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECC-----------------eEEEEEECCCcCcCcc
Confidence            689999999999999999999985 4588999999999988898888                 6789999999865443


Q ss_pred             cccchh----hHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCch
Q psy2401          82 KGEGLG----NKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEH  157 (363)
Q Consensus        82 ~~~~l~----~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~  157 (363)
                      ..+.+.    ...+..++.+|++++|+|++++..                                              
T Consensus       239 ~~~~~e~~~~~~~~~~~~~ad~~llv~D~~~~~s----------------------------------------------  272 (436)
T 2hjg_A          239 VYETTEKYSVLRALKAIDRSEVVAVVLDGEEGII----------------------------------------------  272 (436)
T ss_dssp             BCCCCSHHHHHHHHHHHHHCSEEEEEEETTTCCC----------------------------------------------
T ss_pred             ccchHHHHHHHHHHHHHHhCCEEEEEEcCCcCCc----------------------------------------------
Confidence            222111    123457789999999999954210                                              


Q ss_pred             hHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCch----HHHHHHHHHHh-cCCCc
Q psy2401         158 SIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNN----LLLDQLKIYAH-NQNIP  232 (363)
Q Consensus       158 ~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~----~~~~~i~~~~~-~~~~~  232 (363)
                                                 ..+...+... ....+|+++|+||.|......    +..+.+.+.+. ..+.+
T Consensus       273 ---------------------------~~~~~~~~~~-~~~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~l~~~~~~~  324 (436)
T 2hjg_A          273 ---------------------------EQDKRIAGYA-HEAGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAP  324 (436)
T ss_dssp             ---------------------------HHHHHHHHHH-HHTTCEEEEEEECGGGSCCCTTHHHHHHHHHHHHCGGGTTSC
T ss_pred             ---------------------------HHHHHHHHHH-HHcCCcEEEEEECccCCCcchHHHHHHHHHHHHhcccCCCCC
Confidence                                       0000000000 114689999999999742112    12233333322 23578


Q ss_pred             EEEeeHHHHHHHhcCCHHHHHHHHhh-cCCCchhHHHHHHHHHHhC
Q psy2401         233 IIIICAKLEEEISDLNNIDKKFFLDN-LGLKETKLNDLIRASFSLL  277 (363)
Q Consensus       233 ~i~~sa~~e~~i~el~~~~~~~~l~~-~~l~~~~l~~l~~~~~~~l  277 (363)
                      ++++||+...++.++.+...+.+.+. ..+....+.+++..+....
T Consensus       325 ~~~~SA~tg~~v~~l~~~i~~~~~~~~~~~~t~~ln~~l~~~~~~~  370 (436)
T 2hjg_A          325 ILFMSALTKKRIHTLMPAIIKASENHSLRVQTNVLNDVIMDAVAMN  370 (436)
T ss_dssp             EEECCTTTCTTGGGHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHS
T ss_pred             EEEEecccCCCHHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHHhC
Confidence            99999999999988866555544432 2344566788888776553

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=99.66  E-value=9.5e-16  Score=133.82  Aligned_cols=80  Identities=23%  Similarity=0.264  Sum_probs=59.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||+|+|++.......+ ..|.......+.+++                 ..+.+|||||...... 
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~-~~t~~~~~~~~~~~~-----------------~~~~l~Dt~G~~~~~~-   82 (190)
T 2h57_A           22 VHVLCLGLDNSGKTTIINKLKPSNAQSQNI-LPTIGFSIEKFKSSS-----------------LSFTVFDMSGQGRYRN-   82 (190)
T ss_dssp             EEEEEEECTTSSHHHHHHHTSCGGGCCSSC-CCCSSEEEEEEECSS-----------------CEEEEEEECCSTTTGG-
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCc-CCccceeEEEEEECC-----------------EEEEEEECCCCHHHHH-
Confidence            689999999999999999999865222222 235556666677766                 6799999999654332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        83 ------~~~~~~~~~d~ii~v~d~~  101 (190)
T 2h57_A           83 ------LWEHYYKEGQAIIFVIDSS  101 (190)
T ss_dssp             ------GGGGGGGGCSEEEEEEETT
T ss_pred             ------HHHHHHhcCCEEEEEEECC
Confidence                  2335668999999999985

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=99.66  E-value=1.2e-15  Score=133.68  Aligned_cols=79  Identities=19%  Similarity=0.282  Sum_probs=60.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+++|++|||||||++++++....  .+ ..|..+..+.+.+++                 ..+.+|||||...... 
T Consensus        24 ~ki~~vG~~~vGKSsli~~l~~~~~~--~~-~~t~~~~~~~~~~~~-----------------~~~~i~Dt~G~~~~~~-   82 (190)
T 1m2o_B           24 GKLLFLGLDNAGKTTLLHMLKNDRLA--TL-QPTWHPTSEELAIGN-----------------IKFTTFDLGGHIQARR-   82 (190)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCC--CC-CCCCSCEEEEEEETT-----------------EEEEEEECCCSGGGTT-
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCC--cc-ccCCCCCeEEEEECC-----------------EEEEEEECCCCHHHHH-
Confidence            68999999999999999999986432  12 235666777888877                 6799999999865433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                            .....++.+|++++|+|+++
T Consensus        83 ------~~~~~~~~~d~~i~v~d~~~  102 (190)
T 1m2o_B           83 ------LWKDYFPEVNGIVFLVDAAD  102 (190)
T ss_dssp             ------SGGGGCTTCCEEEEEEETTC
T ss_pred             ------HHHHHHhcCCEEEEEEECCC
Confidence                  22345689999999999953

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.66  E-value=4.9e-16  Score=154.97  Aligned_cols=184  Identities=21%  Similarity=0.214  Sum_probs=118.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+|+++|.+|+|||||+|+|++. ...++++|++|.++....+.+++                 ..+++|||||+.+...
T Consensus       196 ~ki~ivG~~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~-----------------~~~~l~DT~G~~~~~~  258 (456)
T 4dcu_A          196 IQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQ-----------------QEFVIVDTAGMRKKGK  258 (456)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETT-----------------EEEEETTGGGTTTBTT
T ss_pred             ceeEEecCCCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECC-----------------ceEEEEECCCCCcCcc
Confidence            68999999999999999999987 46789999999999999999888                 6799999999865432


Q ss_pred             cc---cch-hhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCch
Q psy2401          82 KG---EGL-GNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEH  157 (363)
Q Consensus        82 ~~---~~l-~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~  157 (363)
                      ..   +.+ ....+.+++.+|++++|+|++++            ..                                  
T Consensus       259 ~~~~~e~~~~~~~~~~~~~ad~~llviD~~~~------------~~----------------------------------  292 (456)
T 4dcu_A          259 VYETTEKYSVLRALKAIDRSEVVAVVLDGEEG------------II----------------------------------  292 (456)
T ss_dssp             BCCCCSHHHHHHHHHHHHHCSEEEEEEETTTC------------CC----------------------------------
T ss_pred             cchHHHHHHHHHHHHHHhhCCEEEEEEeCCCC------------cC----------------------------------
Confidence            21   111 12345677899999999998532            10                                  


Q ss_pred             hHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcC-----CCc
Q psy2401         158 SIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQ-----NIP  232 (363)
Q Consensus       158 ~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~-----~~~  232 (363)
                                                 ..+...+... ....+|+++|+||.|.........+++++.+.+.     +.+
T Consensus       293 ---------------------------~~~~~~~~~~-~~~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  344 (456)
T 4dcu_A          293 ---------------------------EQDKRIAGYA-HEAGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAP  344 (456)
T ss_dssp             ---------------------------HHHHHHHHHH-HHTTCEEEEEEECGGGSCCCSSHHHHHHHHHHHHCGGGTTSC
T ss_pred             ---------------------------HHHHHHHHHH-HHcCCCEEEEEEChhcCCCchHHHHHHHHHHHHhcccCCCCC
Confidence                                       0000001101 1146899999999997421222233333333322     468


Q ss_pred             EEEeeHHHHHHHhcCCHHHHHHHHhh-cCCCchhHHHHHHHHHHhC
Q psy2401         233 IIIICAKLEEEISDLNNIDKKFFLDN-LGLKETKLNDLIRASFSLL  277 (363)
Q Consensus       233 ~i~~sa~~e~~i~el~~~~~~~~l~~-~~l~~~~l~~l~~~~~~~l  277 (363)
                      ++++||+...++.++.+...+.+.+. ..+....+.+.+..+....
T Consensus       345 ~~~~SA~~g~gv~~l~~~i~~~~~~~~~~~~t~~ln~~l~~~~~~~  390 (456)
T 4dcu_A          345 ILFMSALTKKRIHTLMPAIIKASENHSLRVQTNVLNDVIMDAVAMN  390 (456)
T ss_dssp             EEECCTTTCTTGGGHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHS
T ss_pred             EEEEcCCCCcCHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhC
Confidence            99999999999888866554444332 2344566778877666543

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=99.66  E-value=6.7e-16  Score=134.04  Aligned_cols=79  Identities=24%  Similarity=0.291  Sum_probs=58.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+++|++|||||||+|++++.. .....|  |.......+.+++                 ..+.+|||||..+... 
T Consensus        19 ~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~--t~~~~~~~~~~~~-----------------~~~~~~Dt~G~~~~~~-   77 (186)
T 1ksh_A           19 LRLLMLGLDNAGKTTILKKFNGED-VDTISP--TLGFNIKTLEHRG-----------------FKLNIWDVGGQKSLRS-   77 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTTCC-CSSCCC--CSSEEEEEEEETT-----------------EEEEEEEECCSHHHHT-
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC-CCcccc--cCccceEEEEECC-----------------EEEEEEECCCCHhHHH-
Confidence            689999999999999999999865 222222  4444555666655                 7899999999754222 


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                            .....++.+|++++|+|+++
T Consensus        78 ------~~~~~~~~~d~ii~v~d~~~   97 (186)
T 1ksh_A           78 ------YWRNYFESTDGLIWVVDSAD   97 (186)
T ss_dssp             ------TGGGGCTTCSEEEEEEETTC
T ss_pred             ------HHHHHhcCCCEEEEEEECcC
Confidence                  23355689999999999853

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=99.66  E-value=8.4e-16  Score=133.99  Aligned_cols=163  Identities=13%  Similarity=0.072  Sum_probs=96.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCc----eeecceeEEEEeCCccccccccccccccccceeEEEEeeecccC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPF----CTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVS   78 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~----~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~   78 (363)
                      +||+++|++|||||||++.+.+..........    +...|+.+.- +....+       .........+++|||||...
T Consensus        15 ~ki~vvG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~t~~~~-~~~~~~-------~~~~~~~~~~~i~Dt~G~~~   86 (198)
T 3t1o_A           15 FKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFD-FLPLDI-------GEVKGFKTRFHLYTVPGQVF   86 (198)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHTSCGGGBCCCEEEECSSCEEEEEE-ECCSSC-------CCSSSCEEEEEEEECCSCCS
T ss_pred             cEEEEECCCCCCHHHHHHHHHhhccccccccccccccccccceeee-eccccc-------ccccCCceEEEEEeCCChHH
Confidence            68999999999999999999885322110000    0011222211 111000       00001126799999999754


Q ss_pred             CCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchh
Q psy2401          79 GASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHS  158 (363)
Q Consensus        79 ~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~  158 (363)
                      ...       .....++.+|++++|+|+++..                                               .
T Consensus        87 ~~~-------~~~~~~~~~d~~i~v~D~~~~~-----------------------------------------------~  112 (198)
T 3t1o_A           87 YNA-------SRKLILRGVDGIVFVADSAPNR-----------------------------------------------L  112 (198)
T ss_dssp             CSH-------HHHHHTTTCCEEEEEEECCGGG-----------------------------------------------H
T ss_pred             HHH-------HHHHHHhcCCEEEEEEECCcch-----------------------------------------------h
Confidence            332       3345678999999999985210                                               0


Q ss_pred             HHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCC-cEEEee
Q psy2401         159 IELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNI-PIIIIC  237 (363)
Q Consensus       159 ~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~-~~i~~s  237 (363)
                      ......++.+..|+.+..                  ......|+++|+||.|..  .....+++++++...+. +++++|
T Consensus       113 ~~~~~s~~~l~~~l~~~~------------------~~~~~~piilv~NK~Dl~--~~~~~~~~~~~~~~~~~~~~~~~S  172 (198)
T 3t1o_A          113 RANAESMRNMRENLAEYG------------------LTLDDVPIVIQVNKRDLP--DALPVEMVRAVVDPEGKFPVLEAV  172 (198)
T ss_dssp             HHHHHHHHHHHHHHHHTT------------------CCTTSSCEEEEEECTTST--TCCCHHHHHHHHCTTCCSCEEECB
T ss_pred             hHhHHHHHHHHHHHHhhc------------------cccCCCCEEEEEEchhcc--cccCHHHHHHHHHhcCCceEEEEe
Confidence            001123333444443210                  122578999999999964  23455677888888888 999999


Q ss_pred             HHHHHHHhcC
Q psy2401         238 AKLEEEISDL  247 (363)
Q Consensus       238 a~~e~~i~el  247 (363)
                      |+..+++.++
T Consensus       173 a~~~~gv~~l  182 (198)
T 3t1o_A          173 ATEGKGVFET  182 (198)
T ss_dssp             GGGTBTHHHH
T ss_pred             cCCCcCHHHH
Confidence            9965554443

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.65  E-value=2.3e-15  Score=145.50  Aligned_cols=158  Identities=24%  Similarity=0.290  Sum_probs=106.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+++++|+||||||||+|+|++....++++|++|..+..+.+...+                 ..+.+|||||+......
T Consensus       168 ~~v~lvG~~gvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~-----------------~~~~l~Dt~G~~~~~~~  230 (357)
T 2e87_A          168 PTVVIAGHPNVGKSTLLKALTTAKPEIASYPFTTRGINVGQFEDGY-----------------FRYQIIDTPGLLDRPIS  230 (357)
T ss_dssp             CEEEEECSTTSSHHHHHHHHCSSCCEEECCTTCSSCEEEEEEEETT-----------------EEEEEEECTTTSSSCST
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCccCCCCCeeeceeEEEEEecC-----------------ceEEEEeCCCccccchh
Confidence            5899999999999999999999887788899999998888877765                 67999999998754322


Q ss_pred             cc-chh-hHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHH
Q psy2401          83 GE-GLG-NKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIE  160 (363)
Q Consensus        83 ~~-~l~-~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~  160 (363)
                      .. .+. ..+......+|++++|+|++.....           +++                                 .
T Consensus       231 ~~~~~~~~~~~~~~~~ad~illV~D~s~~~~~-----------~~~---------------------------------~  266 (357)
T 2e87_A          231 ERNEIEKQAILALRYLGNLIIYIFDPSEHCGF-----------PLE---------------------------------E  266 (357)
T ss_dssp             TSCHHHHHHHHGGGGTCSEEEEEECTTCTTSS-----------CHH---------------------------------H
T ss_pred             hhhHHHHHHHHHHHhcCCEEEEEEeCCccccC-----------CHH---------------------------------H
Confidence            11 111 1222333569999999998532100           000                                 0


Q ss_pred             HHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHH
Q psy2401         161 LLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL  240 (363)
Q Consensus       161 ~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~  240 (363)
                      ....+.                       .+...  ...+|+++|+||.|..  .....+.+.+++...+.+++++||+.
T Consensus       267 ~~~~~~-----------------------~i~~~--~~~~piilV~NK~Dl~--~~~~~~~~~~~~~~~~~~~~~iSA~~  319 (357)
T 2e87_A          267 QIHLFE-----------------------EVHGE--FKDLPFLVVINKIDVA--DEENIKRLEKFVKEKGLNPIKISALK  319 (357)
T ss_dssp             HHHHHH-----------------------HHHHH--TTTSCEEEEECCTTTC--CHHHHHHHHHHHHHTTCCCEECBTTT
T ss_pred             HHHHHH-----------------------HHHHh--cCCCCEEEEEECcccC--ChHHHHHHHHHHHhcCCCeEEEeCCC
Confidence            000111                       01111  1278999999999964  23334556666666778899999997


Q ss_pred             HHHHhcCC
Q psy2401         241 EEEISDLN  248 (363)
Q Consensus       241 e~~i~el~  248 (363)
                      .+++.++.
T Consensus       320 g~gi~~l~  327 (357)
T 2e87_A          320 GTGIDLVK  327 (357)
T ss_dssp             TBTHHHHH
T ss_pred             CcCHHHHH
Confidence            66665553

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=99.65  E-value=7.9e-16  Score=138.57  Aligned_cols=153  Identities=18%  Similarity=0.157  Sum_probs=95.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++.++.........|....+.....+.+++..               ..+++|||+|..++.. 
T Consensus        14 ~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~---------------v~l~iwDtaGqe~~~~-   77 (216)
T 4dkx_A           14 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRT---------------IRLQLWDTAGLERFRS-   77 (216)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEECSSCE---------------EEEEEECCSCTTTCGG-
T ss_pred             EEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceE---------------EEEEEEECCCchhhhh-
Confidence            589999999999999999999765543333433334444455666543               6899999999765433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                         +   ....++.+|++++|+|....                                                     
T Consensus        78 ---l---~~~~~~~a~~~ilv~di~~~-----------------------------------------------------   98 (216)
T 4dkx_A           78 ---L---IPSYIRDSAAAVVVYDITNV-----------------------------------------------------   98 (216)
T ss_dssp             ---G---HHHHHTTCSEEEEEEETTCH-----------------------------------------------------
T ss_pred             ---H---HHHHhccccEEEEEeecchh-----------------------------------------------------
Confidence               2   23456899999999998421                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      +.++.+..|+..                +... .-...|+++|+||.|+.....-..++.++++.+.+.+++.+||+...
T Consensus        99 ~Sf~~i~~~~~~----------------i~~~-~~~~~piilVgNK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~SAktg~  161 (216)
T 4dkx_A           99 NSFQQTTKWIDD----------------VRTE-RGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGY  161 (216)
T ss_dssp             HHHHTHHHHHHH----------------HHHH-HTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTB
T ss_pred             HHHHHHHHHHHH----------------HHHh-cCCCCeEEEEeeccchHhcCcccHHHHhhHHHHhCCeeEEEeCCCCc
Confidence            122222233221                1111 11456999999999964211223456677777788899999999654


Q ss_pred             HHhcC
Q psy2401         243 EISDL  247 (363)
Q Consensus       243 ~i~el  247 (363)
                      +|.++
T Consensus       162 nV~e~  166 (216)
T 4dkx_A          162 NVKQL  166 (216)
T ss_dssp             SHHHH
T ss_pred             CHHHH
Confidence            44443

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=99.65  E-value=5e-16  Score=136.86  Aligned_cols=83  Identities=20%  Similarity=0.188  Sum_probs=56.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||+|+|++........|....+.....+.+++..               ..+.+|||||....   
T Consensus        29 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~---   90 (199)
T 2p5s_A           29 YKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGER---------------TVLQLWDTAGQERF---   90 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEETTEE---------------EEEEEEECTTCTTC---
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEE---------------EEEEEEECCCCcch---
Confidence            689999999999999999999865443333333334444556666543               57999999996432   


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                          .......++.+|++++|+|+.
T Consensus        91 ----~~~~~~~~~~~d~iilv~d~~  111 (199)
T 2p5s_A           91 ----RSIAKSYFRKADGVLLLYDVT  111 (199)
T ss_dssp             ----HHHHHHHHHHCSEEEEEEETT
T ss_pred             ----hhhHHHHHhhCCEEEEEEECC
Confidence                224445668899999999985

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.65  E-value=8.5e-16  Score=134.92  Aligned_cols=81  Identities=20%  Similarity=0.177  Sum_probs=56.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||+|+|++...... ++.++.......+.+++..               ..+.+|||||...    
T Consensus        29 ~ki~v~G~~~vGKSsli~~l~~~~~~~~-~~~t~~~~~~~~~~~~~~~---------------~~~~l~Dt~G~~~----   88 (196)
T 2atv_A           29 VKLAIFGRAGVGKSALVVRFLTKRFIWE-YDPTLESTYRHQATIDDEV---------------VSMEILDTAGQED----   88 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCSC-CCTTCCEEEEEEEEETTEE---------------EEEEEEECCCCCC----
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcc-cCCCCCceEEEEEEECCEE---------------EEEEEEECCCCCc----
Confidence            6899999999999999999998654322 2222222223334555432               6799999999765    


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                       .   ......++.+|++++|+|++
T Consensus        89 -~---~~~~~~~~~~d~iilv~D~~  109 (196)
T 2atv_A           89 -T---IQREGHMRWGEGFVLVYDIT  109 (196)
T ss_dssp             -C---HHHHHHHHHCSEEEEEEETT
T ss_pred             -c---cchhhhhccCCEEEEEEECc
Confidence             1   23345568899999999985

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.65  E-value=8.8e-16  Score=130.65  Aligned_cols=82  Identities=17%  Similarity=0.176  Sum_probs=54.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++........|... ......+..++..               ..+.+|||||..+..  
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~---------------~~~~~~Dt~G~~~~~--   65 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVE-DTYRQVISCDKSI---------------CTLQITDTTGSHQFP--   65 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSC-EEEEEEEEETTEE---------------EEEEEEECCSCSSCH--
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcc-ccEEEEEEECCEE---------------EEEEEEECCCchhhH--
Confidence            6899999999999999999998654332222111 1111223333322               578999999965432  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           ......++.+|++++|+|++
T Consensus        66 -----~~~~~~~~~~~~~i~v~d~~   85 (172)
T 2erx_A           66 -----AMQRLSISKGHAFILVYSIT   85 (172)
T ss_dssp             -----HHHHHHHHHCSEEEEEEETT
T ss_pred             -----HHHHHhcccCCEEEEEEECc
Confidence                 23344567899999999985

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.65  E-value=1.1e-15  Score=133.82  Aligned_cols=80  Identities=21%  Similarity=0.262  Sum_probs=56.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccc-cCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISA-ENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~-~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+|+++|.+|||||||+++|++..... ...|  |.......+...+                 ..+.+|||||......
T Consensus        18 ~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~--t~~~~~~~~~~~~-----------------~~~~i~Dt~G~~~~~~   78 (199)
T 4bas_A           18 LQVVMCGLDNSGKTTIINQVKPAQSSSKHITA--TVGYNVETFEKGR-----------------VAFTVFDMGGAKKFRG   78 (199)
T ss_dssp             EEEEEECCTTSCHHHHHHHHSCCC----CCCC--CSSEEEEEEEETT-----------------EEEEEEEECCSGGGGG
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCccccccc--ccceeEEEEEeCC-----------------EEEEEEECCCCHhHHH
Confidence            689999999999999999999875544 2222  3334444454444                 7899999999754332


Q ss_pred             cccchhhHHHhhccccCEEEEEEeccc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                             .....++.+|++++|+|+++
T Consensus        79 -------~~~~~~~~~d~ii~v~D~~~   98 (199)
T 4bas_A           79 -------LWETYYDNIDAVIFVVDSSD   98 (199)
T ss_dssp             -------GGGGGCTTCSEEEEEEETTC
T ss_pred             -------HHHHHHhcCCEEEEEEECCc
Confidence                   23355689999999999953

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=99.65  E-value=1.1e-16  Score=159.62  Aligned_cols=89  Identities=25%  Similarity=0.372  Sum_probs=62.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      +++|+++|+||||||||+|+|++. .+.++++|++|.+.....+.+++                 .++.+|||||+.+..
T Consensus       224 ~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g-----------------~~v~liDT~G~~~~~  286 (462)
T 3geh_A          224 GLKVAIVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGG-----------------IPVQVLDTAGIRETS  286 (462)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEETT-----------------EEEEECC--------
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEECC-----------------EEEEEEECCccccch
Confidence            468999999999999999999987 45588999999999888888888                 678999999986644


Q ss_pred             Ccccchh-hHHHhhccccCEEEEEEecc
Q psy2401          81 SKGEGLG-NKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~~~~l~-~~~l~~~~~aD~il~Vvda~  107 (363)
                      ...+.++ ...+..++.+|++++|+|++
T Consensus       287 ~~ve~~gi~~~~~~~~~aD~vl~VvD~s  314 (462)
T 3geh_A          287 DQVEKIGVERSRQAANTADLVLLTIDAA  314 (462)
T ss_dssp             ------------CCCCSCSEEEEEEETT
T ss_pred             hHHHHHHHHHHhhhhhcCCEEEEEeccC
Confidence            3333221 34566788999999999985

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.65  E-value=1.4e-15  Score=132.46  Aligned_cols=79  Identities=27%  Similarity=0.343  Sum_probs=56.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+++|.+|||||||+|+|++.... ...|  |.......+.+++                 ..+.+|||||..+... 
T Consensus        17 ~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~--t~~~~~~~~~~~~-----------------~~~~i~Dt~G~~~~~~-   75 (187)
T 1zj6_A           17 HKVIIVGLDNAGKTTILYQFSMNEVV-HTSP--TIGSNVEEIVINN-----------------TRFLMWDIGGQESLRS-   75 (187)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTTSCE-EEEC--CSCSSCEEEEETT-----------------EEEEEEECCC----CG-
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCC-cCcC--CCccceEEEEECC-----------------EEEEEEECCCCHhHHH-
Confidence            68999999999999999999975433 2222  4445555666665                 7899999999865433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                            .....++.+|++++|+|+++
T Consensus        76 ------~~~~~~~~~d~ii~v~d~~~   95 (187)
T 1zj6_A           76 ------SWNTYYTNTEFVIVVVDSTD   95 (187)
T ss_dssp             ------GGHHHHTTCCEEEEEEETTC
T ss_pred             ------HHHHHhcCCCEEEEEEeCCC
Confidence                  22345588999999999953

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=99.65  E-value=1.6e-15  Score=128.51  Aligned_cols=78  Identities=22%  Similarity=0.280  Sum_probs=57.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|++|||||||+|++++.... ...|  |.......+.+.+                 ..+.+|||||....   
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~-~~~~--t~~~~~~~~~~~~-----------------~~~~i~Dt~G~~~~---   57 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIP--TIGFNVETVEYKN-----------------ISFTVWDVGGQDKI---   57 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSS-CCCC--CSSCCEEEEECSS-----------------CEEEEEECCCCGGG---
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcC-cccC--cCceeEEEEEECC-----------------EEEEEEEcCCChhh---
Confidence            58999999999999999999875432 2333  4445555566554                 67999999997432   


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                          .......++.+|++++|+|++
T Consensus        58 ----~~~~~~~~~~~d~~i~v~d~~   78 (164)
T 1r8s_A           58 ----RPLWRHYFQNTQGLIFVVDSN   78 (164)
T ss_dssp             ----HHHHHHHTTTCSEEEEEEETT
T ss_pred             ----HHHHHHHhccCCEEEEEEECC
Confidence                123345678999999999985

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=99.65  E-value=1.3e-15  Score=132.09  Aligned_cols=78  Identities=26%  Similarity=0.319  Sum_probs=57.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc-ccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~-~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      ++|+++|.+|||||||+|+|++.... ..+    |.......+.+++                 ..+.+|||||......
T Consensus        22 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~----t~~~~~~~~~~~~-----------------~~~~i~Dt~G~~~~~~   80 (181)
T 2h17_A           22 HKVIIVGLDNAGKTTILYQFSMNEVVHTSP----TIGSNVEEIVINN-----------------TRFLMWDIGGQESLRS   80 (181)
T ss_dssp             EEEEEEEETTSSHHHHHHHHHTTSCEEEEC----CSSSSCEEEEETT-----------------EEEEEEEESSSGGGTC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCccCC----cCceeeEEEEECC-----------------EEEEEEECCCCHhHHH
Confidence            68999999999999999999986541 122    3333445566655                 7899999999855433


Q ss_pred             cccchhhHHHhhccccCEEEEEEeccc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                             .....++.+|++++|+|+.+
T Consensus        81 -------~~~~~~~~~d~ii~v~D~~~  100 (181)
T 2h17_A           81 -------SWNTYYTNTEFVIVVVDSTD  100 (181)
T ss_dssp             -------GGGGGGTTCCEEEEEEETTC
T ss_pred             -------HHHHHhccCCEEEEEEECCC
Confidence                   23455689999999999853

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.64  E-value=1.6e-16  Score=157.66  Aligned_cols=91  Identities=23%  Similarity=0.315  Sum_probs=56.7

Q ss_pred             CC-cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccC
Q psy2401           1 MN-LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVS   78 (363)
Q Consensus         1 m~-~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~   78 (363)
                      |+ .+|+|+|+||||||||+|+|++.. +.++++|++|.+...+.+.+.+                 ..+.+|||||+..
T Consensus         1 m~~~~V~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~T~d~~~~~~~~~~-----------------~~~~l~DT~G~~~   63 (436)
T 2hjg_A            1 MGKPVVAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEWLN-----------------YDFNLIDTGGIDI   63 (436)
T ss_dssp             --CCEEEEECSTTSSHHHHHHHHEEEECC-----------CEEEECTTCS-----------------SCCEEEC------
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCceeecCCCCCccceEEEEEEECC-----------------ceEEEEECCCCCC
Confidence            53 689999999999999999999984 4588999999999988888877                 5789999999864


Q ss_pred             CCCc-ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          79 GASK-GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        79 ~~~~-~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      .... .+.+..+....++.||++++|+|++.
T Consensus        64 ~~~~~~~~~~~~~~~~~~~ad~il~vvD~~~   94 (436)
T 2hjg_A           64 GDEPFLAQIRQQAEIAMDEADVIIFMVNGRE   94 (436)
T ss_dssp             ---CHHHHHHHHHHHHHHHCSEEEEEEETTT
T ss_pred             cchhHHHHHHHHHHHHHHhCCEEEEEEeCCC
Confidence            3221 12334455677899999999999853

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.64  E-value=9.6e-17  Score=141.46  Aligned_cols=163  Identities=17%  Similarity=0.146  Sum_probs=75.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc-cccCCCcee-ecceeEEEEeCCc--cccccccccccccccceeEEEEeeecccC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI-SAENYPFCT-IEPNIGIIEVPDK--RLKHLNNIVKTKKIFPAIIKLVDIAGLVS   78 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~-~~~~~p~~t-~~~~~g~v~~~~~--~~~~l~~~~~~~~~~~~~i~lvDtpGl~~   78 (363)
                      ++|+++|++|||||||+|+|++... ....++.++ .+.....+.+++.  .               ..+.+|||||...
T Consensus        21 ~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~---------------~~~~l~Dt~G~~~   85 (208)
T 2yc2_C           21 CKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVS---------------VELFLLDTAGSDL   85 (208)
T ss_dssp             EEEEEC----------------------------------CEEEECTTSSEE---------------EEEEEEETTTTHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccE---------------EEEEEEECCCcHH
Confidence            5899999999999999999998622 223333333 3566667777653  2               6799999999743


Q ss_pred             CCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchh
Q psy2401          79 GASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHS  158 (363)
Q Consensus        79 ~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~  158 (363)
                      .       .......++.+|++++|+|+.+..                                                
T Consensus        86 ~-------~~~~~~~~~~~d~~i~v~d~~~~~------------------------------------------------  110 (208)
T 2yc2_C           86 Y-------KEQISQYWNGVYYAILVFDVSSME------------------------------------------------  110 (208)
T ss_dssp             H-------HHHHSTTCCCCCEEEEEEETTCHH------------------------------------------------
T ss_pred             H-------HHHHHHHHhhCcEEEEEEECCCHH------------------------------------------------
Confidence            2       123445678999999999985310                                                


Q ss_pred             HHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcc--cccccEEEeccccccCC-CchHHHHHHHHHHhcCCCcEEE
Q psy2401         159 IELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNL--LTIKPIIFVANVKENGF-KNNLLLDQLKIYAHNQNIPIII  235 (363)
Q Consensus       159 ~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~--l~~kp~i~v~Nk~d~~~-~~~~~~~~i~~~~~~~~~~~i~  235 (363)
                           .++.+..|+.                .+.....  ...+|+++|+||.|... ......+.+++++...+.++++
T Consensus       111 -----s~~~~~~~~~----------------~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~  169 (208)
T 2yc2_C          111 -----SFESCKAWFE----------------LLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFD  169 (208)
T ss_dssp             -----HHHHHHHHHH----------------HHHHHCSCTTSCCEEEEEEECC-------CCCHHHHHHHHHHTTCEEEE
T ss_pred             -----HHHHHHHHHH----------------HHHHhhcccccCCcEEEEEECcccchhhccCCHHHHHHHHHHcCCEEEE
Confidence                 0111111111                0111110  24789999999999641 1112245667777778889999


Q ss_pred             eeHHH-HHHHhcCCHHHHHHHH
Q psy2401         236 ICAKL-EEEISDLNNIDKKFFL  256 (363)
Q Consensus       236 ~sa~~-e~~i~el~~~~~~~~l  256 (363)
                      +||+. ..++.++.+...+.++
T Consensus       170 ~Sa~~~~~gi~~l~~~i~~~~~  191 (208)
T 2yc2_C          170 VSANPPGKDADAPFLSIATTFY  191 (208)
T ss_dssp             CCC-------CHHHHHHHHHHH
T ss_pred             eccCCCCcCHHHHHHHHHHHHH
Confidence            99998 8887776554444333

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=99.64  E-value=1.9e-15  Score=132.05  Aligned_cols=85  Identities=22%  Similarity=0.268  Sum_probs=52.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC--ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK--ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~--~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      .+|+++|++|||||||+|+|++..  ...++.|++|.......  ++                  ..+.+|||||+....
T Consensus        24 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~--~~------------------~~~~l~Dt~G~~~~~   83 (195)
T 1svi_A           24 PEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYI--IN------------------DELHFVDVPGYGFAK   83 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEE--ET------------------TTEEEEECCCBCCCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEE--EC------------------CcEEEEECCCCCccc
Confidence            689999999999999999999874  34567777776654332  22                  358999999976543


Q ss_pred             Cc------ccchhhHHHhhccccCEEEEEEecc
Q psy2401          81 SK------GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~------~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ..      ...+...++.....+|++++|+|+.
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~  116 (195)
T 1svi_A           84 VSKSEREAWGRMIETYITTREELKAVVQIVDLR  116 (195)
T ss_dssp             SCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETT
T ss_pred             cCHHHHHHHHHHHHHHHhhhhcCCEEEEEEECC
Confidence            21      1112234444445559999999985

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=99.64  E-value=2.3e-15  Score=131.79  Aligned_cols=82  Identities=22%  Similarity=0.230  Sum_probs=57.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||+|++++.... ..+..++.......+.+++..               ..+.+|||||...... 
T Consensus        24 ~ki~~vG~~~~GKSsl~~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~-   86 (194)
T 3reg_A           24 LKIVVVGDGAVGKTCLLLAFSKGEIP-TAYVPTVFENFSHVMKYKNEE---------------FILHLWDTAGQEEYDR-   86 (194)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCC-SSCCCCSEEEEEEEEEETTEE---------------EEEEEEEECCSGGGTT-
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCCCC-CccCCeeeeeeEEEEEECCEE---------------EEEEEEECCCcHHHHH-
Confidence            68999999999999999999986543 233333333333345555533               5689999999654332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        87 ------~~~~~~~~~d~~i~v~d~~  105 (194)
T 3reg_A           87 ------LRPLSYADSDVVLLCFAVN  105 (194)
T ss_dssp             ------TGGGGCTTCSEEEEEEETT
T ss_pred             ------HhHhhccCCcEEEEEEECC
Confidence                  2335668899999999985

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.64  E-value=1.4e-15  Score=141.44  Aligned_cols=63  Identities=22%  Similarity=0.368  Sum_probs=40.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCC------ceeecceeEEEEe--CCccccccccccccccccceeEEEEeee
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYP------FCTIEPNIGIIEV--PDKRLKHLNNIVKTKKIFPAIIKLVDIA   74 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p------~~t~~~~~g~v~~--~~~~~~~l~~~~~~~~~~~~~i~lvDtp   74 (363)
                      ++|+++|.+|+|||||+|+|++.......+|      ..|..+......+  ++.+               ..+.+||||
T Consensus         9 ~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~l~liDTp   73 (274)
T 3t5d_A            9 FTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQ---------------LLLTIVDTP   73 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CC---------------EEEEEEECC
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeE---------------EEEEEEECC
Confidence            6899999999999999999998866655553      3444444444433  3322               479999999


Q ss_pred             cccCCC
Q psy2401          75 GLVSGA   80 (363)
Q Consensus        75 Gl~~~~   80 (363)
                      |+.+..
T Consensus        74 G~~d~~   79 (274)
T 3t5d_A           74 GFGDAV   79 (274)
T ss_dssp             CCSCCS
T ss_pred             Cccccc
Confidence            996543

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=99.64  E-value=1.7e-15  Score=132.18  Aligned_cols=76  Identities=21%  Similarity=0.165  Sum_probs=55.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||+|++++........|  |.......+.+++..               ..+.+|||||....   
T Consensus        21 ~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~--t~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~---   80 (184)
T 3ihw_A           21 LKVGIVGNLSSGKSALVHRYLTGTYVQEESP--EGGRFKKEIVVDGQS---------------YLLLIRDEGGPPEL---   80 (184)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHSSCCCCCCT--TCEEEEEEEEETTEE---------------EEEEEEECSSSCCH---
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCcCC--CcceEEEEEEECCEE---------------EEEEEEECCCChhh---
Confidence            6999999999999999999998654433223  222223456666643               67889999996421   


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .   .++.+|++++|+|++
T Consensus        81 ------~---~~~~~~~~i~v~d~~   96 (184)
T 3ihw_A           81 ------Q---FAAWVDAVVFVFSLE   96 (184)
T ss_dssp             ------H---HHHHCSEEEEEEETT
T ss_pred             ------h---eecCCCEEEEEEECc
Confidence                  1   557899999999985

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=99.64  E-value=2.2e-15  Score=133.52  Aligned_cols=82  Identities=21%  Similarity=0.221  Sum_probs=59.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++++++... ...++.++.+.....+.+++..               ..+.+|||||...... 
T Consensus        31 ~ki~vvG~~~~GKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~-   93 (204)
T 4gzl_A           31 IKCVVVGDGAVGKTCLLISYTTNAF-PGEYIPTVFDNYSANVMVDGKP---------------VNLGLWDTAGLEDYDR-   93 (204)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCC-CC-CCCCSEEEEEEEEECC-CE---------------EEEEEEEECCSGGGTT-
T ss_pred             EEEEEECcCCCCHHHHHHHHHhCCC-CCCcCCeecceeEEEEEECCEE---------------EEEEEEECCCchhhHH-
Confidence            6899999999999999999997543 3344445544445556665533               5678999999854432 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        94 ------~~~~~~~~~d~~i~v~d~~  112 (204)
T 4gzl_A           94 ------LRPLSYPQTDVFLICFSLV  112 (204)
T ss_dssp             ------TGGGGCTTCSEEEEEEETT
T ss_pred             ------HHHHHhccCCEEEEEEECC
Confidence                  2334668999999999985

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=99.64  E-value=2.1e-15  Score=131.62  Aligned_cols=79  Identities=24%  Similarity=0.322  Sum_probs=56.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||+|+|++........|  |.......+...+                 ..+.+|||||...... 
T Consensus        23 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~--t~~~~~~~~~~~~-----------------~~~~l~Dt~G~~~~~~-   82 (188)
T 1zd9_A           23 MELTLVGLQYSGKTTFVNVIASGQFNEDMIP--TVGFNMRKITKGN-----------------VTIKLWDIGGQPRFRS-   82 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCCSCCC--CCSEEEEEEEETT-----------------EEEEEEEECCSHHHHT-
T ss_pred             cEEEEECCCCCCHHHHHHHHHcCCCCCccCC--CCceeEEEEEeCC-----------------EEEEEEECCCCHhHHH-
Confidence            6899999999999999999998654433333  3333444455444                 7899999999653221 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        83 ------~~~~~~~~~d~ii~v~D~~  101 (188)
T 1zd9_A           83 ------MWERYCRGVSAIVYMVDAA  101 (188)
T ss_dssp             ------THHHHHTTCSEEEEEEETT
T ss_pred             ------HHHHHHccCCEEEEEEECC
Confidence                  2334568899999999985

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.64  E-value=2.8e-15  Score=141.96  Aligned_cols=89  Identities=16%  Similarity=0.078  Sum_probs=67.6

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      .+||+++|.+|||||||+|++++. ...+++++++|++...+.+.+.+.                ..+.+|||||.....
T Consensus         3 ~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~~~~~~~~----------------~~l~i~Dt~G~~~~~   66 (307)
T 3r7w_A            3 GSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSHLRFLGN----------------MTLNLWDCGGQDVFM   66 (307)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEEEEEETTT----------------EEEEEEEECCSHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEEEEEEeCCc----------------eEEEEEECCCcHHHh
Confidence            368999999999999999999886 455678899999999988887542                789999999975431


Q ss_pred             CcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ...  +.......++.+|++++|+|+.+
T Consensus        67 ~~~--~~~~~~~~~~~ad~vi~V~D~t~   92 (307)
T 3r7w_A           67 ENY--FTKQKDHIFQMVQVLIHVFDVES   92 (307)
T ss_dssp             HHH--HTTTHHHHHTTCSEEEEEEETTC
T ss_pred             hhh--hhhHHHHHhccCCEEEEEEECCC
Confidence            000  00122344588999999999953

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.64  E-value=2.3e-15  Score=131.06  Aligned_cols=85  Identities=22%  Similarity=0.244  Sum_probs=60.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+|+++|.+|||||||+|+|++.. ...++.+++|........   +                 ..+.+|||||+.....
T Consensus        24 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~t~~~~~~~~---~-----------------~~~~i~Dt~G~~~~~~   83 (195)
T 3pqc_A           24 GEVAFVGRSNVGKSSLLNALFNRKIAFVSKTPGKTRSINFYLV---N-----------------SKYYFVDLPGYGYAKV   83 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTSCCSCCCSSCCCCCCEEEEEE---T-----------------TTEEEEECCCBSSSCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCccccccCCCCCccCeEEEEE---C-----------------CcEEEEECCCCccccC
Confidence            689999999999999999999875 446677777765543222   2                 4578999999754322


Q ss_pred             c------ccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 K------GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~------~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .      ...+...++.....+|++++|+|+.
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~  115 (195)
T 3pqc_A           84 SKKERMLWKRLVEDYFKNRWSLQMVFLLVDGR  115 (195)
T ss_dssp             CHHHHHHHHHHHHHHHHHCTTEEEEEEEEETT
T ss_pred             ChhhHHHHHHHHHHHHhcCcCceEEEEEecCC
Confidence            1      1122334555556679999999984

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=99.63  E-value=2e-15  Score=131.87  Aligned_cols=81  Identities=14%  Similarity=0.112  Sum_probs=54.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++++++.... ..++.++.......+.+++..               ..+.+|||||...... 
T Consensus        22 ~ki~vvG~~~vGKTsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~-   84 (187)
T 3c5c_A           22 VNLAILGRRGAGKSALTVKFLTKRFI-SEYDPNLEDTYSSEETVDHQP---------------VHLRVMDTADLDTPRN-   84 (187)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSSCC-SCCCTTCCEEEEEEEEETTEE---------------EEEEEEECCC---CCC-
T ss_pred             EEEEEECCCCCcHHHHHHHHHhCCCC-cccCCCccceeeEEEEECCEE---------------EEEEEEECCCCCcchh-
Confidence            68999999999999999999986532 333333322222334444432               6789999999765432 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                         +    ...++.+|++++|+|+.
T Consensus        85 ---~----~~~~~~~~~~ilv~d~~  102 (187)
T 3c5c_A           85 ---C----ERYLNWAHAFLVVYSVD  102 (187)
T ss_dssp             ---T----HHHHTTCSEEEEEEETT
T ss_pred             ---H----HHHHhhCCEEEEEEECC
Confidence               2    23558899999999984

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.63  E-value=3.5e-17  Score=144.36  Aligned_cols=83  Identities=23%  Similarity=0.179  Sum_probs=64.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||+|+|++........|+++.+.....+.+++..               ..+.+|||||.......
T Consensus        34 ~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~~   98 (199)
T 3l0i_B           34 FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKT---------------IKLQIWDTAGQERFRTI   98 (199)
T ss_dssp             EEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEE---------------EEEEEECCTTCTTCCCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEE---------------EEEEEEECCCcHhHHHH
Confidence            689999999999999999999876666666777777777788887743               57999999996554432


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                             ....++.+|++++|+|+.
T Consensus        99 -------~~~~~~~~d~~i~v~d~~  116 (199)
T 3l0i_B           99 -------TSSYYRGAHGIIVVYDVT  116 (199)
T ss_dssp             -------SCC--CCCSEEEECC-CC
T ss_pred             -------HHHHhhcCCEEEEEEECC
Confidence                   224568899999999985

>1dar_A EF-G, elongation factor G; ribosomal translocase, translational GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A 2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A* 1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A* 3izp_E 1zn0_B 1jqs_C 2bcw_C ...

Probab=99.63  E-value=1.8e-15  Score=158.01  Aligned_cols=226  Identities=17%  Similarity=0.112  Sum_probs=151.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC---Cc---c------ccC------CCceeecceeEEEEeCCcccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL---KI---S------AEN------YPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF   64 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~---~~---~------~~~------~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~   64 (363)
                      .+|+|+|++|+|||||+++|+..   ..   .      +.+      .++.|+......+.+.+                
T Consensus        13 ~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~~~~~~~~----------------   76 (691)
T 1dar_A           13 RNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKD----------------   76 (691)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CCEEEEEETT----------------
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccceEEEEECC----------------
Confidence            58999999999999999999832   10   1      111      34556666666666665                


Q ss_pred             ceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-h
Q psy2401          65 PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-Y  143 (363)
Q Consensus        65 ~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~  143 (363)
                       ..+++|||||..++.       ......++.+|++++|+|+.++.                ..+++..|..+..... .
T Consensus        77 -~~i~liDTPG~~df~-------~~~~~~l~~aD~~ilVvDa~~g~----------------~~~t~~~~~~~~~~~~p~  132 (691)
T 1dar_A           77 -HRINIIDTPGHVDFT-------IEVERSMRVLDGAIVVFDSSQGV----------------EPQSETVWRQAEKYKVPR  132 (691)
T ss_dssp             -EEEEEECCCSSTTCH-------HHHHHHHHHCSEEEEEEETTTCS----------------CHHHHHHHHHHHHTTCCE
T ss_pred             -eEEEEEECcCccchH-------HHHHHHHHHCCEEEEEEECCCCc----------------chhhHHHHHHHHHcCCCE
Confidence             789999999986533       36667788999999999996532                1122333444433333 3


Q ss_pred             hhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEe-c--cccccCCCchHHH
Q psy2401         144 IDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFV-A--NVKENGFKNNLLL  219 (363)
Q Consensus       144 ~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v-~--Nk~d~~~~~~~~~  219 (363)
                      +..+||+++.+.    +...+++.+++.|.....+..+|++.++  .+.++ +++..++..|- -  +.......+....
T Consensus       133 ivviNKiD~~~~----~~~~~~~~l~~~l~~~~~~~~~Pi~~~~--~~~g~~d~~~~~~~~~~~~~g~~~~~~~~~~~~~  206 (691)
T 1dar_A          133 IAFANKMDKTGA----DLWLVIRTMQERLGARPVVMQLPIGRED--TFSGIIDVLRMKAYTYGNDLGTDIREIPIPEEYL  206 (691)
T ss_dssp             EEEEECTTSTTC----CHHHHHHHHHHTTCCCEEECEEEESCGG--GCCEEEETTTTEEEEECSTTSCCEEEECCCGGGH
T ss_pred             EEEEECCCcccC----CHHHHHHHHHHHhCCCccceeccccCCC--cccchhhhhcceeeEeccCCCceeEEecCCHHHH
Confidence            567888865432    3556778888888765445556666544  45556 67777777774 1  1111101245556


Q ss_pred             HHHHHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeC
Q psy2401         220 DQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTV  285 (363)
Q Consensus       220 ~~i~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~  285 (363)
                      +..+++           ..++.+.+++.+++.+++||++..++.+.+...++..+....++|+|..
T Consensus       207 ~~~~~~-----------r~~l~e~~~e~dd~l~e~~l~~~~~~~~~~~~~~~~~~~~~~~~Pv~~g  261 (691)
T 1dar_A          207 DQAREY-----------HEKLVEVAADFDENIMLKYLEGEEPTEEELVAAIRKGTIDLKITPVFLG  261 (691)
T ss_dssp             HHHHHH-----------HHHHHHHHTTTCHHHHHHHHHTCCCCHHHHHHHHHHHHHTTSCEEEEEC
T ss_pred             HHHHHH-----------HHHHHHHHhhCCHHHHHHHHCCCCCCHHHHHHHHHHHHHhCcEeEEEEe
Confidence            666555           5567778999999999999999999999999999999999999999975

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=99.63  E-value=2.4e-15  Score=129.87  Aligned_cols=82  Identities=20%  Similarity=0.194  Sum_probs=58.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||++++++.... ..+..++.......+.+++..               ..+.+|||||...... 
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~-   68 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTNAFP-GEYIPTVFDNYSANVMVDGKP---------------VNLGLWDTAGQEDYDR-   68 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSSCC-SSCCCCSCCEEEEEEEETTEE---------------EEEEEECCCCSGGGTT-
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCCCC-CCcCCcccceeEEEEEECCEE---------------EEEEEEECCCCHhHHH-
Confidence            68999999999999999999975432 333333333333445555533               6788999999865432 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        69 ------~~~~~~~~~d~~i~v~d~~   87 (186)
T 1mh1_A           69 ------LRPLSYPQTDVSLICFSLV   87 (186)
T ss_dssp             ------TGGGGCTTCSEEEEEEETT
T ss_pred             ------HHHHhccCCcEEEEEEECC
Confidence                  2224568899999999985

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.63  E-value=1.5e-15  Score=158.69  Aligned_cols=226  Identities=15%  Similarity=0.097  Sum_probs=149.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC---Cc---------cccC------CCceeecceeEEEEeCCcccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL---KI---------SAEN------YPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF   64 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~---~~---------~~~~------~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~   64 (363)
                      .+|+|+|++|+|||||+|+|++.   ..         .+.+      .+++|+......+.+.+                
T Consensus        11 ~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~~~~----------------   74 (693)
T 2xex_A           11 RNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAAWEG----------------   74 (693)
T ss_dssp             EEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------CCSEEEEEETT----------------
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEEECC----------------
Confidence            58999999999999999999842   11         1122      35667777777777776                


Q ss_pred             ceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-h
Q psy2401          65 PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-Y  143 (363)
Q Consensus        65 ~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~  143 (363)
                       ..+++|||||+.++..       .....++.+|++++|+|+.++..                ..++..|..+..... .
T Consensus        75 -~~i~liDTPG~~df~~-------~~~~~l~~aD~~llVvDa~~g~~----------------~~~~~~~~~~~~~~~p~  130 (693)
T 2xex_A           75 -HRVNIIDTPGHVDFTV-------EVERSLRVLDGAVTVLDAQSGVE----------------PQTETVWRQATTYGVPR  130 (693)
T ss_dssp             -EEEEEECCCCCSSCCH-------HHHHHHHHCSEEEEEEETTTBSC----------------HHHHHHHHHHHHTTCCE
T ss_pred             -eeEEEEECcCCcchHH-------HHHHHHHHCCEEEEEECCCCCCc----------------HHHHHHHHHHHHcCCCE
Confidence             7899999999876443       56677789999999999964321                122333433333333 3


Q ss_pred             hhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEe-c--cccccCCCchHHH
Q psy2401         144 IDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFV-A--NVKENGFKNNLLL  219 (363)
Q Consensus       144 ~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v-~--Nk~d~~~~~~~~~  219 (363)
                      +..+||++..+.    +...+++.+++.|.....+..+|++.++  .+.++ +.+..++..|- -  ...+....+....
T Consensus       131 ilviNK~Dl~~~----~~~~~~~~l~~~l~~~~~~~~ipisa~~--~~~~l~d~l~~~~~~~~~~~~~~~~~~~~~~~~~  204 (693)
T 2xex_A          131 IVFVNKMDKLGA----NFEYSVSTLHDRLQANAAPIQLPIGAED--EFEAIIDLVEMKCFKYTNDLGTEIEEIEIPEDHL  204 (693)
T ss_dssp             EEEEECTTSTTC----CHHHHHHHHHHHHCCCEEESEEEECCGG--GCCEEEETTTTEEEECCSSSSCSCEEECCCGGGH
T ss_pred             EEEEECCCcccc----chHHHHHHHHHHhCCCceeEEeecccCC--CcceeeeeecceeEEeccCCCceeEEecCCHHHH
Confidence            567888865432    2456778888888765444455666543  34545 56666666653 1  1111101234455


Q ss_pred             HHHHHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeC
Q psy2401         220 DQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTV  285 (363)
Q Consensus       220 ~~i~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~  285 (363)
                      +..+.+           +.++-+.+++.+++.+++||++..++.+.+...+++.+....+.|+|..
T Consensus       205 ~~~e~~-----------r~~l~e~l~e~dd~l~e~~l~~~~~~~~~~~~~l~~~~~~~~~~Pv~~g  259 (693)
T 2xex_A          205 DRAEEA-----------RASLIEAVAETSDELMEKYLGDEEISVSELKEAIRQATTNVEFYPVLCG  259 (693)
T ss_dssp             HHHHHH-----------HHHHHHHHHTTCHHHHHHHHTTCCCCHHHHHHHHHHHHHTTSCEEEEEC
T ss_pred             HHHHHH-----------HHHHHHHHhhCCHHHHHHHhcCCCCCHHHHHHHHHHHHHhCCeeeEEEe
Confidence            444444           5567778899999999999999999999999999999999999999965

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.63  E-value=2.7e-15  Score=132.01  Aligned_cols=82  Identities=21%  Similarity=0.249  Sum_probs=56.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||++++++.. ....++.++.......+.+++..               ..+.+|||||.......
T Consensus        21 ~ki~~~G~~~~GKssl~~~l~~~~-~~~~~~~t~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~~   84 (201)
T 2q3h_A           21 VKCVLVGDGAVGKTSLVVSYTTNG-YPTEYIPTAFDNFSAVVSVDGRP---------------VRLQLCDTAGQDEFDKL   84 (201)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC---------CCSSEEEEEEEEETTEE---------------EEEEEEECCCSTTCSSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCC-CCCCCCCcccceeEEEEEECCEE---------------EEEEEEECCCCHHHHHH
Confidence            689999999999999999999865 33455555544444556666532               57889999998654432


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .       ...++++|++++|+|++
T Consensus        85 ~-------~~~~~~~~~~i~v~d~~  102 (201)
T 2q3h_A           85 R-------PLCYTNTDIFLLCFSVV  102 (201)
T ss_dssp             G-------GGGGTTCSEEEEEEETT
T ss_pred             h-------HhhcCCCcEEEEEEECC
Confidence            1       23568899999999985

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=99.63  E-value=2.1e-15  Score=129.82  Aligned_cols=76  Identities=18%  Similarity=0.154  Sum_probs=55.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++++++..... ..| ++.......+.+++..               ..+.+|||||...    
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~-t~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~----   66 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTGSYQV-LEK-TESEQYKKEMLVDGQT---------------HLVLIREEAGAPD----   66 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHSCCCC-CSS-CSSSEEEEEEEETTEE---------------EEEEEEECSSSCC----
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCC-cCC-CcceeEEEEEEECCEE---------------EEEEEEECCCCch----
Confidence            689999999999999999999865432 223 2222234445555533               6789999999643    


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                              ...++++|++++|+|+.
T Consensus        67 --------~~~~~~~d~~ilv~D~~   83 (178)
T 2iwr_A           67 --------AKFSGWADAVIFVFSLE   83 (178)
T ss_dssp             --------HHHHHHCSEEEEEEETT
T ss_pred             --------hHHHHhCCEEEEEEECc
Confidence                    23457899999999985

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=99.63  E-value=4.9e-15  Score=126.18  Aligned_cols=79  Identities=23%  Similarity=0.336  Sum_probs=58.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|+|++.... ...|  |.......+.+++                 ..+.+|||||...... 
T Consensus         8 ~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~--t~~~~~~~~~~~~-----------------~~~~~~Dt~G~~~~~~-   66 (171)
T 1upt_A            8 MRILILGLDGAGKTTILYRLQVGEVV-TTIP--TIGFNVETVTYKN-----------------LKFQVWDLGGLTSIRP-   66 (171)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSSCC-CCCC--CSSEEEEEEEETT-----------------EEEEEEEECCCGGGGG-
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCC-CcCC--cCccceEEEEECC-----------------EEEEEEECCCChhhhH-
Confidence            68999999999999999999875432 2222  3344455566654                 7899999999754322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                            .....++.+|++++|+|+.+
T Consensus        67 ------~~~~~~~~~d~ii~v~d~~~   86 (171)
T 1upt_A           67 ------YWRCYYSNTDAVIYVVDSCD   86 (171)
T ss_dssp             ------GGGGGCTTCSEEEEEEETTC
T ss_pred             ------HHHHHhccCCEEEEEEECCC
Confidence                  33456689999999999853

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.63  E-value=1.6e-15  Score=130.96  Aligned_cols=79  Identities=23%  Similarity=0.317  Sum_probs=54.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|++++... ....|  |.......+.+++                 ..+.+|||||...... 
T Consensus        19 ~~i~v~G~~~~GKssli~~l~~~~~-~~~~~--t~~~~~~~~~~~~-----------------~~~~i~Dt~G~~~~~~-   77 (183)
T 1moz_A           19 LRILILGLDGAGKTTILYRLQIGEV-VTTKP--TIGFNVETLSYKN-----------------LKLNVWDLGGQTSIRP-   77 (183)
T ss_dssp             EEEEEEEETTSSHHHHHHHTCCSEE-EEECS--STTCCEEEEEETT-----------------EEEEEEEEC----CCT-
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCc-CccCC--cCccceEEEEECC-----------------EEEEEEECCCCHhHHH-
Confidence            6899999999999999999997543 11112  3334445566655                 6899999999865443 


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                            .....++.+|++++|+|+++
T Consensus        78 ------~~~~~~~~~d~ii~v~d~~~   97 (183)
T 1moz_A           78 ------YWRCYYADTAAVIFVVDSTD   97 (183)
T ss_dssp             ------TGGGTTTTEEEEEEEEETTC
T ss_pred             ------HHHHHhccCCEEEEEEECCC
Confidence                  22355688999999999853

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.62  E-value=2.8e-15  Score=131.18  Aligned_cols=81  Identities=21%  Similarity=0.217  Sum_probs=54.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecce-eEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPN-IGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~-~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      ++|+++|.+|||||||+|+|++........|  |.... ...+.+++..               ..+.+|||||..... 
T Consensus         9 ~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~--t~~~~~~~~~~~~~~~---------------~~~~l~Dt~G~~~~~-   70 (199)
T 2gf0_A            9 YRVVVFGAGGVGKSSLVLRFVKGTFRDTYIP--TIEDTYRQVISCDKSV---------------CTLQITDTTGSHQFP-   70 (199)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSCCCCTTSC--CCCEEEEEEEEETTEE---------------EEEEEEECCGGGSCH-
T ss_pred             eEEEEECCCCCcHHHHHHHHHcCCCCCcccC--ccccceeEEEEECCEE---------------EEEEEEeCCChHHhH-
Confidence            6899999999999999999998644322222  21111 1223333322               579999999965432 


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            ......++.+|++++|+|++
T Consensus        71 ------~~~~~~~~~~d~~i~v~d~~   90 (199)
T 2gf0_A           71 ------AMQRLSISKGHAFILVFSVT   90 (199)
T ss_dssp             ------HHHHHHHHHCSEEEEEEETT
T ss_pred             ------HHHHHhhccCCEEEEEEECc
Confidence                  13334567899999999985

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=99.62  E-value=3.5e-15  Score=131.01  Aligned_cols=78  Identities=22%  Similarity=0.290  Sum_probs=53.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|++++.... ...|  |.......+.+.+                 ..+.+|||||...... 
T Consensus        30 ~ki~v~G~~~vGKSsLi~~l~~~~~~-~~~~--t~~~~~~~~~~~~-----------------~~~~i~Dt~G~~~~~~-   88 (192)
T 2b6h_A           30 MRILMVGLDAAGKTTILYKLKLGEIV-TTIP--TIGFNVETVEYKN-----------------ICFTVWDVGGQDKIRP-   88 (192)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCSSCCE-EEEE--ETTEEEEEEEETT-----------------EEEEEEECC-----CT-
T ss_pred             cEEEEECCCCCCHHHHHHHHHhCCcc-ccCC--cCceeEEEEEECC-----------------EEEEEEECCCCHhHHH-
Confidence            68999999999999999999875432 2222  4444445555554                 7899999999865433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        89 ------~~~~~~~~~d~iilv~D~~  107 (192)
T 2b6h_A           89 ------LWRHYFQNTQGLIFVVDSN  107 (192)
T ss_dssp             ------THHHHHHTCCEEEEEEETT
T ss_pred             ------HHHHHhccCCEEEEEEECC
Confidence                  2234558899999999985

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.62  E-value=4.8e-15  Score=129.62  Aligned_cols=82  Identities=21%  Similarity=0.234  Sum_probs=60.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+++|++... ...++.++.......+.+++..               ..+.+|||||..+... 
T Consensus        19 ~ki~v~G~~~~GKssli~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~---------------~~~~i~D~~G~~~~~~-   81 (194)
T 2atx_A           19 LKCVVVGDGAVGKTCLLMSYANDAF-PEEYVPTVFDHYAVSVTVGGKQ---------------YLLGLYDTAGQEDYDR-   81 (194)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSSC-CCSCCCSSCCCEEEEEESSSCE---------------EEEEEECCCCSSSSTT-
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCC-CCCCCCcccceeEEEEEECCEE---------------EEEEEEECCCCcchhH-
Confidence            5899999999999999999998643 2344444444444556665543               6789999999765443 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        82 ------~~~~~~~~~d~~i~v~d~~  100 (194)
T 2atx_A           82 ------LRPLSYPMTDVFLICFSVV  100 (194)
T ss_dssp             ------TGGGGCTTCSEEEEEEETT
T ss_pred             ------HHHHhcCCCCEEEEEEECC
Confidence                  2234568899999999984

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.62  E-value=3.1e-15  Score=148.47  Aligned_cols=182  Identities=19%  Similarity=0.203  Sum_probs=112.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+++|+|+||||||||+|+|++.. ..++++|++|.++..+.+.++|                 ..+.+|||||+.....
T Consensus       181 ~kvaivG~~gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~g-----------------~~~~l~Dt~G~~~~~~  243 (439)
T 1mky_A          181 IKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDG-----------------RKYVFVDTAGLRRKSR  243 (439)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETT-----------------EEEEESSCSCC-----
T ss_pred             ceEEEECCCCCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEECC-----------------EEEEEEECCCCccccc
Confidence            589999999999999999999974 5689999999999999999998                 5689999999854322


Q ss_pred             cc----cch-hhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCc
Q psy2401          82 KG----EGL-GNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNE  156 (363)
Q Consensus        82 ~~----~~l-~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~  156 (363)
                      ..    +.+ ....+..++.+|++++|+|+....            .                                 
T Consensus       244 ~~~~~~e~~~~~~~~~~i~~ad~vllv~d~~~~~------------~---------------------------------  278 (439)
T 1mky_A          244 VEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGI------------T---------------------------------  278 (439)
T ss_dssp             ------CCSCCHHHHHHHHHCSEEEEEEETTTCC------------C---------------------------------
T ss_pred             cchhhHHHHHHHHHHHHHhhCCEEEEEEeCCCCC------------C---------------------------------
Confidence            11    111 123456778899999999985321            0                                 


Q ss_pred             hhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHH----HHHHHHh-cCCC
Q psy2401         157 HSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLD----QLKIYAH-NQNI  231 (363)
Q Consensus       157 ~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~----~i~~~~~-~~~~  231 (363)
                                                  ..+..... +.....+|+++++||.|.........+    .+.+.+. ..+.
T Consensus       279 ----------------------------~~~~~i~~-~l~~~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  329 (439)
T 1mky_A          279 ----------------------------RQDQRMAG-LMERRGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYS  329 (439)
T ss_dssp             ----------------------------HHHHHHHH-HHHHTTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTS
T ss_pred             ----------------------------HHHHHHHH-HHHHcCCCEEEEEECccCCCchhhHHHHHHHHHHHHhccCCCC
Confidence                                        00000000 101157899999999996421111122    2222222 2356


Q ss_pred             cEEEeeHHHHHHHhcCCHHHHHHHHhh-cCCCchhHHHHHHHHHH
Q psy2401         232 PIIIICAKLEEEISDLNNIDKKFFLDN-LGLKETKLNDLIRASFS  275 (363)
Q Consensus       232 ~~i~~sa~~e~~i~el~~~~~~~~l~~-~~l~~~~l~~l~~~~~~  275 (363)
                      +++++||+...++.++.+...+.+-+. .-+..+.+++++..+..
T Consensus       330 ~~~~~SA~~g~gv~~l~~~i~~~~~~~~~~i~t~~ln~~l~~~~~  374 (439)
T 1mky_A          330 PLIFTSADKGWNIDRMIDAMNLAYASYTTKVPSSAINSALQKVLA  374 (439)
T ss_dssp             CEEECBTTTTBSHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHH
Confidence            899999999888887765444433322 23455667788887665

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=99.62  E-value=4e-15  Score=135.30  Aligned_cols=88  Identities=16%  Similarity=0.090  Sum_probs=64.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCC--ceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYP--FCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p--~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      ++|+|+|++|||||||+|+|++.....+.+|  ++|..+..+.+.+++                 ..+.+|||||+.+..
T Consensus        30 ~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~-----------------~~i~liDTpG~~~~~   92 (239)
T 3lxx_A           30 LRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKE-----------------TELVVVDTPGIFDTE   92 (239)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETT-----------------EEEEEEECCSCC---
T ss_pred             eEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCC-----------------ceEEEEECCCccCCC
Confidence            6899999999999999999999877767666  788888888888887                 679999999998765


Q ss_pred             Ccccch----hhHHHhhccccCEEEEEEecc
Q psy2401          81 SKGEGL----GNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~~~~l----~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .....+    .+.+....+.+|++|+|+|+.
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~  123 (239)
T 3lxx_A           93 VPNAETSKEIIRCILLTSPGPHALLLVVPLG  123 (239)
T ss_dssp             --CHHHHHHHHHHHHHTTTCCSEEEEEEETT
T ss_pred             CCHHHHHHHHHHHHHhcCCCCcEEEEEeeCC
Confidence            443322    233344456789999999984

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.62  E-value=3.4e-15  Score=132.60  Aligned_cols=82  Identities=20%  Similarity=0.210  Sum_probs=59.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||++++++.... ..++.++.......+.+++..               ..+.+|||||.......
T Consensus        10 ~ki~i~G~~~~GKTsli~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~~   73 (212)
T 2j0v_A           10 IKCVTVGDGAVGKTCMLICYTSNKFP-TDYIPTVFDNFSANVAVDGQI---------------VNLGLWDTAGQEDYSRL   73 (212)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCC-SSCCCSSCCCEEEEEECSSCE---------------EEEEEECCCCCCCCCC-
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCC-ccCCCccceeEEEEEEECCEE---------------EEEEEEECCCcHHHHHH
Confidence            68999999999999999999976542 344444444444455565533               67999999998655432


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                             ....++.+|++++|+|+.
T Consensus        74 -------~~~~~~~~d~~ilv~d~~   91 (212)
T 2j0v_A           74 -------RPLSYRGADIFVLAFSLI   91 (212)
T ss_dssp             --------CGGGTTCSEEEEEEETT
T ss_pred             -------HHhhccCCCEEEEEEECC
Confidence                   224568899999999985

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.61  E-value=3.4e-16  Score=154.35  Aligned_cols=88  Identities=25%  Similarity=0.222  Sum_probs=65.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc-cccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI-SAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~-~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      ++|+++|++|+|||||+|+|++... .+++++++|.++....+.+.+.                ..+.+|||||+.++..
T Consensus        35 ~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~----------------~~l~liDTpG~~d~~~   98 (423)
T 3qq5_A           35 RYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPI----------------GPVTLVDTPGLDDVGE   98 (423)
T ss_dssp             EEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTT----------------EEEEEEECSSTTCCCT
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCC----------------CeEEEEECcCCCcccc
Confidence            5899999999999999999999854 5788999999999999988773                3799999999988766


Q ss_pred             cccchhhHHHhhccccCEEEEEEec
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRC  106 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda  106 (363)
                      .+..........++.+|++++|+|+
T Consensus        99 l~~~~~~~~~~~l~~aD~vllVvD~  123 (423)
T 3qq5_A           99 LGRLRVEKARRVFYRADCGILVTDS  123 (423)
T ss_dssp             TCCCCHHHHHHHHTSCSEEEEECSS
T ss_pred             hhHHHHHHHHHHHhcCCEEEEEEeC
Confidence            5554455677788999999999998

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=99.61  E-value=1.4e-15  Score=131.15  Aligned_cols=82  Identities=20%  Similarity=0.195  Sum_probs=48.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||++++++.... ..++.++.......+.+++..               ..+++|||||...... 
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~-   71 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTSNTFP-TDYVPTVFDNFSANVVVNGAT---------------VNLGLWDTAGQEDYNR-   71 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCCC-----------CBCCCC----------------------CEEECCCC-CTTTT-
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCC-CCCCCeeeeeEEEEEEECCEE---------------EEEEEEECCCChhhhh-
Confidence            78999999999999999999975432 233333222211122222211               5688999999765433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        72 ------~~~~~~~~~d~~i~v~d~~   90 (182)
T 3bwd_D           72 ------LRPLSYRGADVFILAFSLI   90 (182)
T ss_dssp             ------TGGGGGTTCSEEEEEEETT
T ss_pred             ------hHHhhccCCCEEEEEEECC
Confidence                  2234568899999999984

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=99.60  E-value=3.4e-15  Score=133.86  Aligned_cols=84  Identities=20%  Similarity=0.122  Sum_probs=56.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc-cccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI-SAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~-~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .||+++|.+|||||||+|++++... ....+|.++.+.....+.+++..               .++.+|||+|....  
T Consensus        38 ~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~~~~g~d~~~~~i~~~~~~---------------~~l~~~Dt~g~~~~--  100 (211)
T 2g3y_A           38 YRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGES---------------ATIILLDMWENKGE--  100 (211)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEE---------------EEEEEECCTTTTHH--
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCCcCCccceeeEEEEEEECCee---------------eEEEEeecCCCcch--
Confidence            6899999999999999999997532 24455555555445566777643               57889999985321  


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                       ...   ......+.+|++++|+|+.
T Consensus       101 -~~~---l~~~~~~~a~~~ilVydvt  122 (211)
T 2g3y_A          101 -NEW---LHDHCMQVGDAYLIVYSIT  122 (211)
T ss_dssp             -HHH---HHHCCCCCCSEEEEEEETT
T ss_pred             -hhh---HHHHHHhhCCEEEEEEECC
Confidence             011   1123457899999999984

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=99.60  E-value=6.6e-15  Score=127.91  Aligned_cols=77  Identities=29%  Similarity=0.319  Sum_probs=55.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc-ccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~-~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+|+++|++|||||||+++|++.... ..+    |.......+.+++                 ..+.+|||||....  
T Consensus        17 ~ki~ivG~~~vGKSsL~~~l~~~~~~~~~~----t~g~~~~~~~~~~-----------------~~l~i~Dt~G~~~~--   73 (181)
T 1fzq_A           17 VRILLLGLDNAGKTTLLKQLASEDISHITP----TQGFNIKSVQSQG-----------------FKLNVWDIGGQRKI--   73 (181)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCSCCEEEEE----ETTEEEEEEEETT-----------------EEEEEEECSSCGGG--
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCcccC----cCCeEEEEEEECC-----------------EEEEEEECCCCHHH--
Confidence            68999999999999999999985321 111    2222233455554                 78999999996432  


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           .......++.+|++++|+|++
T Consensus        74 -----~~~~~~~~~~~~~~i~v~d~~   94 (181)
T 1fzq_A           74 -----RPYWRSYFENTDILIYVIDSA   94 (181)
T ss_dssp             -----HHHHHHHHTTCSEEEEEEETT
T ss_pred             -----HHHHHHHhCCCCEEEEEEECc
Confidence                 223445678999999999985

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=99.60  E-value=1.9e-14  Score=132.35  Aligned_cols=88  Identities=17%  Similarity=0.126  Sum_probs=68.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCc-eeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPF-CTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~-~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      .+|+|+|++|||||||+|+|++.. ...+..|. +|.....+.+.+.+                 ..+.+|||||+.+..
T Consensus        23 ~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~-----------------~~i~iiDTpG~~~~~   85 (260)
T 2xtp_A           23 LRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGN-----------------REIVIIDTPDMFSWK   85 (260)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETT-----------------EEEEEEECCGGGGSS
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCC-----------------CEEEEEECcCCCCCC
Confidence            689999999999999999999986 34444455 78888888888877                 679999999998765


Q ss_pred             Ccccch----hhHHHhhccccCEEEEEEecc
Q psy2401          81 SKGEGL----GNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~~~~l----~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .....+    .+.+...++.+|++++|+|+.
T Consensus        86 ~~~~~~~~~i~~~~~~~~~~~d~il~V~d~~  116 (260)
T 2xtp_A           86 DHCEALYKEVQRCYLLSAPGPHVLLLVTQLG  116 (260)
T ss_dssp             CCCHHHHHHHHHHHHHHTTCCSEEEEEEETT
T ss_pred             CCHHHHHHHHHHHHHhcCCCCcEEEEEEeCC
Confidence            433221    233345678999999999984

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.60  E-value=7.3e-15  Score=127.93  Aligned_cols=79  Identities=19%  Similarity=0.305  Sum_probs=58.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+|++++.... ...|  |.......+.+++                 ..+.+|||||.......
T Consensus        23 ~~i~v~G~~~~GKssli~~l~~~~~~-~~~~--t~~~~~~~~~~~~-----------------~~~~~~Dt~G~~~~~~~   82 (189)
T 2x77_A           23 IRVLMLGLDNAGKTSILYRLHLGDVV-TTVP--TVGVNLETLQYKN-----------------ISFEVWDLGGQTGVRPY   82 (189)
T ss_dssp             EEEEEEEETTSSHHHHHHHTCCSCCE-EECS--STTCCEEEEEETT-----------------EEEEEEEECCSSSSCCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCC-CcCC--CCceEEEEEEECC-----------------EEEEEEECCCCHhHHHH
Confidence            68999999999999999999875432 2233  4445555666655                 78999999998654432


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      .       ...++.+|++++|+|+++
T Consensus        83 ~-------~~~~~~~d~ii~v~d~~~  101 (189)
T 2x77_A           83 W-------RCYFSDTDAVIYVVDSTD  101 (189)
T ss_dssp             C-------SSSSTTCCEEEEEEETTC
T ss_pred             H-------HHHhhcCCEEEEEEeCCC
Confidence            2       245588999999999953

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=99.60  E-value=1.2e-14  Score=129.86  Aligned_cols=82  Identities=18%  Similarity=0.173  Sum_probs=55.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||+++|++..... .+..++.......+.+++..               ..+.+|||||...... 
T Consensus        28 ~ki~vvG~~~vGKSsL~~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~-   90 (214)
T 3q3j_B           28 CKLVLVGDVQCGKTAMLQVLAKDCYPE-TYVPTVFENYTACLETEEQR---------------VELSLWDTSGSPYYDN-   90 (214)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCS-SCCCCSEEEEEEEEEC--CE---------------EEEEEEEECCSGGGTT-
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCCCCC-CcCCeeeeeEEEEEEECCEE---------------EEEEEEECCCCHhHHH-
Confidence            799999999999999999999865432 22222222223334444432               6799999999754433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        91 ------~~~~~~~~~d~~i~v~d~~  109 (214)
T 3q3j_B           91 ------VRPLCYSDSDAVLLCFDIS  109 (214)
T ss_dssp             ------TGGGGCTTCSEEEEEEETT
T ss_pred             ------HHHHHcCCCeEEEEEEECc
Confidence                  2224568899999999985

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=99.59  E-value=2.9e-15  Score=133.57  Aligned_cols=84  Identities=17%  Similarity=0.014  Sum_probs=52.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||+|+|++........+..+...........+..              ...+.+|||||.......
T Consensus        12 ~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~--------------~~~~~l~Dt~G~~~~~~~   77 (218)
T 4djt_A           12 YKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGN--------------VIKFNVWDTAGQEKKAVL   77 (218)
T ss_dssp             EEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSC--------------EEEEEEEEECSGGGTSCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCc--------------EEEEEEEecCCchhhchH
Confidence            699999999999999999999764332111111111111111211110              156899999997654432


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .       ...++.+|++++|+|+.
T Consensus        78 ~-------~~~~~~~d~~i~v~d~~   95 (218)
T 4djt_A           78 K-------DVYYIGASGAILFFDVT   95 (218)
T ss_dssp             C-------HHHHTTCSEEEEEEETT
T ss_pred             H-------HHHhhcCCEEEEEEeCC
Confidence            1       23457899999999985

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.59  E-value=1.3e-14  Score=128.59  Aligned_cols=82  Identities=21%  Similarity=0.188  Sum_probs=55.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||+|+|++...... +..++.......+.+++..               ..+.+|||||...... 
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~~~~~~-~~~t~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~-   88 (207)
T 2fv8_A           26 KKLVVVGDGACGKTCLLIVFSKDEFPEV-YVPTVFENYVADIEVDGKQ---------------VELALWDTAGQEDYDR-   88 (207)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSSCC--------CCEEEEEEEETTEE---------------EEEEEEECTTCTTCTT-
T ss_pred             cEEEEECcCCCCHHHHHHHHhcCCCCCc-CCCcccceEEEEEEECCEE---------------EEEEEEECCCcHHHHH-
Confidence            5899999999999999999998654322 2222322223335555532               5789999999765433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        89 ------~~~~~~~~~d~~i~v~d~~  107 (207)
T 2fv8_A           89 ------LRPLSYPDTDVILMCFSVD  107 (207)
T ss_dssp             ------TGGGGCTTCCEEEEEEETT
T ss_pred             ------HHHhhcCCCCEEEEEEECC
Confidence                  2234568899999999984

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=99.59  E-value=1.5e-14  Score=127.68  Aligned_cols=82  Identities=21%  Similarity=0.167  Sum_probs=57.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++++++........|.++.. ....+.+++..               ..+.+|||||...... 
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~-~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~-   88 (201)
T 2gco_A           26 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFEN-YIADIEVDGKQ---------------VELALWDTAGQEDYDR-   88 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCC-CEEEEEETTEE---------------EEEEEECCCCSGGGTT-
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccce-EEEEEEECCEE---------------EEEEEEECCCchhHHH-
Confidence            689999999999999999999865543333333322 22445565532               5789999999754332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        89 ------~~~~~~~~~d~~i~v~d~~  107 (201)
T 2gco_A           89 ------LRPLSYPDTDVILMCFSID  107 (201)
T ss_dssp             ------TGGGGCTTCSEEEEEEETT
T ss_pred             ------HHHHhcCCCCEEEEEEECC
Confidence                  2224568899999999984

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=99.59  E-value=7.7e-15  Score=131.02  Aligned_cols=82  Identities=17%  Similarity=0.194  Sum_probs=47.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||+++|++.... ..++.++.......+.+++..               ..+.+|||||...... 
T Consensus        35 ~ki~vvG~~~vGKSsli~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~---------------~~l~l~Dt~G~~~~~~-   97 (214)
T 2j1l_A           35 VKVVLVGDGGCGKTSLLMVFADGAFP-ESYTPTVFERYMVNLQVKGKP---------------VHLHIWDTAGQDDYDR-   97 (214)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHC--------CCCCCEEEEEEEEETTEE---------------EEEEEEEC---------
T ss_pred             EEEEEECcCCCCHHHHHHHHHcCCCC-CCCCCccceeEEEEEEECCEE---------------EEEEEEECCCchhhhH-
Confidence            68999999999999999999986432 233333333334445555532               5799999999754432 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        98 ------~~~~~~~~~d~~i~v~d~~  116 (214)
T 2j1l_A           98 ------LRPLFYPDASVLLLCFDVT  116 (214)
T ss_dssp             -------------CEEEEEEEEETT
T ss_pred             ------HHHHHhccCCEEEEEEECc
Confidence                  2223468899999999985

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=99.59  E-value=8.8e-15  Score=127.09  Aligned_cols=82  Identities=17%  Similarity=0.182  Sum_probs=55.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+++|++|||||||+|+|++........| +........+.+++..               ..+.+|||||...+.. 
T Consensus         8 ~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~-t~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~-   70 (184)
T 1m7b_A            8 CKIVVVGDSQCGKTALLHVFAKDCFPENYVP-TVFENYTASFEIDTQR---------------IELSLWDTSGSPYYDN-   70 (184)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCCSSCCC-CSEEEEEEEEECSSCE---------------EEEEEEEECCSGGGTT-
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCCCCCC-ccceeEEEEEEECCEE---------------EEEEEEECCCChhhhh-
Confidence            6899999999999999999998644322222 2212222334444432               6789999999754432 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        71 ------~~~~~~~~~~~~i~v~d~~   89 (184)
T 1m7b_A           71 ------VRPLSYPDSDAVLICFDIS   89 (184)
T ss_dssp             ------TGGGGCTTCSEEEEEEETT
T ss_pred             ------hHHhhcCCCcEEEEEEECC
Confidence                  1224568899999999985

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=99.59  E-value=8e-15  Score=128.85  Aligned_cols=162  Identities=17%  Similarity=0.099  Sum_probs=95.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +||+++|.+|||||||+|++++.. ...+.++.++.+.....+.+++..               ..+.+|||+|....  
T Consensus         7 ~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~l~~~Dt~~~~~~--   69 (192)
T 2cjw_A            7 YRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGES---------------ATIILLDMWENKGE--   69 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSCCC----GGGCTTEEEEEEEETTEE---------------EEEEEECCCCC-----
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCcCCcCccccccceeEEEEEEEECCeE---------------EEEEEEEeccCcch--
Confidence            689999999999999999999742 234455555555555667777743               56789999986431  


Q ss_pred             cccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHH
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIEL  161 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~  161 (363)
                       ...+..   ...+.+|++++|+|+.+.                                                    
T Consensus        70 -~~~~~~---~~~~~~~~~i~v~dv~~~----------------------------------------------------   93 (192)
T 2cjw_A           70 -NEWLHD---HCMQVGDAYLIVYSITDR----------------------------------------------------   93 (192)
T ss_dssp             --CTTGG---GHHHHCSEEEEEEETTCH----------------------------------------------------
T ss_pred             -hhhHHH---hhcccCCEEEEEEECCCH----------------------------------------------------
Confidence             111222   234779999999998421                                                    


Q ss_pred             HHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHH
Q psy2401         162 LKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLE  241 (363)
Q Consensus       162 ~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e  241 (363)
                       ..++.+..|+.                .+..+......|+++|+||.|.........+..+.+....+.+++.+||+..
T Consensus        94 -~s~~~~~~~~~----------------~l~~~~~~~~~piilV~NK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~SA~~g  156 (192)
T 2cjw_A           94 -ASFEKASELRI----------------QLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQ  156 (192)
T ss_dssp             -HHHHHHHHHHH----------------HHHHHTTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTT
T ss_pred             -HHHHHHHHHHH----------------HHHHhhCCCCCeEEEEEechhhhccccccHHHHHHHHHHhCCceEEeccccC
Confidence             01111111111                0111111146799999999996311111223344444556778999999987


Q ss_pred             HHHhcCCHHHHHH
Q psy2401         242 EEISDLNNIDKKF  254 (363)
Q Consensus       242 ~~i~el~~~~~~~  254 (363)
                      .++.++.+...+.
T Consensus       157 ~~v~~lf~~l~~~  169 (192)
T 2cjw_A          157 HNVKELFEGIVRQ  169 (192)
T ss_dssp             BSHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            7776665444433

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.59  E-value=1.5e-15  Score=151.45  Aligned_cols=88  Identities=23%  Similarity=0.303  Sum_probs=59.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+|+|+|+||||||||+|+|++.. +.++++|++|.+...+.+.+.+                 ..+.+|||||+.....
T Consensus        24 ~~V~lvG~~nvGKSTL~n~l~~~~~~~v~~~~g~t~~~~~~~~~~~~-----------------~~~~liDT~G~~~~~~   86 (456)
T 4dcu_A           24 PVVAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEWLN-----------------YDFNLIDTGGIDIGDE   86 (456)
T ss_dssp             CEEEEECSSSSSHHHHHHHHEEEEEC-----------CEEEECTTCS-----------------SCCEEECCCC------
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcceeEEEEEEEECC-----------------ceEEEEECCCCCCcch
Confidence            589999999999999999999984 4588999999999888888877                 6789999999874322


Q ss_pred             c-ccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 K-GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~-~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      . .+.+.......++.+|++|+|+|+.
T Consensus        87 ~~~~~~~~~~~~~~~~ad~il~VvD~~  113 (456)
T 4dcu_A           87 PFLAQIRQQAEIAMDEADVIIFMVNGR  113 (456)
T ss_dssp             CCHHHHHHHHHHHHHHCSEEEEEEESS
T ss_pred             HHHHHHHHHHHhhHhhCCEEEEEEeCC
Confidence            1 2233445667789999999999984

>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP, 50S subunit, cryo-EM, REAL-space refinement, ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H

Probab=99.58  E-value=2e-14  Score=150.29  Aligned_cols=233  Identities=15%  Similarity=0.073  Sum_probs=149.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc---c---c------cC------CCceeecceeEEEEeCCcccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI---S---A------EN------YPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF   64 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~---~---~------~~------~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~   64 (363)
                      ++|+|+|++|+|||||+++|+....   .   +      .+      ..+.|+......+.+.+..          ....
T Consensus        11 ~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~----------~~~~   80 (704)
T 2rdo_7           11 RNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAFWSGMA----------KQYE   80 (704)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEEECCcc----------ccCC
Confidence            6899999999999999999964311   0   1      11      1334544444445544310          0011


Q ss_pred             ceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-h
Q psy2401          65 PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-Y  143 (363)
Q Consensus        65 ~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~  143 (363)
                      ...+++|||||..++..       .....++.+|++|+|+|+.++.                ..+++..|..+..... .
T Consensus        81 ~~~i~liDTPG~~df~~-------~~~~~l~~aD~aIlVvDa~~gv----------------~~qt~~~~~~~~~~~ip~  137 (704)
T 2rdo_7           81 PHRINIIDTPGHVDFTI-------EVERSMRVLDGAVMVYCAVGGV----------------QPQSETVWRQANKYKVPR  137 (704)
T ss_pred             ceeEEEEeCCCccchHH-------HHHHHHHHCCEEEEEEeCCCCC----------------cHHHHHHHHHHHHcCCCE
Confidence            15799999999876543       5567778999999999996532                1122333433333333 3


Q ss_pred             hhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEec----cccccCCCchHH
Q psy2401         144 IDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFVA----NVKENGFKNNLL  218 (363)
Q Consensus       144 ~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v~----Nk~d~~~~~~~~  218 (363)
                      +..+||+++.+    .+...+++++++.|.....+..+|+..++  .+.++ +++..+...|--    ++.+....+...
T Consensus       138 ilviNKiD~~~----~~~~~~~~~l~~~l~~~~~~~~~Pi~~~~--~f~g~~dl~~~~~~~~~~~~~g~~~~~~~~~~~~  211 (704)
T 2rdo_7          138 IAFVNKMDRMG----ANFLKVVNQIKTRLGANPVPLQLAIGAEE--HFTGVVDLVKMKAINWNDADQGVTFEYEDIPADM  211 (704)
T ss_pred             EEEEeCCCccc----ccHHHHHHHHHHHhCCCceeEEccccccc--cccceeehhhhhhhcccCccCCcceEEecCCHHH
Confidence            56788885432    24567788888888776555666776443  34444 555555444421    111110123444


Q ss_pred             HHHHHHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeC
Q psy2401         219 LDQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTV  285 (363)
Q Consensus       219 ~~~i~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~  285 (363)
                      .+.+.++           ..++-+.+++.+++.+++||++..++.+.+...+++.+....++|+|-.
T Consensus       212 ~~~~~~~-----------~~~l~e~~ae~dd~l~e~~l~~~~l~~~~l~~~l~~~~~~~~~~Pv~~g  267 (704)
T 2rdo_7          212 VELANEW-----------HQNLIESAAEASEELMEKYLGGEELTEAEIKGALRQRVLNNEIILVTCG  267 (704)
T ss_pred             HHHHHHH-----------HHHHHHHHHhcCHHHHHHHhcCCCCCHHHHHHHHHHHHHhCCeeEEEEe
Confidence            4555444           4567788999999999999999999999999999999998999999865

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=99.57  E-value=1.6e-14  Score=128.38  Aligned_cols=82  Identities=17%  Similarity=0.182  Sum_probs=56.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||+|+|++........| ++.......+.+++..               ..+.+|||||...+...
T Consensus        29 ~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~-t~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~~   92 (205)
T 1gwn_A           29 CKIVVVGDSQCGKTALLHVFAKDCFPENYVP-TVFENYTASFEIDTQR---------------IELSLWDTSGSPYYDNV   92 (205)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCCSSCCC-CSEEEEEEEEESSSSE---------------EEEEEEEECCSGGGTTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCcCC-ccceeEEEEEEECCEE---------------EEEEEEeCCCcHhhhHH
Confidence            6899999999999999999998654322222 2211222334444432               67999999997544321


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                             ....++.+|++++|+|++
T Consensus        93 -------~~~~~~~~d~~ilv~D~~  110 (205)
T 1gwn_A           93 -------RPLSYPDSDAVLICFDIS  110 (205)
T ss_dssp             -------GGGGCTTCSEEEEEEETT
T ss_pred             -------HHhhccCCCEEEEEEECC
Confidence                   224568899999999985

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=99.56  E-value=1.4e-15  Score=136.13  Aligned_cols=81  Identities=16%  Similarity=0.041  Sum_probs=56.9

Q ss_pred             cEEEEEeCCCCcHHHHHHH-HHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNA-LTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~-Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      +||+++|.+|||||||+|+ +.+. .....+.++++......  .+.+..               ..+.+|||||.....
T Consensus        16 ~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~---------------~~~~i~Dt~G~~~~~   78 (221)
T 3gj0_A           16 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVF--HTNRGP---------------IKFNVWDTAGQEKFG   78 (221)
T ss_dssp             EEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEE--EETTEE---------------EEEEEEEECSGGGTS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEE--EECCEE---------------EEEEEEeCCChHHHh
Confidence            6899999999999999999 4443 33345666666554433  333322               679999999975543


Q ss_pred             CcccchhhHHHhhccccCEEEEEEecc
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ..       ....++.+|++++|+|+.
T Consensus        79 ~~-------~~~~~~~~~~~i~v~d~~   98 (221)
T 3gj0_A           79 GL-------RDGYYIQAQCAIIMFDVT   98 (221)
T ss_dssp             CC-------CHHHHTTCCEEEEEEETT
T ss_pred             HH-------HHHHHhcCCEEEEEEECC
Confidence            32       224457899999999985

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=99.56  E-value=2.3e-14  Score=126.18  Aligned_cols=83  Identities=24%  Similarity=0.204  Sum_probs=61.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+++|++........|..+.++..+.+.+++..               ..+.+||+||...... 
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~---------------~~~~i~Dt~g~~~~~~-   69 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKT---------------IKAQIWDTAGQERYRR-   69 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEE---------------EEEEEEECSSGGGTTC-
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEE---------------EEEEEEECCCchhhhh-
Confidence            689999999999999999999976554455655566778888888853               5688999999765432 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                         +...   ..+.+|++++|+|+.
T Consensus        70 ---~~~~---~~~~~~~~i~v~d~~   88 (199)
T 2f9l_A           70 ---ITSA---YYRGAVGALLVYDIA   88 (199)
T ss_dssp             ---CCHH---HHTTCSEEEEEEETT
T ss_pred             ---hhHH---HHhcCCEEEEEEECc
Confidence               2223   336789999999984

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=99.56  E-value=4.8e-14  Score=122.20  Aligned_cols=83  Identities=24%  Similarity=0.191  Sum_probs=56.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||+|++++.....+..|++|..+...  .+.                   .+.+|||||+......
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~t~~~~~~--~~~-------------------~~~l~Dt~G~~~~~~~   60 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKIIEI--EWK-------------------NHKIIDMPGFGFMMGL   60 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSCEEE--EET-------------------TEEEEECCCBSCCTTS
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCccCCCCCccceeEEE--ecC-------------------CEEEEECCCccccccC
Confidence            6899999999999999999999887778888777665432  222                   4789999997543211


Q ss_pred             c----c---chhhHHHhh-ccccCEEEEEEec
Q psy2401          83 G----E---GLGNKFLAH-IRETNIVIHVIRC  106 (363)
Q Consensus        83 ~----~---~l~~~~l~~-~~~aD~il~Vvda  106 (363)
                      .    +   .+...++.. ...+++++.|+|.
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~d~   92 (190)
T 2cxx_A           61 PKEVQERIKDEIVHFIEDNAKNIDVAVLVVDG   92 (190)
T ss_dssp             CHHHHHHHHHHHHHHHHHHGGGCCEEEEEEET
T ss_pred             CHHHHHHHHHHHHHHHHhhhccCCEEEEEEcc
Confidence            1    1   111223333 5556777777776

>3p26_A Elongation factor 1 alpha-like protein; GTP/GDP binding domain, beta-barrel, translational GTPase, D structural genomics; 2.50A {Saccharomyces cerevisiae} PDB: 3p27_A*

Probab=99.55  E-value=4.5e-15  Score=149.08  Aligned_cols=82  Identities=21%  Similarity=0.214  Sum_probs=60.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc-------------------------------cccCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI-------------------------------SAENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~-------------------------------~~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      ++|+++|++|+|||||+|+|++...                               .....+++|++.....+...+   
T Consensus        34 ~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~---  110 (483)
T 3p26_A           34 LSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHR---  110 (483)
T ss_dssp             EEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEECSS---
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEecCC---
Confidence            6899999999999999999975411                               112234666666666665554   


Q ss_pred             cccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          52 KHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        52 ~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                                    ..+.+|||||+.+       +.......++.+|++|+|+|+.+
T Consensus       111 --------------~~~~iiDTPG~~~-------f~~~~~~~~~~aD~~llVvDa~~  146 (483)
T 3p26_A          111 --------------ANFTIVDAPGHRD-------FVPNAIMGISQADMAILCVDCST  146 (483)
T ss_dssp             --------------CEEEEECCCCCGG-------GHHHHHHHHTTCSEEEEEEECCC
T ss_pred             --------------ceEEEEECCCcHH-------HHHHHHHhhhhCCEEEEEEECCC
Confidence                          6799999999854       34467778899999999999964

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=99.55  E-value=5.2e-14  Score=123.46  Aligned_cols=83  Identities=27%  Similarity=0.243  Sum_probs=63.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|++|||||||+++|++........|..+.++..+.+.+++..               ..+.+||+||...... 
T Consensus        30 ~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~---------------~~~~i~Dt~g~~~~~~-   93 (191)
T 1oix_A           30 FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKT---------------IKAQIWDTAGLERYRA-   93 (191)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEE---------------EEEEEEEECSCCSSSC-
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEE---------------EEEEEEECCCCcchhh-
Confidence            589999999999999999999976555556666667778889988843               4677899999765432 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                         +..   ...+.++++++|+|..
T Consensus        94 ---~~~---~~~~~~~~~i~v~d~~  112 (191)
T 1oix_A           94 ---ITS---AYYRGAVGALLVYDIA  112 (191)
T ss_dssp             ---CCH---HHHTTCCEEEEEEETT
T ss_pred             ---hhH---HHhhcCCEEEEEEECc
Confidence               222   3347789999999974

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=99.54  E-value=6.4e-14  Score=123.08  Aligned_cols=83  Identities=18%  Similarity=0.170  Sum_probs=53.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEE--EeC-CccccccccccccccccceeEEEEeeecccCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGII--EVP-DKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v--~~~-~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      +||+++|.+|||||||++.+++.... .  +..+..+....+  .+. +..               ..+++|||||...+
T Consensus        21 ~ki~~vG~~~vGKTsLi~~l~~~~~~-~--~~~~~~~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~   82 (196)
T 3llu_A           21 PRILLMGLRRSGKSSIQKVVFHKMSP-N--ETLFLESTNKIYKDDISNSSF---------------VNFQIWDFPGQMDF   82 (196)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHSCCCG-G--GGGGCCCCCSCEEEEECCTTS---------------CCEEEEECCSSCCT
T ss_pred             eEEEEECCCCCCHHHHHHHHHhcCCC-c--ceeeeccccceeeeeccCCCe---------------eEEEEEECCCCHHH
Confidence            79999999999999999999985221 1  211222222222  232 222               67999999997654


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEecc
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ...    .......++.+|++++|+|+.
T Consensus        83 ~~~----~~~~~~~~~~~~~~i~v~d~~  106 (196)
T 3llu_A           83 FDP----TFDYEMIFRGTGALIYVIDAQ  106 (196)
T ss_dssp             TCT----TCCHHHHHHTCSEEEEEEETT
T ss_pred             Hhh----hhhcccccccCCEEEEEEECC
Confidence            331    100034558899999999985

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.54  E-value=5.5e-14  Score=147.33  Aligned_cols=233  Identities=15%  Similarity=0.065  Sum_probs=160.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC------------ccccC------CCceeecceeEEEEeCCcccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK------------ISAEN------YPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF   64 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~------------~~~~~------~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~   64 (363)
                      ++|||+||..+|||||..+|.-..            ....+      ..+.|+....-.+.|.+.+.          +..
T Consensus        14 RNi~IiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~~~~~~D~~~~E~eRGITI~s~~~s~~~~~~~~----------~~~   83 (709)
T 4fn5_A           14 RNIGICAHVDAGKTTTTERVLFYTGVNHKLGEVHDGAATTDWMVQEQERGITITSAAVTTFWKGSRG----------QYD   83 (709)
T ss_dssp             EEEEEECCSSSCHHHHHHHHHHHHHHHHHC------------------------CCEEEEEECCTTS----------CSC
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHhcCCCCcCceecCCCccCCChHHHHHcCCeEEeeeEEEEeccCcC----------CCC
Confidence            579999999999999999995210            01111      13667766666677654211          001


Q ss_pred             ceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-h
Q psy2401          65 PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-Y  143 (363)
Q Consensus        65 ~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~  143 (363)
                      ...|+++||||..++..       +..+.+|-+|.+|+||||.++.                ..++|.+|+.+..... +
T Consensus        84 ~~~iNlIDTPGHvDF~~-------Ev~~aLr~~DgavlvVDaveGV----------------~~qT~~v~~~a~~~~lp~  140 (709)
T 4fn5_A           84 NYRVNVIDTPGHVDFTI-------EVERSLRVLDGAVVVFCGTSGV----------------EPQSETVWRQANKYGVPR  140 (709)
T ss_dssp             CEEEEEECCCSCTTCHH-------HHHHHHHHCSEEEEEEETTTCS----------------CHHHHHHHHHHHHHTCCE
T ss_pred             CEEEEEEeCCCCcccHH-------HHHHHHHHhCeEEEEEECCCCC----------------chhHHHHHHHHHHcCCCe
Confidence            26899999999998766       7778899999999999997664                3456888888766665 5


Q ss_pred             hhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEecccc----ccCCCchHH
Q psy2401         144 IDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFVANVK----ENGFKNNLL  218 (363)
Q Consensus       144 ~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v~Nk~----d~~~~~~~~  218 (363)
                      +.++||+++.+    .+...+++++++.|.....+..+|++.++  .+.++ +++..+.+.+--+..    .....+.+.
T Consensus       141 i~~iNKiDr~~----a~~~~~~~ei~~~l~~~~~~~~~pi~~~~--~~~g~vd~~~~~~~~~~~~~~g~~~~~~~~~~~~  214 (709)
T 4fn5_A          141 IVYVNKMDRQG----ANFLRVVEQIKKRLGHTPVPVQLAIGAEE--NFVGQVDLIKMKAIYWNDDDKGMTYREEEIPAEL  214 (709)
T ss_dssp             EEEEECSSSTT----CCHHHHHHHHHHHHCSCEEESEEEESSST--TCCEEEETTTTEEEEEEC--CCCEEEECCCCHHH
T ss_pred             EEEEccccccC----ccHHHHHHHhhhhcccceeeeecccCchh--ccceEEEEeeeeEEEeecccCCceeccccccHHH
Confidence            78999996543    35677888898888876655556666554  34444 555666665542211    100124455


Q ss_pred             HHHHHHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeC
Q psy2401         219 LDQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTV  285 (363)
Q Consensus       219 ~~~i~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~  285 (363)
                      .+..+.+           ...+.+.+++.+++.+++|+++..++...+...++.......+.|+|-.
T Consensus       215 ~~~~~~~-----------~~~~~e~~~~~d~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~pv~~g  270 (709)
T 4fn5_A          215 KDLAEEW-----------RSSMVEAAAEANEELMNKYLEEGELSEAEIKEGLRLRTLACEIVPAVCG  270 (709)
T ss_dssp             HHHHHHH-----------HHHHHHHHHTSSHHHHHHHHHHSCCCHHHHHHHHHHHHHTTSCEEEEEC
T ss_pred             HHHHHHH-----------HHHHHHHHHhccHHHHHHHHhcCCccHHHHHHHHHHhhhhceeeeeeee
Confidence            5555555           4557788899999999999999999999999999999999999999875

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=99.53  E-value=7e-14  Score=132.28  Aligned_cols=83  Identities=20%  Similarity=0.206  Sum_probs=60.7

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .++|+++|.+|||||||++.+++... ...++.++.......+.+++..               ..+.+|||||......
T Consensus       155 ~~~i~i~G~~~~GKssli~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~---------------~~~~l~Dt~G~~~~~~  218 (332)
T 2wkq_A          155 LIKCVVVGDGAVGKTCLLISYTTNAF-PGEYIPTVFDNYSANVMVDGKP---------------VNLGLWDTAGLEDYDR  218 (332)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHSCC-CCSCCCCSEEEEEEEEEETTEE---------------EEEEEEEECCCGGGTT
T ss_pred             eeEEEEECCCCCChHHHHHHHHhCCC-CcccCCcccceeEEEEEECCEE---------------EEEEEEeCCCchhhhH
Confidence            36899999999999999999997543 3445555555445556666533               5678999999765433


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                             .....++.+|++++|+|++
T Consensus       219 -------~~~~~~~~~d~~i~v~d~~  237 (332)
T 2wkq_A          219 -------LRPLSYPQTDVFLICFSLV  237 (332)
T ss_dssp             -------TGGGGCTTCSEEEEEEETT
T ss_pred             -------HHHHhccCCCEEEEEEeCC
Confidence                   2234568999999999985

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.52  E-value=3.8e-14  Score=135.44  Aligned_cols=79  Identities=22%  Similarity=0.291  Sum_probs=56.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||+++|++... ...+|  |+......+...+                 ..+.+|||||...... 
T Consensus       166 ~kI~ivG~~~vGKSsLl~~l~~~~~-~~~~p--T~~~~~~~~~~~~-----------------~~l~i~Dt~G~~~~~~-  224 (329)
T 3o47_A          166 MRILMVGLDAAGKTTILYKLKLGEI-VTTIP--TIGFNVETVEYKN-----------------ISFTVWDVGGQDKIRP-  224 (329)
T ss_dssp             EEEEEEESTTSSHHHHHHHTCSSCC-EEEEE--ETTEEEEEEEETT-----------------EEEEEEECC-----CC-
T ss_pred             ceEEEECCCCccHHHHHHHHhCCCC-CCccc--ccceEEEEEecCc-----------------EEEEEEECCCCHhHHH-
Confidence            5899999999999999999998653 23333  6666666666655                 7899999999654433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                            .....++.+|++++|+|+.+
T Consensus       225 ------~~~~~~~~ad~vilV~D~~~  244 (329)
T 3o47_A          225 ------LWRHYFQNTQGLIFVVDSND  244 (329)
T ss_dssp             ------SHHHHHTTEEEEEEEEETTC
T ss_pred             ------HHHHHhccCCEEEEEEECCc
Confidence                  23345588999999999853

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.52  E-value=1.4e-14  Score=149.10  Aligned_cols=82  Identities=20%  Similarity=0.194  Sum_probs=65.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccC-------------------------------CCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAEN-------------------------------YPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~-------------------------------~p~~t~~~~~g~v~~~~~~~   51 (363)
                      ++|+++|++|+|||||+|+|++....+..                               .+++|++.....+...+   
T Consensus       168 lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~~~---  244 (611)
T 3izq_1          168 LSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHR---  244 (611)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEECSS---
T ss_pred             eEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEecCC---
Confidence            68999999999999999999976322221                               25778888777777766   


Q ss_pred             cccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          52 KHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        52 ~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                                    .++.+|||||+.+       +.......++.+|++|+|||+..
T Consensus       245 --------------~~~~iiDTPG~e~-------f~~~~~~~~~~aD~~llVVDa~~  280 (611)
T 3izq_1          245 --------------ANFTIVDAPGHRD-------FVPNAIMGISQADMAILCVDCST  280 (611)
T ss_dssp             --------------CEEEEEECCSSSC-------HHHHHTTTSSCCSEEEEEEECSH
T ss_pred             --------------ceEEEEECCCCcc-------cHHHHHHHHhhcCceEEEEECCC
Confidence                          6799999999743       44567778899999999999953

>1wb1_A Translation elongation factor SELB; selenocysteine, protein synthesis, selenium, ribosome; HET: GDP DXC; 3.0A {Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*

Probab=99.51  E-value=3.4e-14  Score=142.56  Aligned_cols=82  Identities=21%  Similarity=0.297  Sum_probs=58.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-------ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeec
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-------ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAG   75 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-------~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpG   75 (363)
                      ++|+++|++|+|||||+++|++..       ...+..+++|++.....+.+++                 ..+.+|||||
T Consensus        20 ~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~-----------------~~i~iiDtPG   82 (482)
T 1wb1_A           20 INLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN-----------------YRITLVDAPG   82 (482)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT-----------------EEEEECCCSS
T ss_pred             CEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEECC-----------------EEEEEEECCC
Confidence            689999999999999999999865       3345567788888777777766                 6799999999


Q ss_pred             ccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          76 LVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        76 l~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ..+       +.......++.+|++++|+|+.+
T Consensus        83 h~~-------~~~~~~~~~~~aD~~ilVvda~~  108 (482)
T 1wb1_A           83 HAD-------LIRAVVSAADIIDLALIVVDAKE  108 (482)
T ss_dssp             HHH-------HHHHHHHHTTSCCEEEEEEETTT
T ss_pred             hHH-------HHHHHHHHHhhCCEEEEEEecCC
Confidence            743       34466778899999999999954

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=99.26  E-value=1.2e-15  Score=134.83  Aligned_cols=83  Identities=19%  Similarity=0.197  Sum_probs=56.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ++|+++|.+|||||||++++++.... ..++.++.+.....+.+++..               ..+.+|||||..+... 
T Consensus        31 ~ki~v~G~~~~GKSsli~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~~~-   93 (204)
T 3th5_A           31 IKCVVVGDGAVGKTCLLISYTTNAFP-GEYIPTVFDNYSANVMVDGKP---------------VNLGLWDTAGQEDYDR-   93 (204)
Confidence            68999999999999999999975432 333333433333344444422               5678999999765432 


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                            .....++.+|++++|+|+++
T Consensus        94 ------~~~~~~~~~d~iilv~D~~~  113 (204)
T 3th5_A           94 ------LRPLSYPQTDVFLICFSLVS  113 (204)
Confidence                  22245688999999999853

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.51  E-value=4.3e-14  Score=140.24  Aligned_cols=82  Identities=21%  Similarity=0.189  Sum_probs=61.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc-------------------------------ccCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS-------------------------------AENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~-------------------------------~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      ++|+++|++|+|||||+++|++....                               ....++.|++.....+..++   
T Consensus        18 ~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~~~~---   94 (439)
T 3j2k_7           18 VNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFETEK---   94 (439)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEecCC---
Confidence            68999999999999999999543110                               11125667777666666666   


Q ss_pred             cccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          52 KHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        52 ~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                                    .++.+|||||+.++       .......++.+|++++|||+.+
T Consensus        95 --------------~~~~iiDTPGh~~f-------~~~~~~~~~~aD~~ilVVDa~~  130 (439)
T 3j2k_7           95 --------------KHFTILDAPGHKSF-------VPNMIGGASQADLAVLVISARK  130 (439)
T ss_pred             --------------eEEEEEECCChHHH-------HHHHHhhHhhCCEEEEEEECCC
Confidence                          67999999997543       3466677889999999999964

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=99.49  E-value=1.2e-13  Score=120.18  Aligned_cols=88  Identities=18%  Similarity=0.165  Sum_probs=48.6

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      .+||+++|++|||||||++++++.. ...+.+.. |.........+.-.          ........+.+|||||.....
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~~-t~g~~~~~~~~~~~----------~~~~~~~~~~i~Dt~G~~~~~   70 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSA-TVGIDVKDWPIQIR----------DKRKRDLVLNVWDFAGREEFY   70 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHTCC------------CSEEEEEEEC-------------------CEEEEEEECSHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCccCCCcce-eccEEeEEeeeccc----------cCCCCceEEEEEecCCCHHHH
Confidence            4799999999999999999999852 22222211 22222111111100          000011678999999975432


Q ss_pred             CcccchhhHHHhhccccCEEEEEEecc
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .    +..   ..++.+|++++|+|++
T Consensus        71 ~----~~~---~~~~~~~~~i~v~d~~   90 (184)
T 2zej_A           71 S----THP---HFMTQRALYLAVYDLS   90 (184)
T ss_dssp             T----TSH---HHHHHSEEEEEEEEGG
T ss_pred             H----hhH---HHccCCcEEEEEEeCC
Confidence            2    112   3346789999999985

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.49  E-value=8.8e-14  Score=140.86  Aligned_cols=82  Identities=18%  Similarity=0.228  Sum_probs=64.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC----------------cccc------CCCceeecceeEEEEeCCcccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK----------------ISAE------NYPFCTIEPNIGIIEVPDKRLKHLNNIVKT   60 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~----------------~~~~------~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~   60 (363)
                      .+|+|+|++|||||||+|+|+...                ....      ..+++|+......+.+.+            
T Consensus        14 r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~------------   81 (528)
T 3tr5_A           14 RTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQFPYKD------------   81 (528)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEEEETT------------
T ss_pred             CEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEEEeCC------------
Confidence            589999999999999999996211                0111      125677788878888877            


Q ss_pred             ccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          61 KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        61 ~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                           ..+++|||||+.++..       .....++.+|++|+|+|+.+
T Consensus        82 -----~~i~liDTPG~~df~~-------~~~~~l~~aD~allVvDa~~  117 (528)
T 3tr5_A           82 -----YLINLLDTPGHADFTE-------DTYRTLTAVDSALMVIDAAK  117 (528)
T ss_dssp             -----EEEEEECCCCSTTCCH-------HHHHGGGGCSEEEEEEETTT
T ss_pred             -----EEEEEEECCCchhHHH-------HHHHHHHhCCEEEEEEeCCC
Confidence                 7899999999876543       67788899999999999964

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.48  E-value=8.3e-14  Score=141.69  Aligned_cols=157  Identities=17%  Similarity=0.149  Sum_probs=118.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC----------------ccccCC------CceeecceeEEEEeCCcccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK----------------ISAENY------PFCTIEPNIGIIEVPDKRLKHLNNIVKT   60 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~----------------~~~~~~------p~~t~~~~~g~v~~~~~~~~~l~~~~~~   60 (363)
                      ++|||+|+.++|||||..+|+-..                ..+.++      .+.|+......+.|++            
T Consensus        32 RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~~~~~------------   99 (548)
T 3vqt_A           32 RTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQFPYRD------------   99 (548)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEEEETT------------
T ss_pred             ceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEEEECC------------
Confidence            579999999999999999995110                112232      4788888888899988            


Q ss_pred             ccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHH
Q psy2401          61 KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAIL  140 (363)
Q Consensus        61 ~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~  140 (363)
                           ..|+|+||||..++..       +..+.++.+|.+|+||||.++.                ..+++.+|+.+...
T Consensus       100 -----~~iNlIDTPGHvDF~~-------Ev~raL~~~DgAvlVvda~~GV----------------~~qT~~v~~~a~~~  151 (548)
T 3vqt_A          100 -----RVVNLLDTPGHQDFSE-------DTYRVLTAVDSALVVIDAAKGV----------------EAQTRKLMDVCRMR  151 (548)
T ss_dssp             -----EEEEEECCCCGGGCSH-------HHHHHHHSCSEEEEEEETTTBS----------------CHHHHHHHHHHHHT
T ss_pred             -----EEEEEEeCCCcHHHHH-------HHHHHHHhcCceEEEeecCCCc----------------ccccHHHHHHHHHh
Confidence                 7899999999999876       7778889999999999997765                34568888887777


Q ss_pred             Hh-hhhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEe
Q psy2401         141 EK-YIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFV  205 (363)
Q Consensus       141 ~~-~~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v  205 (363)
                      .. ++.++||+++.+    .+...+++++++.|.....+..+|++.++  .+.++ ++++.+.++|-
T Consensus       152 ~lp~i~fINK~Dr~~----ad~~~~~~~i~~~l~~~~~p~~~Pig~~~--~f~g~vdl~~~~~~~~~  212 (548)
T 3vqt_A          152 ATPVMTFVNKMDREA----LHPLDVMADIEQHLQIECAPMTWPIGMGS--SFKGTYDLLHKQLHLFS  212 (548)
T ss_dssp             TCCEEEEEECTTSCC----CCHHHHHHHHHHHHTSEEEESEEEESCGG--GCCEEEETTTTEEEECC
T ss_pred             CCceEEEEecccchh----cchhHhhhhhhhhcCCceEeEEeeeecCC--cccceEeeeeeeeeecc
Confidence            66 578999996544    35778899999999877666677777665  45555 66777766664

>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A* 1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*

Probab=99.48  E-value=2.3e-13  Score=133.82  Aligned_cols=99  Identities=23%  Similarity=0.187  Sum_probs=62.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC---ccccCCCceeecceeEEEEeCCcc-c--ccccccccc-ccc--cceeEEEEee
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK---ISAENYPFCTIEPNIGIIEVPDKR-L--KHLNNIVKT-KKI--FPAIIKLVDI   73 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~---~~~~~~p~~t~~~~~g~v~~~~~~-~--~~l~~~~~~-~~~--~~~~i~lvDt   73 (363)
                      ++|+++|++++|||||+++|++..   ......++.|++.......+.... .  ......+.. .+.  ....+.+|||
T Consensus        11 ~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~iiDt   90 (410)
T 1kk1_A           11 VNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDA   90 (410)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEEEEC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEEEEEEC
Confidence            689999999999999999999752   223334667777665554442100 0  000000000 000  0157999999


Q ss_pred             ecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          74 AGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        74 pGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ||..+       +...+...+..+|++++|+|+.+
T Consensus        91 PGh~~-------f~~~~~~~~~~~D~~ilVvda~~  118 (410)
T 1kk1_A           91 PGHEA-------LMTTMLAGASLMDGAILVIAANE  118 (410)
T ss_dssp             SSHHH-------HHHHHHHCGGGCSEEEEEEETTS
T ss_pred             CChHH-------HHHHHHhhhhhCCEEEEEEECCC
Confidence            99743       33466777788999999999954

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=99.47  E-value=3.3e-13  Score=119.77  Aligned_cols=83  Identities=20%  Similarity=0.213  Sum_probs=57.4

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .++|+++|++|||||||+++|++.. ....++.++  .....+.+++..              ...+.+|||||......
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~~-~~~~~~~~~--~~~~~~~~~~~~--------------~~~~~i~Dt~G~~~~~~   69 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTGQ-YRDTQTSIT--DSSAIYKVNNNR--------------GNSLTLIDLPGHESLRF   69 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHSC-CCCBCCCCS--CEEEEEECSSTT--------------CCEEEEEECCCCHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC-cccccCCcc--eeeEEEEecCCC--------------ccEEEEEECCCChhHHH
Confidence            3799999999999999999999864 234455333  444456666421              06799999999753211


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            ......++.+|++++|+|+.
T Consensus        70 ------~~~~~~~~~~~~~i~v~d~~   89 (214)
T 2fh5_B           70 ------QLLDRFKSSARAVVFVVDSA   89 (214)
T ss_dssp             ------HHHHHHGGGEEEEEEEEETT
T ss_pred             ------HHHHHHHhhCCEEEEEEECC
Confidence                  01223468899999999984

>1s0u_A EIF-2-gamma, translation initiation factor 2 gamma subunit; GTPase, EF-1A, tRNA; 2.40A {Methanocaldococcus jannaschii} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.47  E-value=4.1e-13  Score=131.93  Aligned_cols=98  Identities=21%  Similarity=0.160  Sum_probs=58.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC---ccccCCCceeecceeEEEEeCCc---cccccccccccc-cc---cceeEEEEe
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK---ISAENYPFCTIEPNIGIIEVPDK---RLKHLNNIVKTK-KI---FPAIIKLVD   72 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~---~~~~~~p~~t~~~~~g~v~~~~~---~~~~l~~~~~~~-~~---~~~~i~lvD   72 (363)
                      ++|+++|++++|||||+++|++..   ......++.|++.......+...   ........+ +. ..   ....+.+||
T Consensus         9 ~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~-~~~g~~~~~~~~i~iiD   87 (408)
T 1s0u_A            9 VNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRC-PNCLAETEFLRRVSFVD   87 (408)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBC-TTSCCBCEEEEEEEEEE
T ss_pred             eEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccc-cccCcccccccEEEEEE
Confidence            689999999999999999999752   22233456677665444333110   000000000 00 00   115799999


Q ss_pred             eecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          73 IAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        73 tpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      |||..+       +...+...+..+|++++|+|+.+
T Consensus        88 tPGh~~-------f~~~~~~~~~~~D~~ilVvda~~  116 (408)
T 1s0u_A           88 SPGHET-------LMATMLSGASLMDGAILVIAANE  116 (408)
T ss_dssp             CSSHHH-------HHHHHHTTCSCCSEEEEEEETTS
T ss_pred             CCCHHH-------HHHHHHHhHhhCCEEEEEEECCC
Confidence            999643       33456677788999999999953

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.46  E-value=5.1e-15  Score=149.70  Aligned_cols=84  Identities=21%  Similarity=0.228  Sum_probs=66.7

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +.+|+++|++|+|||||+++|++........|++|.+.....+.+++.                ..+++|||||...+..
T Consensus         4 ~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~~g----------------~~i~~iDTPGhe~f~~   67 (537)
T 3izy_P            4 SPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLPSG----------------EKITFLDTPGHAAFSA   67 (537)
T ss_dssp             CCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSSCS----------------SCCBCEECSSSCCTTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeCCC----------------CEEEEEECCChHHHHH
Confidence            578999999999999999999987666667888898887777766432                4688999999766544


Q ss_pred             cccchhhHHHhhccccCEEEEEEeccc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      .       ....++.+|++++|+|+.+
T Consensus        68 ~-------~~~~~~~aD~vILVVDa~d   87 (537)
T 3izy_P           68 M-------RARGTQVTDIVILVVAADD   87 (537)
T ss_dssp             S-------BBSSSBSBSSCEEECBSSS
T ss_pred             H-------HHHHHccCCEEEEEEECCC
Confidence            2       2245688999999999954

>1zun_B Sulfate adenylate transferase, subunit 1/adenylylsulfate kinase; beta barrel, switch domain, heterodimer, pyrophosphate, G protein; HET: GDP AGS; 2.70A {Pseudomonas syringae PV} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.46  E-value=2.1e-13  Score=135.05  Aligned_cols=82  Identities=16%  Similarity=0.094  Sum_probs=53.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc-----------ccCCCce----------------------eecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS-----------AENYPFC----------------------TIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~-----------~~~~p~~----------------------t~~~~~g~v~~~~~   49 (363)
                      ++|+++|++|+|||||+++|++....           .+.++++                      |++.....+..++ 
T Consensus        25 ~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~~~~~-  103 (434)
T 1zun_B           25 LRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFSTAK-  103 (434)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEECSS-
T ss_pred             eEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEeecCC-
Confidence            68999999999999999999864211           1112222                      2222222222222 


Q ss_pred             cccccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          50 RLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        50 ~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                                      ..+.+|||||..++       .......++.+|++++|+|+.+
T Consensus       104 ----------------~~~~iiDtpGh~~f-------~~~~~~~~~~aD~~ilVvDa~~  139 (434)
T 1zun_B          104 ----------------RKFIIADTPGHEQY-------TRNMATGASTCDLAIILVDARY  139 (434)
T ss_dssp             ----------------EEEEEEECCCSGGG-------HHHHHHHHTTCSEEEEEEETTT
T ss_pred             ----------------ceEEEEECCChHHH-------HHHHHHHHhhCCEEEEEEECCC
Confidence                            57899999996543       3355667799999999999954

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.45  E-value=4.4e-14  Score=143.51  Aligned_cols=153  Identities=17%  Similarity=0.210  Sum_probs=85.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCC------ceeecceeEEEEeCCccccccccccccccccceeEEEEeeecc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYP------FCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGL   76 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p------~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl   76 (363)
                      +||+++|.+|||||||+|+|++........|      +++..|+.+.+.+.+             ......+.+|||||.
T Consensus        42 ~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~-------------~~~~~~~~i~Dt~G~  108 (535)
T 3dpu_A           42 IKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDD-------------ELKECLFHFWDFGGQ  108 (535)
T ss_dssp             EEEEEESSSCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCS-------------TTTTCEEEEECCCSC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecC-------------CCceEEEEEEECCcH
Confidence            6899999999999999999998754322212      111111111111111             011267999999995


Q ss_pred             cCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCc
Q psy2401          77 VSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNE  156 (363)
Q Consensus        77 ~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~  156 (363)
                      .....    +...+   ++.+|++++|+|++...             +.                               
T Consensus       109 e~~~~----~~~~~---l~~~d~ii~V~D~s~~~-------------~~-------------------------------  137 (535)
T 3dpu_A          109 EIMHA----SHQFF---MTRSSVYMLLLDSRTDS-------------NK-------------------------------  137 (535)
T ss_dssp             CTTTT----TCHHH---HHSSEEEEEEECGGGGG-------------GH-------------------------------
T ss_pred             HHHHH----HHHHH---ccCCcEEEEEEeCCCch-------------hH-------------------------------
Confidence            44333    22334   46799999999985310             00                               


Q ss_pred             hhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEe
Q psy2401         157 HSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIII  236 (363)
Q Consensus       157 ~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~  236 (363)
                           ...+.                       .+..+.  ..+|+++|+||+|.........+.+++.+...+.+++++
T Consensus       138 -----~~~~~-----------------------~l~~~~--~~~pvilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~v  187 (535)
T 3dpu_A          138 -----HYWLR-----------------------HIEKYG--GKSPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRI  187 (535)
T ss_dssp             -----HHHHH-----------------------HHHHHS--SSCCEEEEECCTTTCTTCCCCHHHHHHHCGGGTTCEEEC
T ss_pred             -----HHHHH-----------------------HHHHhC--CCCCEEEEEECCCcccccccCHHHHHHHHHhcCCceEEE
Confidence                 00011                       111121  357999999999974212223566777777778889999


Q ss_pred             eHHHHHHHhcCCH
Q psy2401         237 CAKLEEEISDLNN  249 (363)
Q Consensus       237 sa~~e~~i~el~~  249 (363)
                      ||+...++.++..
T Consensus       188 SA~~g~gi~eL~~  200 (535)
T 3dpu_A          188 SCKNGDGVESIAK  200 (535)
T ss_dssp             CC-----CTTHHH
T ss_pred             ecCcccCHHHHHH
Confidence            9998777666543

>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger, initiate translation, tRNA binding, mRNA bindin binding; HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB: 3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A* 3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*

Probab=99.45  E-value=2.9e-13  Score=132.84  Aligned_cols=94  Identities=20%  Similarity=0.207  Sum_probs=55.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc-cccCCCceeecceeEEEEeCCcccccc-----ccccccc--cccceeEEEEeee
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI-SAENYPFCTIEPNIGIIEVPDKRLKHL-----NNIVKTK--KIFPAIIKLVDIA   74 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~-~~~~~p~~t~~~~~g~v~~~~~~~~~l-----~~~~~~~--~~~~~~i~lvDtp   74 (363)
                      ++|+++|++|+|||||+|+|++... ....++.++....     .........     ...+...  ......+.+||||
T Consensus         9 ~~I~vvG~~~~GKSTLi~~L~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiDtP   83 (403)
T 3sjy_A            9 VNIGVVGHVDHGKTTLVQAITGIWTSKKLGYAETNIGVC-----ESCKKPEAYVTEPSCKSCGSDDEPKFLRRISFIDAP   83 (403)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHSCCCCSSSEEEEEEEEEC-----TTSCTTTTEESSSCCGGGTCCSCCEEEEEEEEEECC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcccccccCccccceeec-----cccccccceecccccccccccccccccceEEEEECC
Confidence            7899999999999999999998522 2222222221100     000000000     0000000  0111578999999


Q ss_pred             cccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          75 GLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        75 Gl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      |..+       +.......++.+|++++|+|+.+
T Consensus        84 Gh~~-------~~~~~~~~~~~~D~~ilVvda~~  110 (403)
T 3sjy_A           84 GHEV-------LMATMLSGAALMDGAILVVAANE  110 (403)
T ss_dssp             CCGG-------GHHHHHHHHTTCSEEEEEEETTS
T ss_pred             CcHH-------HHHHHHHHHhhCCEEEEEEECCC
Confidence            9533       34567778899999999999964

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.45  E-value=7.1e-13  Score=122.34  Aligned_cols=88  Identities=18%  Similarity=0.234  Sum_probs=67.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      ++|+++|++|+|||||+|+|++.. +.+++++++|..+....+.+++                 ..+.+|||||+.++..
T Consensus        37 ~~I~lvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~-----------------~~l~liDTpG~~~~~~   99 (262)
T 3def_A           37 MTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTMGG-----------------FTINIIDTPGLVEAGY   99 (262)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTSCCSCCCSSCC-CCCCEEEEEEETT-----------------EEEEEEECCCSEETTE
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcceeeEEEEEEECC-----------------eeEEEEECCCCCCccc
Confidence            689999999999999999999985 4688899999999888888887                 6899999999987654


Q ss_pred             cccchhhHHHhhc--cccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHI--RETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~--~~aD~il~Vvda~  107 (363)
                      ..+...+.+...+  ..+|++++|+++.
T Consensus       100 ~~~~~~~~i~~~l~~~~~~~il~V~~~d  127 (262)
T 3def_A          100 VNHQALELIKGFLVNRTIDVLLYVDRLD  127 (262)
T ss_dssp             ECHHHHHHHHHHTTTCEECEEEEEEESS
T ss_pred             chHHHHHHHHHHHhcCCCCEEEEEEcCC
Confidence            4332211121111  2789999998873

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=99.44  E-value=3.8e-13  Score=126.90  Aligned_cols=42  Identities=19%  Similarity=0.288  Sum_probs=29.0

Q ss_pred             eeEEEEeeecccCCCC------cccchhhHHHhhccccCEEEEEEecc
Q psy2401          66 AIIKLVDIAGLVSGAS------KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        66 ~~i~lvDtpGl~~~~~------~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .++.+|||||+.....      ..+.+......+++.+|++++|+|+.
T Consensus       131 ~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~  178 (315)
T 1jwy_B          131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPA  178 (315)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEES
T ss_pred             CCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEec
Confidence            4799999999975221      11234456667889999999999973

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.44  E-value=3.1e-13  Score=131.13  Aligned_cols=72  Identities=13%  Similarity=0.137  Sum_probs=58.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      +|+++|++|+|||||+++|+        .++.|++.....+.+++                 .++++|||||+.++    
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~--------~~giTi~~~~~~~~~~~-----------------~~i~iiDtPGh~~f----   73 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG--------KKGTSSDITMYNNDKEG-----------------RNMVFVDAHSYPKT----   73 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS--------EEEEESSSEEEEECSSS-----------------SEEEEEECTTTTTC----
T ss_pred             EEEEECCCCCCHHHHHHHHH--------hCCEEEEeeEEEEecCC-----------------eEEEEEECCChHHH----
Confidence            89999999999999999999        24567777766666665                 67999999998653    


Q ss_pred             cchhhHHHhhccccCEEEEEEeccc
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                         .......++.+|++++|+| ..
T Consensus        74 ---~~~~~~~~~~aD~ailVvd-~~   94 (370)
T 2elf_A           74 ---LKSLITALNISDIAVLCIP-PQ   94 (370)
T ss_dssp             ---HHHHHHHHHTCSEEEEEEC-TT
T ss_pred             ---HHHHHHHHHHCCEEEEEEc-CC
Confidence               2356677799999999999 53

>2dy1_A Elongation factor G; translocation, GTP complex, structural genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1wdt_A*

Probab=99.43  E-value=7.4e-13  Score=137.77  Aligned_cols=224  Identities=13%  Similarity=0.042  Sum_probs=141.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc------------ccC------CCceeecceeEEEEeCCcccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS------------AEN------YPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF   64 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~------------~~~------~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~   64 (363)
                      .+|+|+|++|+|||||+++|++....            ..+      ..+.|+.+....+.+.+                
T Consensus        10 ~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~~----------------   73 (665)
T 2dy1_A           10 RTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRG----------------   73 (665)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETT----------------
T ss_pred             cEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeCC----------------
Confidence            58999999999999999999853211            011      12334444444444444                


Q ss_pred             ceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-h
Q psy2401          65 PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-Y  143 (363)
Q Consensus        65 ~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~  143 (363)
                       ..+++|||||..++       .......++.+|++++|+|+.++..                .+++..+..+..... .
T Consensus        74 -~~~nliDTpG~~~f-------~~~~~~~l~~ad~~ilVvD~~~g~~----------------~qt~~~~~~~~~~~ip~  129 (665)
T 2dy1_A           74 -HRVFLLDAPGYGDF-------VGEIRGALEAADAALVAVSAEAGVQ----------------VGTERAWTVAERLGLPR  129 (665)
T ss_dssp             -EEEEEEECCCSGGG-------HHHHHHHHHHCSEEEEEEETTTCSC----------------HHHHHHHHHHHHTTCCE
T ss_pred             -EEEEEEeCCCccch-------HHHHHHHHhhcCcEEEEEcCCcccc----------------hhHHHHHHHHHHccCCE
Confidence             67999999997653       2366777899999999999854321                112223333333233 3


Q ss_pred             hhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEeccccccCCCchHHHHHH
Q psy2401         144 IDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFVANVKENGFKNNLLLDQL  222 (363)
Q Consensus       144 ~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v~Nk~d~~~~~~~~~~~i  222 (363)
                      +..+||++.. .    .....++++.+.+. ...+..+|++..+  .+.++ +++..+++.|--.+......+....+..
T Consensus       130 ilv~NKiD~~-~----~~~~~~~~l~~~l~-~~~~~~~Pi~~~~--~~~g~~d~~~~~~~~~~~g~~~~~~~~~~~~~~~  201 (665)
T 2dy1_A          130 MVVVTKLDKG-G----DYYALLEDLRSTLG-PILPIDLPLYEGG--KWVGLIDVFHGKAYRYENGEEREAEVPPEERERV  201 (665)
T ss_dssp             EEEEECGGGC-C----CHHHHHHHHHHHHC-SEEECEEEEEETT--EEEEEEETTTTEEEEEETTEEEEECCCGGGHHHH
T ss_pred             EEEecCCchh-h----hHHHHHHHHHHHhC-CcceEEeeecCCC--cccchhhhhhhheeecCCCceeEecCCHHHHHHH
Confidence            5678888543 1    23456666766666 3333334544322  23334 4555666655321111001234455555


Q ss_pred             HHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeC
Q psy2401         223 KIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTV  285 (363)
Q Consensus       223 ~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~  285 (363)
                      +.+           ..++-+.+++.+++.+++||++..++.+.+...+++.+....++|+|..
T Consensus       202 ~~~-----------r~~l~e~~~~~d~~l~e~~l~~~~l~~~~~~~~~~~~~~~~~~~pv~~~  253 (665)
T 2dy1_A          202 QRF-----------RQEVLEAIVETDEGLLEKYLEGEEVTGEALEKAFHEAVRRGLLYPVALA  253 (665)
T ss_dssp             HHH-----------HHHHHHHHHTTCHHHHHHHHHTCCCCHHHHHHHHHHHHHTTSCEEEEEC
T ss_pred             HHH-----------HHHHHHHHHhCCHHHHHHHHCCCCCCHHHHHHHHHHHHHhCCeeEEEEe
Confidence            444           4556777899999999999999999999999999999988899999876

>1jny_A EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-1; GTPase, alpha/beta structure, protein biosynthesis, translation; HET: GDP; 1.80A {Sulfolobus solfataricus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1skq_A* 3agj_A*

Probab=99.42  E-value=9.7e-14  Score=137.56  Aligned_cols=82  Identities=23%  Similarity=0.190  Sum_probs=54.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC--Ccc-----------------------------ccCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL--KIS-----------------------------AENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~--~~~-----------------------------~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      ++|+++|++|+|||||+++|++.  ...                             ....+++|++.....+..++   
T Consensus         7 ~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~~~~~~~~~~~---   83 (435)
T 1jny_A            7 LNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETKK---   83 (435)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEECSS---
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeEeeEEEEecCC---
Confidence            68999999999999999999853  110                             00135667766655566555   


Q ss_pred             cccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          52 KHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        52 ~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                                    ..+.+|||||+.++       .......++.+|++++|+|+.+
T Consensus        84 --------------~~~~iiDtpG~~~f-------~~~~~~~~~~aD~~ilVvDa~~  119 (435)
T 1jny_A           84 --------------YFFTIIDAPGHRDF-------VKNMITGASQADAAILVVSAKK  119 (435)
T ss_dssp             --------------CEEEECCCSSSTTH-------HHHHHHTSSCCSEEEEEEECST
T ss_pred             --------------eEEEEEECCCcHHH-------HHHHHhhhhhcCEEEEEEECCC
Confidence                          67999999997543       3356678899999999999953

>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation factor, protein synthesis, antibiotic, GTP-binding, nucleotide-binding; HET: GNP PUL; 1.4A {Thermus thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z* 2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A* 2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...

Probab=99.42  E-value=7.7e-13  Score=129.81  Aligned_cols=82  Identities=22%  Similarity=0.151  Sum_probs=58.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC---Cc---c-----cc------CCCceeecceeEEEEeCCccccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL---KI---S-----AE------NYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFP   65 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~---~~---~-----~~------~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~   65 (363)
                      ++|+++|++|+|||||+++|++.   ..   .     ..      ..++.|++.....+...+                 
T Consensus        12 ~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~-----------------   74 (405)
T 2c78_A           12 VNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAK-----------------   74 (405)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSS-----------------
T ss_pred             EEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEeccCC-----------------
Confidence            68999999999999999999973   10   0     00      123556555443344433                 


Q ss_pred             eeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          66 AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        66 ~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ..+.+|||||+.++       .......++.+|++++|+|+.+
T Consensus        75 ~~~~iiDtpG~~~f-------~~~~~~~~~~aD~~ilVvda~~  110 (405)
T 2c78_A           75 RHYSHVDCPGHADY-------IKNMITGAAQMDGAILVVSAAD  110 (405)
T ss_dssp             CEEEEEECCCSGGG-------HHHHHHHHTTCSSEEEEEETTT
T ss_pred             eEEEEEECCChHHH-------HHHHHHHHHHCCEEEEEEECCC
Confidence            67899999997643       3466677889999999999954

>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET: GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W* 3zvo_Y* 3uoq_W*

Probab=99.40  E-value=6.3e-13  Score=134.68  Aligned_cols=82  Identities=16%  Similarity=0.215  Sum_probs=57.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccc----------------c------CCCceeecceeEEEEeCCcccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISA----------------E------NYPFCTIEPNIGIIEVPDKRLKHLNNIVKT   60 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~----------------~------~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~   60 (363)
                      .+|+++|++|+|||||+++|++.....                .      ..++.|+......+.+.+            
T Consensus        14 ~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~------------   81 (529)
T 2h5e_A           14 RTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFPYHD------------   81 (529)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEEEETT------------
T ss_pred             CEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEEEECC------------
Confidence            689999999999999999998631111                1      123444444445555555            


Q ss_pred             ccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          61 KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        61 ~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                           ..+++|||||+.++..       .....++.+|++++|+|+.+
T Consensus        82 -----~~i~liDTPG~~df~~-------~~~~~l~~aD~~IlVvDa~~  117 (529)
T 2h5e_A           82 -----CLVNLLDTPGHEDFSE-------DTYRTLTAVDCCLMVIDAAK  117 (529)
T ss_dssp             -----EEEEEECCCCSTTCCH-------HHHHGGGGCSEEEEEEETTT
T ss_pred             -----eEEEEEECCCChhHHH-------HHHHHHHHCCEEEEEEeCCc
Confidence                 6899999999866543       56677899999999999954

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.39  E-value=1.8e-12  Score=120.17  Aligned_cols=88  Identities=18%  Similarity=0.200  Sum_probs=66.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      ++|+++|.+|+|||||+|+|++.. ..+++++++|..+....+...+                 ..+.+|||||+.++..
T Consensus        40 ~~I~vvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~-----------------~~l~iiDTpG~~~~~~  102 (270)
T 1h65_A           40 LTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAG-----------------FTLNIIDTPGLIEGGY  102 (270)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETT-----------------EEEEEEECCCSEETTE
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeeEEEEEeeCC-----------------eEEEEEECCCCCCCcc
Confidence            689999999999999999999875 4578888888888777776665                 6799999999977543


Q ss_pred             cccchhhHHHh--hccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLA--HIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~--~~~~aD~il~Vvda~  107 (363)
                      ........+..  ..+.+|++++|+|+.
T Consensus       103 ~~~~~~~~i~~~~~~~~~d~il~v~~~d  130 (270)
T 1h65_A          103 INDMALNIIKSFLLDKTIDVLLYVDRLD  130 (270)
T ss_dssp             ECHHHHHHHHHHTTTCEECEEEEEEESS
T ss_pred             chHHHHHHHHHHhhcCCCCEEEEEEeCC
Confidence            32211112111  124799999998873

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=99.38  E-value=4.9e-13  Score=123.02  Aligned_cols=41  Identities=22%  Similarity=0.374  Sum_probs=30.4

Q ss_pred             ccccEEEeccccccCCCchHHHHHHHHHHhc-CCCcEEEeeHHH
Q psy2401         198 TIKPIIFVANVKENGFKNNLLLDQLKIYAHN-QNIPIIIICAKL  240 (363)
Q Consensus       198 ~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~-~~~~~i~~sa~~  240 (363)
                      ...|+++|+||.|+.  .....+.+++++.. .+.+++.+||+.
T Consensus       197 ~~~piilV~NK~Dl~--~~~~v~~~~~~~~~~~~~~~~e~SAk~  238 (255)
T 3c5h_A          197 TKKPIVVVLTKCDEG--VERYIRDAHTFALSKKNLQVVETSARS  238 (255)
T ss_dssp             TTCCEEEEEECGGGB--CHHHHHHHHHHHHTSSSCCEEECBTTT
T ss_pred             CCCCEEEEEEccccc--ccHHHHHHHHHHHhcCCCeEEEEECCC
Confidence            468999999999964  23334566676665 478899999984

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.38  E-value=1.3e-12  Score=133.99  Aligned_cols=87  Identities=14%  Similarity=0.063  Sum_probs=51.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccc---------c------CCCceeecceeEEEEeCCcccccccccccccccccee
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISA---------E------NYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAI   67 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~---------~------~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~   67 (363)
                      ++|+|+|++|+|||||+++|+.....+         .      ...+.|+......+.|.+.            ......
T Consensus         5 rnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~------------~g~~~~   72 (599)
T 3cb4_D            5 RNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKAS------------DGETYQ   72 (599)
T ss_dssp             EEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECT------------TSCEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecC------------CCCeEE
Confidence            589999999999999999997531111         1      1235566555555555320            000167


Q ss_pred             EEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          68 IKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        68 i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      +++|||||+.++.       ......++.+|++++|+|+.+
T Consensus        73 l~liDTPGh~dF~-------~ev~~~l~~aD~aILVVDa~~  106 (599)
T 3cb4_D           73 LNFIDTPGHVDFS-------YEVSRSLAACEGALLVVDAGQ  106 (599)
T ss_dssp             EEEEECCCCGGGH-------HHHHHHHHHCSEEEEEEETTT
T ss_pred             EEEEECCCchHHH-------HHHHHHHHHCCEEEEEEECCC
Confidence            9999999986543       355667789999999999964

>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus} PDB: 2ywf_A* 2ywg_A* 2ywh_A*

Probab=99.37  E-value=2e-12  Score=132.35  Aligned_cols=87  Identities=16%  Similarity=0.050  Sum_probs=54.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc---------ccC------CCceeecceeEEEEeCCcccccccccccccccccee
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS---------AEN------YPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAI   67 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~---------~~~------~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~   67 (363)
                      .+|+|+|++|+|||||+++|+.....         ..+      ..+.|+......+.+.+.            ......
T Consensus         7 rnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~------------dg~~~~   74 (600)
T 2ywe_A            7 RNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAK------------DGNTYK   74 (600)
T ss_dssp             EEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECT------------TSCEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcC------------CCCeEE
Confidence            58999999999999999999753110         011      134566555555555320            000157


Q ss_pred             EEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          68 IKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        68 i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      +++|||||+.++..       .....++.+|++++|+|+.+
T Consensus        75 inliDTPGh~dF~~-------ev~r~l~~aD~aILVVDa~~  108 (600)
T 2ywe_A           75 LHLIDTPGHVDFSY-------EVSRALAACEGALLLIDASQ  108 (600)
T ss_dssp             EEEECCCCSGGGHH-------HHHHHHHTCSEEEEEEETTT
T ss_pred             EEEEECCCcHhHHH-------HHHHHHHhCCEEEEEEECCC
Confidence            99999999876432       55566789999999999964

>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*

Probab=99.37  E-value=3.1e-12  Score=125.21  Aligned_cols=82  Identities=21%  Similarity=0.150  Sum_probs=57.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc----------------ccCCCceeecceeEEEEeCCccccccccccccccccce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS----------------AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA   66 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~----------------~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~   66 (363)
                      ++|+++|++|+|||||+++|++....                ....++.|++.....+...+                 .
T Consensus         4 ~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~~~~~~~~~-----------------~   66 (397)
T 1d2e_A            4 VNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAA-----------------R   66 (397)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSS-----------------C
T ss_pred             EEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEeeeEEeccCC-----------------e
Confidence            68999999999999999999874110                00123445554333333333                 5


Q ss_pred             eEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          67 IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        67 ~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      .+.+|||||+.++       .......++.+|++++|+|+.+
T Consensus        67 ~~~iiDtpG~~~f-------~~~~~~~~~~aD~~ilVvda~~  101 (397)
T 1d2e_A           67 HYAHTDCPGHADY-------VKNMITGTAPLDGCILVVAAND  101 (397)
T ss_dssp             EEEEEECSSHHHH-------HHHHHHTSSCCSEEEEEEETTT
T ss_pred             EEEEEECCChHHH-------HHHHHhhHhhCCEEEEEEECCC
Confidence            7899999997542       2355677889999999999964

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.36  E-value=5.5e-13  Score=124.69  Aligned_cols=25  Identities=16%  Similarity=0.329  Sum_probs=23.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI   27 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~   27 (363)
                      .+|+++|.+|||||||+|+|++...
T Consensus        27 ~~i~vvG~~~~GKSSLln~l~g~~~   51 (299)
T 2aka_B           27 PQIAVVGGQSAGKSSVLENFVGRDF   51 (299)
T ss_dssp             CEEEEEEBTTSCHHHHHHHHHTSCC
T ss_pred             CeEEEEeCCCCCHHHHHHHHHCCCc
Confidence            5899999999999999999999754

>1f60_A Elongation factor EEF1A; protein-protein complex, translation; 1.67A {Saccharomyces cerevisiae} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1g7c_A* 1ije_A* 1ijf_A* 2b7b_A* 2b7c_A

Probab=99.36  E-value=3.4e-13  Score=134.49  Aligned_cols=81  Identities=20%  Similarity=0.188  Sum_probs=60.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC--cc-----------------------ccC------CCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK--IS-----------------------AEN------YPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~--~~-----------------------~~~------~p~~t~~~~~g~v~~~~~~~   51 (363)
                      ++|+++|++|+|||||+|+|++..  ..                       +.+      .++.|++.....+..++   
T Consensus         8 ~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~~~~~~~~~---   84 (458)
T 1f60_A            8 INVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK---   84 (458)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSS---
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEEEEEEecCC---
Confidence            689999999999999999998631  10                       001      14567776666666555   


Q ss_pred             cccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecc
Q psy2401          52 KHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        52 ~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                                    .++.+|||||+.+       +.......++.+|++++|+|+.
T Consensus        85 --------------~~~~iiDtPGh~~-------f~~~~~~~~~~aD~~ilVvda~  119 (458)
T 1f60_A           85 --------------YQVTVIDAPGHRD-------FIKNMITGTSQADCAILIIAGG  119 (458)
T ss_dssp             --------------EEEEEEECCCCTT-------HHHHHHHSSSCCSEEEEEEECS
T ss_pred             --------------ceEEEEECCCcHH-------HHHHHHhhhhhCCEEEEEEeCC
Confidence                          6799999999643       3446677789999999999995

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.36  E-value=2e-12  Score=125.06  Aligned_cols=44  Identities=11%  Similarity=-0.041  Sum_probs=27.3

Q ss_pred             ccccEEEeccccccCCCchHH---HHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         198 TIKPIIFVANVKENGFKNNLL---LDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       198 ~~kp~i~v~Nk~d~~~~~~~~---~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      ...|+|+|+||+|.. ...+.   .+.+.+++...+.+++++||+...
T Consensus       173 ~~~piIlV~NK~Dl~-~~~ev~~~k~~i~~~~~~~~i~~~~~Sa~~~~  219 (361)
T 2qag_A          173 NKVNIVPVIAKADTL-TLKERERLKKRILDEIEEHNIKIYHLPDAESD  219 (361)
T ss_dssp             S-SCEEEEEECCSSS-CHHHHHHHHHHHHHHTTCC-CCSCCCC-----
T ss_pred             cCCCEEEEEECCCCC-CHHHHHHHHHHHHHHHHHCCCCEEeCCCcCCC
Confidence            467999999999974 22222   246677777778899999998543

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.36  E-value=1.2e-13  Score=141.68  Aligned_cols=82  Identities=17%  Similarity=0.138  Sum_probs=39.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-cc------------------------------ccCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-IS------------------------------AENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~------------------------------~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      ++|+++|++|+|||||+|+|++.. ..                              ....+++|++.....+..++   
T Consensus       178 ~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~~~~~~~~~---  254 (592)
T 3mca_A          178 VHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVASTTFESDK---  254 (592)
T ss_dssp             EEEEEECCSSSTHHHHHHHHHHHHHCC-----------------------------------------------------
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEeeEEEEEeCC---
Confidence            579999999999999999996421 00                              01135667766666666555   


Q ss_pred             cccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          52 KHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        52 ~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                                    ..+.||||||+.++..       .....++.+|++|+|||+.+
T Consensus       255 --------------~~i~iiDTPGh~~f~~-------~~~~~~~~aD~alLVVDa~~  290 (592)
T 3mca_A          255 --------------KIYEIGDAPGHRDFIS-------GMIAGASSADFAVLVVDSSQ  290 (592)
T ss_dssp             ------------------CCEEESSSEEEE-------ECCC-------CCSEEEEEE
T ss_pred             --------------eEEEEEECCChHHHHH-------HHHHHHhhCCEEEEEEECCC
Confidence                          5789999999865433       33456688999999999964

>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation of protein synthesis, cryo-eletron microscopy, translation/RNA complex; 13.80A {Escherichia coli}

Probab=99.35  E-value=3.9e-14  Score=142.15  Aligned_cols=83  Identities=18%  Similarity=0.203  Sum_probs=63.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +.+|+++|++++|||||+++|++.....+..+++|.+.....+.+++                 ..+++|||||+.++..
T Consensus         4 ~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~~~-----------------~~i~~iDTPGhe~f~~   66 (501)
T 1zo1_I            4 APVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETEN-----------------GMITFLDTPGHAAFTS   66 (501)
T ss_dssp             CCCEEEEESTTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCTTS-----------------SCCCEECCCTTTCCTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEECC-----------------EEEEEEECCCcHHHHH
Confidence            46899999999999999999997655555557777776655555555                 5689999999876654


Q ss_pred             cccchhhHHHhhccccCEEEEEEeccc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ..       ...++.+|++++|+|+.+
T Consensus        67 ~~-------~~~~~~aD~aILVVda~~   86 (501)
T 1zo1_I           67 MR-------ARGAQATDIVVLVVAADD   86 (501)
T ss_dssp             SB-------CSSSBSCSSEEEEEETTT
T ss_pred             HH-------HHHHhhCCEEEEEeeccc
Confidence            32       245688999999999854

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.35  E-value=8.5e-13  Score=136.70  Aligned_cols=197  Identities=15%  Similarity=0.116  Sum_probs=130.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHH---cCCc---------cccCC------CceeecceeEEEEeCCcccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALT---KLKI---------SAENY------PFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF   64 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt---~~~~---------~~~~~------p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~   64 (363)
                      ++|||+||.++|||||..+|.   |...         ...++      .+.|+......+.|++                
T Consensus         3 RNi~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~~~~----------------   66 (638)
T 3j25_A            3 INIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWEN----------------   66 (638)
T ss_dssp             CCCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCBCSS----------------
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEEECC----------------
Confidence            579999999999999999995   3211         11222      2667777666777777                


Q ss_pred             ceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-h
Q psy2401          65 PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-Y  143 (363)
Q Consensus        65 ~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~  143 (363)
                       ..++++||||..++..       +..+.++.+|.+|+||||.++..                .+++..|+.+..... +
T Consensus        67 -~~iNlIDTPGH~DF~~-------Ev~raL~~~DgavlVVDa~~GV~----------------~qT~~v~~~a~~~~lp~  122 (638)
T 3j25_A           67 -TKVNIIDTPGHMDFLA-------EVYRSLSVLDGAILLISAKDGVQ----------------AQTRILFHALRKMGIPT  122 (638)
T ss_dssp             -CBCCCEECCCSSSTHH-------HHHHHHTTCSEEECCEESSCTTC----------------SHHHHHHHHHHHHTCSC
T ss_pred             -EEEEEEECCCcHHHHH-------HHHHHHHHhCEEEEEEeCCCCCc----------------HHHHHHHHHHHHcCCCe
Confidence             6799999999988765       77788899999999999976542                345777777666655 4


Q ss_pred             hhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHH
Q psy2401         144 IDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLK  223 (363)
Q Consensus       144 ~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~  223 (363)
                      +.++||+++.+.    +...+++++++.|....                           ++.++.|.-  ++..     
T Consensus       123 i~~INKmDr~~a----~~~~~~~~i~~~l~~~~---------------------------~~~~~~~~~--~~~~-----  164 (638)
T 3j25_A          123 IFFINKIDQNGI----DLSTVYQDIKEKLSAEI---------------------------VIKQKVELY--PNVC-----  164 (638)
T ss_dssp             EECCEECCSSSC----CSHHHHHHHHHTTCCCC---------------------------CCCCCCCSC--GGGC-----
T ss_pred             EEEEeccccccC----CHHHHHHHHHHHhCCCc---------------------------cccceeEee--cccc-----
Confidence            677888855432    34455555555554211                           011122210  0000     


Q ss_pred             HHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeC
Q psy2401         224 IYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTV  285 (363)
Q Consensus       224 ~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~  285 (363)
                             . .-...+...+.+++.+++.++.|+++..++...+...+...+....+.|+|-.
T Consensus       165 -------~-~~~~~~~~~e~~~e~~d~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~Pv~~g  218 (638)
T 3j25_A          165 -------V-TNFTESEQWDTVIEGNDDLLEKYMSGKSLEALELEQEESIRFQNCSLFPLYHG  218 (638)
T ss_dssp             -------C-CCCCCHHHHHHHHHHHCHHHHHHHHHCCCCSHHHHHHHHHHHHHTSCCCCCCC
T ss_pred             -------c-cccchhhhhhhhhcccHHHHhhhccCCccchHHHHHHHhhhhccccccccccc
Confidence                   0 00012333445566667888899999888888888888888888888888865

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=99.32  E-value=6.8e-12  Score=121.11  Aligned_cols=105  Identities=17%  Similarity=0.228  Sum_probs=60.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccc-------------------------
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNI-------------------------   57 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~-------------------------   57 (363)
                      .+|+++|.+|||||||+|+|+|..........+|..|..-..............+                         
T Consensus        35 p~I~vvG~~~sGKSSLln~l~g~~~lp~~~~~vT~~p~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~~~~~~  114 (360)
T 3t34_A           35 PAIAVVGGQSSGKSSVLESIVGKDFLPRGSGIVTRRPLVLQLQKIDDGTREYAEFLHLPRKKFTDFAAVRKEIQDETDRE  114 (360)
T ss_dssp             CEEEEECBTTSSHHHHHHHHHTSCCSCCCSSSCCCSCEEEEEEECSSCSCCEEEETTSTTCCBSCHHHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCcCCCCCCcccCcceEEEEecCCCcccceeeeecCCCcccCCHHHHHHHHHHHHHHh
Confidence            3799999999999999999999754333333344444332221110000000000                         


Q ss_pred             ------cccc-------cccceeEEEEeeecccCCCCcc------cchhhHHHhhccccCEEEEEEecc
Q psy2401          58 ------VKTK-------KIFPAIIKLVDIAGLVSGASKG------EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        58 ------~~~~-------~~~~~~i~lvDtpGl~~~~~~~------~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            +.+.       ......+.+|||||+......+      ..+...+..+++.+|++++|+++.
T Consensus       115 ~g~~~~~s~~~i~l~i~~~~~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~  183 (360)
T 3t34_A          115 TGRSKAISSVPIHLSIYSPNVVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPA  183 (360)
T ss_dssp             SCTTCCCCCSCEEEEEEETTSCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEET
T ss_pred             cCCCCCcccceEEEEEeCCCCCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecc
Confidence                  0000       0011368999999998753321      122345567789999999999874

>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET: GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP: b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*

Probab=99.32  E-value=1.1e-11  Score=127.10  Aligned_cols=97  Identities=11%  Similarity=0.086  Sum_probs=56.2

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCC-ceeecceeEEEEeCCcccccccc-cccc--ccccceeEEEEeeeccc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYP-FCTIEPNIGIIEVPDKRLKHLNN-IVKT--KKIFPAIIKLVDIAGLV   77 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p-~~t~~~~~g~v~~~~~~~~~l~~-~~~~--~~~~~~~i~lvDtpGl~   77 (363)
                      +.+|+++|++|+|||||+++|++.... ...| +.|.+.....+.+..  ...... ....  .......+++|||||+.
T Consensus         5 ~~~V~IvGh~d~GKTTLl~~L~~~~v~-~~e~ggiT~~ig~~~~~~~~--~~~~~~~~~~~~~v~~~~~~i~liDTPGhe   81 (594)
T 1g7s_A            5 SPIVSVLGHVDHGKTTLLDHIRGSAVA-SREAGGITQHIGATEIPMDV--IEGICGDFLKKFSIRETLPGLFFIDTPGHE   81 (594)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHS-CC----CCCBTTEEEEEHHH--HHHHSCGGGGGCGGGGTCCEEEEECCCTTS
T ss_pred             CcEEEEECCCCCcHHHHHHHHhcccCc-cccCCceecccCeEEEeech--hhhhccccccccccccccCCEEEEECCCcH
Confidence            468999999999999999999975322 1112 334333222332210  000000 0000  00011259999999987


Q ss_pred             CCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          78 SGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        78 ~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ++.....       ..++.+|++++|+|+.+
T Consensus        82 ~F~~~~~-------r~~~~aD~aILVvDa~~  105 (594)
T 1g7s_A           82 AFTTLRK-------RGGALADLAILIVDINE  105 (594)
T ss_dssp             CCTTSBC-------SSSBSCSEEEEEEETTT
T ss_pred             HHHHHHH-------HHHhhCCEEEEEEECCC
Confidence            7655322       44688999999999964

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.32  E-value=4.2e-12  Score=132.70  Aligned_cols=101  Identities=19%  Similarity=0.246  Sum_probs=61.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeeccee--------EEEEeCCcc-ccc------------------
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNI--------GIIEVPDKR-LKH------------------   53 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~--------g~v~~~~~~-~~~------------------   53 (363)
                      +++|+++|.+|+|||||+|+|+|.. +.+++.|+|. .+..        .++.+.+.. ...                  
T Consensus        69 ~~~V~VvG~~naGKSSLlNaLlg~~~~~v~~~p~T~-~~~~i~~g~~~~~t~~~~~g~~~~~~~~~~i~~~~~i~~~~~~  147 (695)
T 2j69_A           69 VFRLLVLGDMKRGKSTFLNALIGENLLPSDVNPCTA-VLTVLRYGPEKKVTIHFNDGKSPQQLDFQNFKYKYTIDPAEAK  147 (695)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHTSSCSCCCCCTTTC-CCEEEEECSSCEEEEEESSSCCCCEEEHHHHHHHSCCCHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCCCCCCCCcc-ceEEEEeCCCCeEEEEEcCCCcccccChhhhhhhhcCCHHHHH
Confidence            4689999999999999999999985 4566666552 1110        011111100 000                  


Q ss_pred             --------------cccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecc
Q psy2401          54 --------------LNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        54 --------------l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                                    ...++.|.......+.+|||||+.....    ........++.+|++++|+|++
T Consensus       148 ~l~~~~~~~~~~v~~i~i~~p~~~l~~~l~LiDTPGl~~~~~----~~~~~~~~i~~aD~vL~Vvda~  211 (695)
T 2j69_A          148 KLEQEKKQAFPDVDYAVVEYPLTLLQKGIEIVDSPGLNDTEA----RNELSLGYVNNCHAILFVMRAS  211 (695)
T ss_dssp             HHHTSSCCSCTTEEEEEEEECCHHHHTTEEEEECCCHHHHHT----CHHHHTHHHHSSSEEEEEEETT
T ss_pred             HHhhccccccccceEEEEEccchhccCCeEEEECCCCCchhh----HHHHHHHHHHhCCEEEEEEeCC
Confidence                          0011222222224699999999875321    2245567779999999999985

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.31  E-value=2.1e-12  Score=114.92  Aligned_cols=77  Identities=19%  Similarity=0.235  Sum_probs=50.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccc---cCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISA---ENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~---~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      .+|+++|++|||||||+++|++.....   +..|.++...       .+                 ..+.+|||||....
T Consensus        13 ~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~-------~~-----------------~~~~l~Dt~G~~~~   68 (218)
T 1nrj_B           13 PSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY-------DG-----------------SGVTLVDFPGHVKL   68 (218)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTG-------GG-----------------SSCEEEECCCCGGG
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEe-------eC-----------------ceEEEEECCCcHHH
Confidence            689999999999999999999864322   1222222111       11                 57899999998544


Q ss_pred             CCcccchhhHHH-hhccccCEEEEEEecc
Q psy2401          80 ASKGEGLGNKFL-AHIRETNIVIHVIRCF  107 (363)
Q Consensus        80 ~~~~~~l~~~~l-~~~~~aD~il~Vvda~  107 (363)
                      ..    ....++ ..+..+|++++|+|+.
T Consensus        69 ~~----~~~~~~~~~~~~~~~~i~v~D~~   93 (218)
T 1nrj_B           69 RY----KLSDYLKTRAKFVKGLIFMVDST   93 (218)
T ss_dssp             TH----HHHHHHHHHGGGEEEEEEEEETT
T ss_pred             HH----HHHHHHHhccccCCEEEEEEECC
Confidence            32    112222 1223489999999985

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=99.30  E-value=8.8e-12  Score=110.05  Aligned_cols=86  Identities=22%  Similarity=0.260  Sum_probs=49.3

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCC--ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLK--ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~--~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      +.+|+|+|++|||||||+|+|++..  ..+++.+++|...  +.+.+.+                  .+.++||||+...
T Consensus        26 ~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~--~~~~~~~------------------~~~l~Dt~G~~~~   85 (210)
T 1pui_A           26 GIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLI--NLFEVAD------------------GKRLVDLPGYGYA   85 (210)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCCC-------------CCE--EEEEEET------------------TEEEEECCCCC--
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceee--EEEEecC------------------CEEEEECcCCccc
Confidence            3689999999999999999999864  3345566666432  3333322                  3679999998542


Q ss_pred             CCcc------cchhhHHHhhccccCEEEEEEecc
Q psy2401          80 ASKG------EGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        80 ~~~~------~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ....      ......++...+.+|.+++|+|+.
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~  119 (210)
T 1pui_A           86 EVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIR  119 (210)
T ss_dssp             ----CCHHHHHHHHHHHHHHCTTEEEEEEEEETT
T ss_pred             ccCHHHHHHHHHHHHHHHHhhhcccEEEEEEECC
Confidence            1111      111123344446789999999984

>1r5b_A Eukaryotic peptide chain release factor GTP-bindi subunit; translation termination, peptide release, GTPase, translatio; 2.35A {Schizosaccharomyces pombe} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1r5n_A* 1r5o_A* 3e20_A

Probab=99.30  E-value=1.5e-12  Score=130.12  Aligned_cols=82  Identities=22%  Similarity=0.176  Sum_probs=47.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc-------------------------cc------CCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS-------------------------AE------NYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~-------------------------~~------~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      ++|+++|++|+|||||+++|+.....                         +.      ..++.|++.....+.+++   
T Consensus        44 ~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~~~~~~~~---  120 (467)
T 1r5b_A           44 VNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETEH---  120 (467)
T ss_dssp             EEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECSS---
T ss_pred             eEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeeeEEEecCC---
Confidence            58999999999999999999742100                         00      123455555544555554   


Q ss_pred             cccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          52 KHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        52 ~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                                    ..+.+|||||..++..       .....++.+|++|+|+|+.+
T Consensus       121 --------------~~~~iiDtPGh~~f~~-------~~~~~~~~aD~~ilVvDa~~  156 (467)
T 1r5b_A          121 --------------RRFSLLDAPGHKGYVT-------NMINGASQADIGVLVISARR  156 (467)
T ss_dssp             --------------EEEEECCCCC------------------TTSCSEEEEEEECST
T ss_pred             --------------eEEEEEECCCcHHHHH-------HHHhhcccCCEEEEEEeCCc
Confidence                          6799999999865543       45566789999999999954

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.29  E-value=8.7e-12  Score=108.49  Aligned_cols=78  Identities=21%  Similarity=0.255  Sum_probs=50.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccc---cCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISA---ENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~---~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      ++|+++|++|||||||+|+|++.....   +..|+++.+       +.+                 ..+.+|||||....
T Consensus        49 ~~i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~~~~-------~~~-----------------~~~~l~Dt~G~~~~  104 (193)
T 2ged_A           49 PSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAAD-------YDG-----------------SGVTLVDFPGHVKL  104 (193)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHSSCC------------C-------CCC-----------------TTCSEEEETTCCBS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcccccCCCceeee-------ecC-----------------CeEEEEECCCCchH
Confidence            689999999999999999999864322   122222211       122                 56889999998665


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEecc
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ...   +...+...+..+|++++|+|++
T Consensus       105 ~~~---~~~~~~~~~~~~~~~i~v~d~~  129 (193)
T 2ged_A          105 RYK---LSDYLKTRAKFVKGLIFMVDST  129 (193)
T ss_dssp             SCC---HHHHHHHHGGGEEEEEEEEETT
T ss_pred             HHH---HHHHHHhhcccCCEEEEEEECC
Confidence            432   1222333446699999999985

>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation; HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A* 1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T* 2zit_A* 1u2r_A* 3b78_A* 3b8h_A*

Probab=99.25  E-value=5.3e-11  Score=126.77  Aligned_cols=99  Identities=21%  Similarity=0.172  Sum_probs=60.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccC---------------CCceeecceeEEEEeCCccccccccccccccccce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAEN---------------YPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA   66 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~---------------~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~   66 (363)
                      ++|+|+|++|+|||||+++|++.. ...+.               .++.|+......+.+....- .+..+.........
T Consensus        20 rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~-~~~~i~~~~~~~~~   98 (842)
T 1n0u_A           20 RNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDE-DVKEIKQKTDGNSF   98 (842)
T ss_dssp             EEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHH-HHHHCSSCCCSSEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEeccccc-ccccccccccCCCc
Confidence            589999999999999999998641 11111               23345555444444431000 00000000000126


Q ss_pred             eEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccC
Q psy2401          67 IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKD  109 (363)
Q Consensus        67 ~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~  109 (363)
                      .+++|||||+.++..       .....++.+|++|+|+|+.++
T Consensus        99 ~i~liDTPG~~df~~-------~~~~~l~~aD~ailVvDa~~g  134 (842)
T 1n0u_A           99 LINLIDSPGHVDFSS-------EVTAALRVTDGALVVVDTIEG  134 (842)
T ss_dssp             EEEEECCCCCCSSCH-------HHHHHHHTCSEEEEEEETTTB
T ss_pred             eEEEEECcCchhhHH-------HHHHHHHhCCEEEEEEeCCCC
Confidence            799999999987554       566777999999999999643

>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA polymerase, translation, transferase-RNA complex; HET: GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A* 3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G* 1efu_B

Probab=99.24  E-value=3.8e-11  Score=129.36  Aligned_cols=82  Identities=22%  Similarity=0.209  Sum_probs=54.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc----------------ccCCCceeecceeEEEEeCCccccccccccccccccce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS----------------AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA   66 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~----------------~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~   66 (363)
                      ++|+++|++|+|||||+++|++....                ....++.|++.....+...+                 .
T Consensus       297 lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~-----------------~  359 (1289)
T 3avx_A          297 VNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPT-----------------R  359 (1289)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSS-----------------C
T ss_pred             eEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCC-----------------E
Confidence            68999999999999999999873100                01123444444333333322                 6


Q ss_pred             eEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          67 IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        67 ~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      .+.+|||||+.++       .......++.+|++|+|||+.+
T Consensus       360 kI~IIDTPGHedF-------~~~mi~gas~AD~aILVVDAtd  394 (1289)
T 3avx_A          360 HYAHVDCPGHADY-------VKNMITGAAQMDGAILVVAATD  394 (1289)
T ss_dssp             EEEEEECCCHHHH-------HHHHHHTSCCCSEEEEEEETTT
T ss_pred             EEEEEECCChHHH-------HHHHHHHHhhCCEEEEEEcCCc
Confidence            7999999998653       2356677899999999999964

>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=99.19  E-value=8.6e-11  Score=113.24  Aligned_cols=22  Identities=45%  Similarity=0.735  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..|+++|+||||||||++.|+.
T Consensus        80 ~~I~i~G~~G~GKSTl~~~L~~  101 (355)
T 3p32_A           80 HRVGITGVPGVGKSTAIEALGM  101 (355)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999974

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.18  E-value=2.2e-11  Score=117.14  Aligned_cols=22  Identities=41%  Similarity=0.700  Sum_probs=20.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..|+|+|+||||||||+|+|++
T Consensus        75 ~~v~lvG~pgaGKSTLln~L~~   96 (349)
T 2www_A           75 FRVGLSGPPGAGKSTFIEYFGK   96 (349)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHH
Confidence            5799999999999999999996

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=99.16  E-value=3.5e-11  Score=115.81  Aligned_cols=25  Identities=16%  Similarity=0.329  Sum_probs=22.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI   27 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~   27 (363)
                      .+|+++|.+|||||||+|+|+|...
T Consensus        32 ~~I~vvG~~~~GKSSLln~L~g~~~   56 (353)
T 2x2e_A           32 PQIAVVGGQSAGKSSVLENFVGRDF   56 (353)
T ss_dssp             CEEEEECBTTSSHHHHHHTTTTSCC
T ss_pred             CeEEEECCCCCCHHHHHHHHhCCCc
Confidence            5899999999999999999999754

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.16  E-value=1.2e-10  Score=110.64  Aligned_cols=82  Identities=13%  Similarity=0.157  Sum_probs=54.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCcc-ccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~-~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ||.++|..|||||||++.+.+.... .......|+......+  .. .               .++++|||||..++...
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~v--~~-~---------------v~LqIWDTAGQErf~~~   62 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEHF--ST-L---------------IDLAVMELPGQLNYFEP   62 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEEE--CS-S---------------SCEEEEECCSCSSSCCC
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEEE--cc-E---------------EEEEEEECCCchhccch
Confidence            6899999999999999998865221 1111223444443332  11 1               67999999998776421


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                        .+  ......|+++++++|+|+.
T Consensus        63 --~l--~~~~yyr~a~~~IlV~Dit   83 (331)
T 3r7w_B           63 --SY--DSERLFKSVGALVYVIDSQ   83 (331)
T ss_dssp             --SH--HHHHHHTTCSEEEEECCCS
T ss_pred             --hh--hhhhhccCCCEEEEEEECC
Confidence              01  1124458999999999984

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.14  E-value=4e-10  Score=114.65  Aligned_cols=103  Identities=15%  Similarity=0.240  Sum_probs=59.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc---cccCCCceeecceeEEEEeC------Cc--------ccccccc---------
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI---SAENYPFCTIEPNIGIIEVP------DK--------RLKHLNN---------   56 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~---~~~~~p~~t~~~~~g~v~~~------~~--------~~~~l~~---------   56 (363)
                      .+|+++|.+|||||||+|+|++...   .+++.|+|+..  .+...-.      |.        .+..+..         
T Consensus        66 ~~V~vvG~~n~GKSTLIN~Llg~~~~~~~vs~~p~T~~~--~~i~~~~~~~i~~g~~l~~~~~~~~~~L~~~g~~~~~~~  143 (550)
T 2qpt_A           66 PMVLVAGQYSTGKTSFIQYLLEQEVPGSRVGPEPTTDCF--VAVMHGETEGTVPGNALVVDPEKPFRKLNPFGNTFLNRF  143 (550)
T ss_dssp             CEEEEEEBTTSCHHHHHHHHHTSCCSSCCCCSSCCCCSE--EEEECCSSSEEECCC------------------CCCTTE
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCccccCccCCCCccceE--EEEEECCcccccCCceeeecCcccHHHHhhhcccccccc
Confidence            5899999999999999999999865   47777876431  1111100      00        0000000         


Q ss_pred             -ccccccccceeEEEEeeecccCCCC--cccc--hhhHHHhhccccCEEEEEEecc
Q psy2401          57 -IVKTKKIFPAIIKLVDIAGLVSGAS--KGEG--LGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        57 -~~~~~~~~~~~i~lvDtpGl~~~~~--~~~~--l~~~~l~~~~~aD~il~Vvda~  107 (363)
                       .+.-......++.+|||||+..+..  ..+.  +.......++.+|++++|+|+.
T Consensus       144 ~~~~~~~~ll~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~  199 (550)
T 2qpt_A          144 MCAQLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAH  199 (550)
T ss_dssp             EEEECCCHHHHHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETT
T ss_pred             eEEeccccccCCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCC
Confidence             0000000113689999999976322  1222  2234455678899999999995

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=99.11  E-value=4.3e-10  Score=105.94  Aligned_cols=48  Identities=13%  Similarity=-0.019  Sum_probs=28.9

Q ss_pred             ccccEEEeccccccCCCchH---HHHHHHHHHhcCCCcEEEeeHHHHHHHhcC
Q psy2401         198 TIKPIIFVANVKENGFKNNL---LLDQLKIYAHNQNIPIIIICAKLEEEISDL  247 (363)
Q Consensus       198 ~~kp~i~v~Nk~d~~~~~~~---~~~~i~~~~~~~~~~~i~~sa~~e~~i~el  247 (363)
                      ...|+++|+||.|.. .+.+   ..+.+++++..++.+++.+||+.. ++.++
T Consensus       154 ~~~~iilV~~K~Dl~-~~~e~~~~~~~~~~~~~~~~~~~~e~Sa~~~-~v~e~  204 (301)
T 2qnr_A          154 NKVNIVPVIAKADTL-TLKERERLKKRILDEIEEHNIKIYHLPDAES-DEDED  204 (301)
T ss_dssp             TTSCEEEEECCGGGS-CHHHHHHHHHHHHHHHHHTTCCCCCCC----------
T ss_pred             hcCCEEEEEEeCCCC-CHHHHHHHHHHHHHHHHHcCCeEEecCCccc-cccHH
Confidence            346899999999964 2222   235677778888899999999865 55444

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=99.08  E-value=9.7e-11  Score=122.43  Aligned_cols=41  Identities=15%  Similarity=0.189  Sum_probs=29.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEE
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGI   43 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~   43 (363)
                      .+|+++|.+|+|||||+|+|+|..+....-..+|..|..-.
T Consensus        52 p~I~vvG~~saGKSSllnaL~g~~~LP~g~g~~Tr~Pl~l~   92 (772)
T 3zvr_A           52 PQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQ   92 (772)
T ss_dssp             SEEEEEECTTTCHHHHHHHHHSSCCSCCSSSCSCSSCEEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCccCcCCccccccceEEE
Confidence            58999999999999999999997653222234565554433

>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=99.07  E-value=1e-09  Score=105.21  Aligned_cols=22  Identities=41%  Similarity=0.723  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..++++|+||+|||||+|.|++
T Consensus        57 ~~i~i~G~~g~GKSTl~~~l~~   78 (341)
T 2p67_A           57 LRLGVTGTPGAGKSTFLEAFGM   78 (341)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            5799999999999999999974

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.05  E-value=8.9e-11  Score=113.75  Aligned_cols=84  Identities=21%  Similarity=0.286  Sum_probs=59.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC-------CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeec
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL-------KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAG   75 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~-------~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpG   75 (363)
                      .+++++|.+|+|||||+|+|++.       .+.++++|++|.++...  .+.+                  .+.++||||
T Consensus       161 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~~--~~~~------------------~~~liDtPG  220 (368)
T 3h2y_A          161 KDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLIDI--PLDE------------------ESSLYDTPG  220 (368)
T ss_dssp             SCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEEEE--ESSS------------------SCEEEECCC
T ss_pred             ceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCeecceEEE--EecC------------------CeEEEeCCC
Confidence            57999999999999999999985       34478999999876643  3332                  378999999


Q ss_pred             ccCCCCcccchhhHHHhh---ccccCEEEEEEec
Q psy2401          76 LVSGASKGEGLGNKFLAH---IRETNIVIHVIRC  106 (363)
Q Consensus        76 l~~~~~~~~~l~~~~l~~---~~~aD~il~Vvda  106 (363)
                      +.........+..+.+..   ....+.++++++.
T Consensus       221 ~~~~~~~~~~l~~~~l~~~~~~~~i~~~~~~l~~  254 (368)
T 3h2y_A          221 IINHHQMAHYVGKQSLKLITPTKEIKPMVFQLNE  254 (368)
T ss_dssp             BCCTTSGGGGSCHHHHHHHSCSSCCCCEEEEECT
T ss_pred             cCcHHHHHHHhhHHHHHHhccccccCceEEEEcC
Confidence            987654444455555544   4667888888886

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=99.03  E-value=1.1e-10  Score=113.13  Aligned_cols=85  Identities=21%  Similarity=0.198  Sum_probs=67.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC------CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL------KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGL   76 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~------~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl   76 (363)
                      .+++++|.||+|||||+|+|++.      .+.++++|++|.++...  .+.                  ..+.++||||+
T Consensus       163 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~gtT~~~~~~--~~~------------------~~~~liDtPG~  222 (369)
T 3ec1_A          163 GDVYVVGCTNVGKSTFINRIIEEATGKGNVITTSYFPGTTLDMIEI--PLE------------------SGATLYDTPGI  222 (369)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHHHHHTTCCCEEEECTTSSCEEEEE--ECS------------------TTCEEEECCSC
T ss_pred             CcEEEEcCCCCchHHHHHHHHhhccCCccceeecCCCCeEEeeEEE--EeC------------------CCeEEEeCCCc
Confidence            57999999999999999999986      56688999999876543  332                  24789999999


Q ss_pred             cCCCCcccchhhHHHhhc---cccCEEEEEEecc
Q psy2401          77 VSGASKGEGLGNKFLAHI---RETNIVIHVIRCF  107 (363)
Q Consensus        77 ~~~~~~~~~l~~~~l~~~---~~aD~il~Vvda~  107 (363)
                      .........+..+.+..+   +..|.++++++..
T Consensus       223 ~~~~~~~~~l~~~~l~~~~~~~~i~~~~~~l~~~  256 (369)
T 3ec1_A          223 INHHQMAHFVDARDLKIITPKREIHPRVYQLNEG  256 (369)
T ss_dssp             CCCSSGGGGSCTTTHHHHSCSSCCCCEEEEECTT
T ss_pred             CcHHHHHHHHhHHHHHHHhcccccCceEEEEcCC
Confidence            876544555556666666   7899999999973

>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=98.98  E-value=1.8e-09  Score=106.17  Aligned_cols=45  Identities=16%  Similarity=0.039  Sum_probs=28.4

Q ss_pred             ccccEEEeccccccCCCchH---HHHHHHHHHhcCCCcEEEeeHHHHHH
Q psy2401         198 TIKPIIFVANVKENGFKNNL---LLDQLKIYAHNQNIPIIIICAKLEEE  243 (363)
Q Consensus       198 ~~kp~i~v~Nk~d~~~~~~~---~~~~i~~~~~~~~~~~i~~sa~~e~~  243 (363)
                      ...|+|+|+||+|.. .+.+   ..+.+.+.+..++++++.+||+...+
T Consensus       166 ~~v~iIlVinK~Dll-~~~ev~~~k~~i~~~~~~~~i~~~~~sa~~~~~  213 (418)
T 2qag_C          166 EKVNIIPLIAKADTL-TPEECQQFKKQIMKEIQEHKIKIYEFPETDDEE  213 (418)
T ss_dssp             TTSEEEEEEESTTSS-CHHHHHHHHHHHHHHHHHHTCCCCCCC------
T ss_pred             ccCcEEEEEEcccCc-cHHHHHHHHHHHHHHHHHcCCeEEeCCCCCCcC
Confidence            467999999999963 2222   23566677777788899999875443

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=98.92  E-value=3.1e-09  Score=101.67  Aligned_cols=22  Identities=45%  Similarity=0.847  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..++|+|+||||||||+|+|++
T Consensus        56 ~~v~i~G~~GaGKSTLl~~l~g   77 (337)
T 2qm8_A           56 IRVGITGVPGVGKSTTIDALGS   77 (337)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999985

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=98.91  E-value=3.3e-09  Score=98.32  Aligned_cols=67  Identities=18%  Similarity=0.204  Sum_probs=35.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcccccc-----ccccccccccceeEEEEeeecc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHL-----NNIVKTKKIFPAIIKLVDIAGL   76 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l-----~~~~~~~~~~~~~i~lvDtpGl   76 (363)
                      .++++|+|+||||||||+|+|+|           ...|..|.+.+.+..+...     ..+..+....+..++++|+||+
T Consensus         2 ~f~v~lvG~nGaGKSTLln~L~g-----------~~~~~~G~i~~~g~~i~~~~~~~~i~~v~q~~~~~~~ltv~d~~~~   70 (270)
T 3sop_A            2 DFNIMVVGQSGLGKSTLVNTLFK-----------SQVSRKASSWNREEKIPKTVEIKAIGHVIEEGGVKMKLTVIDTPGF   70 (270)
T ss_dssp             EEEEEEEESSSSSHHHHHHHHHH-----------HHC------------CCCCCSCCEEEESCC----CCEEEEECCCC-
T ss_pred             eeEEEEECCCCCCHHHHHHHHhC-----------CCCCCCCccccCCcccCcceeeeeeEEEeecCCCcCCceEEechhh
Confidence            36899999999999999999999           4455566666555332110     1122233344457899999998


Q ss_pred             cCC
Q psy2401          77 VSG   79 (363)
Q Consensus        77 ~~~   79 (363)
                      ...
T Consensus        71 g~~   73 (270)
T 3sop_A           71 GDQ   73 (270)
T ss_dssp             -CC
T ss_pred             hhh
Confidence            653

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=98.89  E-value=2.3e-09  Score=95.39  Aligned_cols=23  Identities=17%  Similarity=0.316  Sum_probs=21.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      .+|+++|++|||||||++.|++.
T Consensus        31 ~~i~i~G~~g~GKTTl~~~l~~~   53 (221)
T 2wsm_A           31 VAVNIMGAIGSGKTLLIERTIER   53 (221)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            57999999999999999999864

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=98.87  E-value=1.2e-08  Score=100.11  Aligned_cols=23  Identities=35%  Similarity=0.442  Sum_probs=21.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCC
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLK   26 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~   26 (363)
                      +++|+|+||||||||+|+|+|..
T Consensus        44 ~vaLvG~nGaGKSTLln~L~G~~   66 (427)
T 2qag_B           44 NILCVGETGLGKSTLMDTLFNTK   66 (427)
T ss_dssp             EEEEECSTTSSSHHHHHHHHTSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCcc
Confidence            59999999999999999999963

>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=98.82  E-value=3.1e-09  Score=99.18  Aligned_cols=59  Identities=32%  Similarity=0.474  Sum_probs=37.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+++++|.||||||||+|+|++.. +.+++.|++|.+++.  +.++                  ..+.++||||+.....
T Consensus       121 ~~v~~vG~~nvGKSsliN~l~~~~~~~~~~~~g~T~~~~~--~~~~------------------~~~~l~DtpG~~~~~~  180 (282)
T 1puj_A          121 IRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQQW--VKVG------------------KELELLDTPGILWPKF  180 (282)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCC------------CC--EEET------------------TTEEEEECCCCCCSCC
T ss_pred             ceEEEEecCCCchHHHHHHHhcCceeecCCCCCeeeeeEE--EEeC------------------CCEEEEECcCcCCCCC
Confidence            579999999999999999999985 779999999988753  3332                  3589999999976543

>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=98.75  E-value=5.4e-08  Score=88.73  Aligned_cols=40  Identities=13%  Similarity=0.144  Sum_probs=26.6

Q ss_pred             eeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecc
Q psy2401          66 AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        66 ~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ..+.+|||||..+.... ..++..+...+.. +++++|+|+.
T Consensus       109 ~d~iiiDtpG~~~~~~~-~~l~~~~~~~~~~-~~iv~vvD~~  148 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLF-HEFGVRLMENLPY-PLVVYISDPE  148 (262)
T ss_dssp             CSEEEEECCSSHHHHHH-SHHHHHHHHTSSS-CEEEEEECGG
T ss_pred             CCEEEEeCCCccchhhh-hhhHHHHHHHHhh-ceEEeccchh
Confidence            47899999998643221 1123344456666 8999999985

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.60  E-value=2.2e-08  Score=92.40  Aligned_cols=58  Identities=26%  Similarity=0.369  Sum_probs=38.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      .+++++|.||+|||||+|+|++.. ..+++.|++|....  .+..+                  ..+++|||||+....
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~~~~~~~g~T~~~~--~~~~~------------------~~~~l~DtpG~~~~~  158 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRASSVGAQPGITKGIQ--WFSLE------------------NGVKILDTPGILYKN  158 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC----------CCSC--EEECT------------------TSCEEESSCEECCCC
T ss_pred             hheEEeCCCCCCHHHHHHHHhcccccccCCCCCCccceE--EEEeC------------------CCEEEEECCCcccCc
Confidence            489999999999999999999985 46888899887664  22222                  358899999998654

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=98.59  E-value=8.8e-08  Score=97.71  Aligned_cols=66  Identities=26%  Similarity=0.195  Sum_probs=46.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      .+|+++|+||+|||||+|+|+|....+ +++++|...+.|...|.-+-         | ......+.++||||+.+.
T Consensus        39 ~~VaivG~pnvGKStLiN~L~g~~~~~-~~~~tt~~~T~gi~~~~~~~---------~-~~~~~~i~LiDTpGi~~~  104 (592)
T 1f5n_A           39 VVVAIVGLYRTGKSYLMNKLAGKKKGF-SLGSTVQSHTKGIWMWCVPH---------P-KKPGHILVLLDTEGLGDV  104 (592)
T ss_dssp             EEEEEEEBTTSSHHHHHHHHTTCSSCS-CCCCSSSCCCCSEEEEEEEC---------S-SSTTCEEEEEEECCBCCG
T ss_pred             cEEEEECCCCCCHHHHHHhHcCCCCcc-ccCCCCCCceeEEEEeeccc---------c-cCCCceEEEecCCCcCcc
Confidence            478999999999999999999975333 67777777777765441000         0 000157899999999753

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.59  E-value=1.1e-07  Score=84.57  Aligned_cols=23  Identities=22%  Similarity=0.346  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      .+|+++|.+|||||||++.|+..
T Consensus        39 ~~i~ivG~~gvGKTtl~~~l~~~   61 (226)
T 2hf9_A           39 VAFDFMGAIGSGKTLLIEKLIDN   61 (226)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            68999999999999999999874

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=98.56  E-value=2.1e-07  Score=91.21  Aligned_cols=22  Identities=27%  Similarity=0.489  Sum_probs=20.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      .+||+|+||||||||+|+|+|.
T Consensus        71 ~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           71 NVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            7999999999999999999994

>3hvz_A Uncharacterized protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium; 2.20A {Clostridium leptum}

Probab=98.49  E-value=1.9e-07  Score=69.65  Aligned_cols=60  Identities=28%  Similarity=0.352  Sum_probs=49.6

Q ss_pred             CEEEEeCCCCceEEEeecCCCCHHHhhhhhhcchhcccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEEE
Q psy2401         279 LRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILN  358 (363)
Q Consensus       279 li~~ft~g~~e~raw~~~~g~ta~~~A~~IHsD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~  358 (363)
                      -|.+||  |+. ....+++|+|+.|+|..||+++.+.++.|.|-                 |+  +.+.+|.+++||+|+
T Consensus         7 ~i~v~t--P~G-~~~~lp~GaT~~D~A~~Ih~~lg~~~v~AkVN-----------------G~--~v~L~~~L~~gd~Ve   64 (78)
T 3hvz_A            7 EVFVFT--PKG-DVISLPIGSTVIDFAYAIHSAVGNRMIGAKVD-----------------GR--IVPIDYKVKTGEIID   64 (78)
T ss_dssp             EEEEEC--TTS-CEEEEETTCBHHHHHHHHCHHHHHTEEEEEET-----------------TE--EECTTCBCCTTCBEE
T ss_pred             eEEEEC--CCC-CEEEecCCCCHHHHHHHhhhhhhcceEEEEEC-----------------CE--EcCCCcccCCCCEEE
Confidence            366777  342 66789999999999999999999999999852                 43  338999999999998


Q ss_pred             EE
Q psy2401         359 FL  360 (363)
Q Consensus       359 ~~  360 (363)
                      |-
T Consensus        65 Ii   66 (78)
T 3hvz_A           65 VL   66 (78)
T ss_dssp             EE
T ss_pred             EE
Confidence            85

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=97.90  E-value=8.7e-06  Score=73.59  Aligned_cols=36  Identities=22%  Similarity=0.309  Sum_probs=32.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.++|.
T Consensus        32 e~~~iiG~nGsGKSTLl~~l~G-----------l~~p~~G~I~~~g~   67 (235)
T 3tif_A           32 EFVSIMGPSGSGKSTMLNIIGC-----------LDKPTEGEVYIDNI   67 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT-----------SSCCSEEEEEETTE
T ss_pred             CEEEEECCCCCcHHHHHHHHhc-----------CCCCCceEEEECCE
Confidence            4589999999999999999999           66788999999884

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*

Probab=97.89  E-value=1.3e-05  Score=79.22  Aligned_cols=70  Identities=17%  Similarity=0.172  Sum_probs=43.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC---------------CccccCCCceeecceeEEEEeCCccccccccccccccccceeE
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL---------------KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAII   68 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~---------------~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i   68 (363)
                      -|+|+|++++|||||+|.|.+.               ....-....+|...+.|...+..+-...     .|.+ -..++
T Consensus        69 vVsV~G~~~~GKStLLN~llg~~~~~~~~~wl~~~~~~~~~f~~~~t~~~~T~GIw~~~~p~~~~-----~~~~-~~~~v  142 (447)
T 3q5d_A           69 AVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLIN-----KPDG-KKVAV  142 (447)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHCCSTTTSSCCTTSBCCSSCSCCSSCCCCCEEEEESSCEEEE-----CSSS-CEEEE
T ss_pred             EEEEECCCCCcHHHHHHHHhhhcccccccccccccccccceecCCCCCCCceeEEEEecCccccc-----cCCC-CcceE
Confidence            3789999999999999999863               1111122235666677877664310000     0000 11579


Q ss_pred             EEEeeecccCC
Q psy2401          69 KLVDIAGLVSG   79 (363)
Q Consensus        69 ~lvDtpGl~~~   79 (363)
                      .++||||+.+.
T Consensus       143 vllDTeG~~~~  153 (447)
T 3q5d_A          143 LLMDTQGTFDS  153 (447)
T ss_dssp             EEEEEECCCSS
T ss_pred             EEEcCCccccc
Confidence            99999998653

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=97.86  E-value=1.2e-05  Score=72.11  Aligned_cols=36  Identities=31%  Similarity=0.316  Sum_probs=32.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.++|.
T Consensus        31 e~~~iiG~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~   66 (224)
T 2pcj_A           31 EFVSIIGASGSGKSTLLYILGL-----------LDAPTEGKVFLEGK   66 (224)
T ss_dssp             CEEEEEECTTSCHHHHHHHHTT-----------SSCCSEEEEEETTE
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCceEEEECCE
Confidence            3589999999999999999999           66788999999884

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=97.84  E-value=1.1e-05  Score=73.07  Aligned_cols=36  Identities=22%  Similarity=0.506  Sum_probs=32.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      .++|+|+||||||||+++|+|           ...|..|.+.++|..
T Consensus        26 ~~~liG~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~~   61 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAG-----------IVKPDRGEVRLNGAD   61 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT-----------SSCCSEEEEEETTEE
T ss_pred             EEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEECCEE
Confidence            479999999999999999999           667889999998843

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=97.81  E-value=1.2e-05  Score=74.04  Aligned_cols=37  Identities=30%  Similarity=0.398  Sum_probs=32.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -.+||+|+||||||||+++|+|           ...|..|.+.++|..
T Consensus        38 e~~~liG~nGsGKSTLl~~l~G-----------l~~p~~G~I~~~g~~   74 (266)
T 4g1u_C           38 EMVAIIGPNGAGKSTLLRLLTG-----------YLSPSHGECHLLGQN   74 (266)
T ss_dssp             CEEEEECCTTSCHHHHHHHHTS-----------SSCCSSCEEEETTEE
T ss_pred             CEEEEECCCCCcHHHHHHHHhc-----------CCCCCCcEEEECCEE
Confidence            4689999999999999999999           667888999998853

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=97.80  E-value=1.3e-05  Score=80.37  Aligned_cols=21  Identities=29%  Similarity=0.357  Sum_probs=19.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHH
Q psy2401           3 LKCGLIGLPNVGKSTLFNALT   23 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt   23 (363)
                      ..|+++|++||||||+++.|+
T Consensus       102 ~vI~ivG~~GvGKTTl~~kLA  122 (504)
T 2j37_W          102 NVIMFVGLQGSGKTTTCSKLA  122 (504)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            469999999999999999999

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=97.80  E-value=1.6e-05  Score=72.82  Aligned_cols=36  Identities=31%  Similarity=0.351  Sum_probs=32.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.++|.
T Consensus        34 e~~~liG~nGsGKSTLlk~l~G-----------l~~p~~G~i~~~g~   69 (257)
T 1g6h_A           34 DVTLIIGPNGSGKSTLINVITG-----------FLKADEGRVYFENK   69 (257)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT-----------SSCCSEEEEEETTE
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCcEEEECCE
Confidence            4589999999999999999999           66788999999884

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=97.79  E-value=1.6e-05  Score=72.98  Aligned_cols=36  Identities=28%  Similarity=0.355  Sum_probs=32.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.++|.
T Consensus        33 e~~~liG~nGsGKSTLlk~l~G-----------l~~p~~G~i~~~g~   68 (262)
T 1b0u_A           33 DVISIIGSSGSGKSTFLRCINF-----------LEKPSEGAIIVNGQ   68 (262)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT-----------SSCCSEEEEEETTE
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCCcEEEECCE
Confidence            3589999999999999999999           66788999999884

>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=97.79  E-value=6.5e-06  Score=77.44  Aligned_cols=23  Identities=35%  Similarity=0.453  Sum_probs=20.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ..++|+|+||||||||+|+|++.
T Consensus       174 ~~~~lvG~sG~GKSTLln~L~g~  196 (307)
T 1t9h_A          174 KTTVFAGQSGVGKSSLLNAISPE  196 (307)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-
T ss_pred             CEEEEECCCCCCHHHHHHHhccc
Confidence            46899999999999999999984

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=97.79  E-value=1.5e-05  Score=70.95  Aligned_cols=36  Identities=22%  Similarity=0.318  Sum_probs=32.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.++|.
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~G-----------l~~p~~G~I~~~g~   71 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTIST-----------YLKPLKGEIIYNGV   71 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTT-----------SSCCSEEEEEETTE
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCCeEEEECCE
Confidence            3589999999999999999999           56788999999884

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=97.78  E-value=1.7e-05  Score=71.82  Aligned_cols=36  Identities=25%  Similarity=0.335  Sum_probs=32.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.++|.
T Consensus        33 e~~~l~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~   68 (240)
T 1ji0_A           33 QIVTLIGANGAGKTTTLSAIAG-----------LVRAQKGKIIFNGQ   68 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT-----------SSCCSEEEEEETTE
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCceEEECCE
Confidence            4689999999999999999999           66788999999884

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=97.78  E-value=1.7e-05  Score=73.41  Aligned_cols=36  Identities=33%  Similarity=0.499  Sum_probs=32.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.++|.
T Consensus        35 e~~~iiGpnGsGKSTLl~~l~G-----------l~~p~~G~I~~~G~   70 (275)
T 3gfo_A           35 EVTAILGGNGVGKSTLFQNFNG-----------ILKPSSGRILFDNK   70 (275)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTT-----------SSCCSEEEEEETTE
T ss_pred             CEEEEECCCCCCHHHHHHHHHc-----------CCCCCCeEEEECCE
Confidence            3589999999999999999999           66788999999884

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=97.78  E-value=1.8e-05  Score=71.13  Aligned_cols=35  Identities=23%  Similarity=0.370  Sum_probs=31.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD   48 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~   48 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.+++
T Consensus        35 e~~~i~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g   69 (229)
T 2pze_A           35 QLLAVAGSTGAGKTSLLMMIMG-----------ELEPSEGKIKHSG   69 (229)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT-----------SSCCSEEEEEECS
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCcCCccEEEECC
Confidence            4689999999999999999999           6678899999877

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=97.77  E-value=1.8e-05  Score=72.00  Aligned_cols=37  Identities=24%  Similarity=0.365  Sum_probs=32.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.++|..
T Consensus        36 e~~~i~G~nGsGKSTLl~~l~G-----------l~~p~~G~I~i~g~~   72 (247)
T 2ff7_A           36 EVIGIVGRSGSGKSTLTKLIQR-----------FYIPENGQVLIDGHD   72 (247)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT-----------SSCCSEEEEEETTEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCCcEEEECCEE
Confidence            4689999999999999999999           667889999998853

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=97.77  E-value=1.9e-05  Score=72.64  Aligned_cols=36  Identities=25%  Similarity=0.222  Sum_probs=32.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.++|.
T Consensus        51 ei~~liG~NGsGKSTLlk~l~G-----------l~~p~~G~I~~~g~   86 (263)
T 2olj_A           51 EVVVVIGPSGSGKSTFLRCLNL-----------LEDFDEGEIIIDGI   86 (263)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT-----------SSCCSEEEEEETTE
T ss_pred             CEEEEEcCCCCcHHHHHHHHHc-----------CCCCCCcEEEECCE
Confidence            4689999999999999999999           66788999999884

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=97.76  E-value=1.8e-05  Score=71.53  Aligned_cols=35  Identities=23%  Similarity=0.387  Sum_probs=31.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD   48 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~   48 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.++|
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~G-----------l~~p~~G~I~~~g   66 (237)
T 2cbz_A           32 ALVAVVGQVGCGKSSLLSALLA-----------EMDKVEGHVAIKG   66 (237)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT-----------CSEEEEEEEEECS
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCCceEEECC
Confidence            4689999999999999999999           6678899999877

>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=97.75  E-value=1.4e-05  Score=74.80  Aligned_cols=61  Identities=21%  Similarity=0.303  Sum_probs=32.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEe---CCccccccccccccccccceeEEEEeeecccC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEV---PDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVS   78 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~---~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~   78 (363)
                      ..++++|+||||||||+|+|++           ...|..|.+.+   .|..+..........    .--.++|+||+..
T Consensus       170 eiv~l~G~sG~GKSTll~~l~g-----------~~~~~~G~i~~~~~~g~~~t~~~~~~~~~----~~g~v~q~p~~~~  233 (301)
T 1u0l_A          170 KISTMAGLSGVGKSSLLNAINP-----------GLKLRVSEVSEKLQRGRHTTTTAQLLKFD----FGGYVVDTPGFAN  233 (301)
T ss_dssp             SEEEEECSTTSSHHHHHHHHST-----------TCCCC-------------CCCSCCEEECT----TSCEEESSCSSTT
T ss_pred             CeEEEECCCCCcHHHHHHHhcc-----------cccccccceecccCCCCCceeeeEEEEcC----CCCEEEECcCCCc
Confidence            4689999999999999999998           33455565555   343221111111000    1236889999754

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=97.75  E-value=2.1e-05  Score=72.04  Aligned_cols=36  Identities=36%  Similarity=0.541  Sum_probs=32.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.++|.
T Consensus        42 ei~~l~G~NGsGKSTLlk~l~G-----------l~~p~~G~I~~~g~   77 (256)
T 1vpl_A           42 EIFGLIGPNGAGKTTTLRIIST-----------LIKPSSGIVTVFGK   77 (256)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT-----------SSCCSEEEEEETTE
T ss_pred             cEEEEECCCCCCHHHHHHHHhc-----------CCCCCceEEEECCE
Confidence            3689999999999999999999           66788999999884

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=97.74  E-value=2.1e-05  Score=72.90  Aligned_cols=36  Identities=33%  Similarity=0.365  Sum_probs=32.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.++|.
T Consensus        48 e~~~liG~NGsGKSTLlk~l~G-----------l~~p~~G~I~~~g~   83 (279)
T 2ihy_A           48 DKWILYGLNGAGKTTLLNILNA-----------YEPATSGTVNLFGK   83 (279)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT-----------SSCCSEEEEEETTB
T ss_pred             CEEEEECCCCCcHHHHHHHHhC-----------CCCCCCeEEEECCE
Confidence            4689999999999999999999           66788999999884

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=97.72  E-value=2.5e-05  Score=71.88  Aligned_cols=36  Identities=28%  Similarity=0.275  Sum_probs=32.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.++|.
T Consensus        34 e~~~liG~nGsGKSTLl~~i~G-----------l~~p~~G~I~~~g~   69 (266)
T 2yz2_A           34 ECLLVAGNTGSGKSTLLQIVAG-----------LIEPTSGDVLYDGE   69 (266)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT-----------SSCCSEEEEEETTE
T ss_pred             CEEEEECCCCCcHHHHHHHHhC-----------CCCCCCcEEEECCE
Confidence            3689999999999999999999           66788999999884

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=97.71  E-value=2.6e-05  Score=72.01  Aligned_cols=37  Identities=24%  Similarity=0.299  Sum_probs=32.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.++|..
T Consensus        46 e~~~i~G~nGsGKSTLlk~l~G-----------l~~p~~G~I~~~g~~   82 (271)
T 2ixe_A           46 KVTALVGPNGSGKSTVAALLQN-----------LYQPTGGKVLLDGEP   82 (271)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT-----------SSCCSEEEEEETTEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCCCEEEECCEE
Confidence            4689999999999999999999           667889999998854

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=97.70  E-value=2.1e-05  Score=73.94  Aligned_cols=38  Identities=24%  Similarity=0.399  Sum_probs=33.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      -.++|+|++|||||||++.|+|           ...|..|.+.++|..+
T Consensus        81 e~vaivG~sGsGKSTLl~ll~g-----------l~~p~~G~I~i~G~~i  118 (306)
T 3nh6_A           81 QTLALVGPSGAGKSTILRLLFR-----------FYDISSGCIRIDGQDI  118 (306)
T ss_dssp             CEEEEESSSCHHHHHHHHHHTT-----------SSCCSEEEEEETTEET
T ss_pred             CEEEEECCCCchHHHHHHHHHc-----------CCCCCCcEEEECCEEc
Confidence            4799999999999999999999           6778999999998543

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=97.70  E-value=2.8e-05  Score=70.86  Aligned_cols=36  Identities=25%  Similarity=0.325  Sum_probs=31.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -.++|+|+||||||||+++|+|           ...|. |.+.++|..
T Consensus        27 e~~~liG~NGsGKSTLlk~l~G-----------l~~p~-G~i~~~g~~   62 (249)
T 2qi9_C           27 EILHLVGPNGAGKSTLLARMAG-----------MTSGK-GSIQFAGQP   62 (249)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT-----------SSCCE-EEEEETTEE
T ss_pred             CEEEEECCCCCcHHHHHHHHhC-----------CCCCC-eEEEECCEE
Confidence            4689999999999999999999           66788 999998853

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=97.69  E-value=2.7e-05  Score=74.83  Aligned_cols=36  Identities=31%  Similarity=0.429  Sum_probs=32.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      --+||+|+||||||||+++|+|           ...|..|.+.++|.
T Consensus        55 ei~~IiGpnGaGKSTLlr~i~G-----------L~~p~~G~I~i~G~   90 (366)
T 3tui_C           55 QIYGVIGASGAGKSTLIRCVNL-----------LERPTEGSVLVDGQ   90 (366)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT-----------SSCCSEEEEEETTE
T ss_pred             CEEEEEcCCCchHHHHHHHHhc-----------CCCCCceEEEECCE
Confidence            3589999999999999999999           66788999999985

>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=8.4e-05  Score=71.20  Aligned_cols=36  Identities=17%  Similarity=0.274  Sum_probs=28.3

Q ss_pred             eeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          66 AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        66 ~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ..+.+|||+|......       ......++++++|+|+|+++
T Consensus       193 ~~l~iwDt~GQe~~r~-------~w~~yf~~a~~iIfV~dls~  228 (353)
T 1cip_A          193 LHFKMFDVGGQRSERK-------KWIHCFEGVTAIIFCVALSD  228 (353)
T ss_dssp             EEEEEEEECCSGGGGG-------GGGGGCTTCSEEEEEEEGGG
T ss_pred             eeEEEEeCCCchhhhH-------HHHHHHhcCCEEEEEEECcc
Confidence            6799999999765443       33456789999999999975

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=97.69  E-value=1.8e-05  Score=71.74  Aligned_cols=37  Identities=27%  Similarity=0.414  Sum_probs=32.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.++|..
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~g~~   65 (243)
T 1mv5_A           29 SIIAFAGPSGGGKSTIFSLLER-----------FYQPTAGEITIDGQP   65 (243)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTT-----------SSCCSBSCEEETTEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCCcEEEECCEE
Confidence            3689999999999999999999           566888999998853

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=97.67  E-value=3.3e-05  Score=70.41  Aligned_cols=38  Identities=26%  Similarity=0.183  Sum_probs=31.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|-.         ...|..|.+.++|.
T Consensus        30 e~~~l~G~nGsGKSTLlk~l~Gl~---------~~~p~~G~I~~~g~   67 (250)
T 2d2e_A           30 EVHALMGPNGAGKSTLGKILAGDP---------EYTVERGEILLDGE   67 (250)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTCT---------TCEEEEEEEEETTE
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC---------CCCCCceEEEECCE
Confidence            468999999999999999999920         04578899999884

>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=97.64  E-value=2.6e-05  Score=74.80  Aligned_cols=23  Identities=43%  Similarity=0.479  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ..++|+|+||||||||+|+|++.
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~  238 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGL  238 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCC
T ss_pred             CEEEEECCCCccHHHHHHHHhcc
Confidence            46899999999999999999985

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=97.62  E-value=4.3e-05  Score=70.26  Aligned_cols=35  Identities=29%  Similarity=0.389  Sum_probs=31.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           .. |..|.+.+++.
T Consensus        31 e~~~i~G~NGsGKSTLlk~l~G-----------l~-p~~G~I~~~g~   65 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAISG-----------LL-PYSGNIFINGM   65 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTT-----------SS-CCEEEEEETTE
T ss_pred             EEEEEECCCCCCHHHHHHHHhC-----------CC-CCCcEEEECCE
Confidence            3689999999999999999999           66 88999999884

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=97.60  E-value=4.3e-05  Score=71.22  Aligned_cols=35  Identities=23%  Similarity=0.370  Sum_probs=31.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD   48 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~   48 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.+++
T Consensus        65 e~~~i~G~NGsGKSTLlk~l~G-----------l~~p~~G~I~~~g   99 (290)
T 2bbs_A           65 QLLAVAGSTGAGKTSLLMMIMG-----------ELEPSEGKIKHSG   99 (290)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTT-----------SSCEEEEEEECCS
T ss_pred             CEEEEECCCCCcHHHHHHHHhc-----------CCCCCCcEEEECC
Confidence            4689999999999999999999           6678899998876

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=97.59  E-value=4.7e-05  Score=73.58  Aligned_cols=37  Identities=24%  Similarity=0.263  Sum_probs=32.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      --++|+|+||||||||+++|+|           ...|..|.+.++|..
T Consensus        30 e~~~llGpsGsGKSTLLr~iaG-----------l~~p~~G~I~i~G~~   66 (381)
T 3rlf_A           30 EFVVFVGPSGCGKSTLLRMIAG-----------LETITSGDLFIGEKR   66 (381)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT-----------SSCCSEEEEEETTEE
T ss_pred             CEEEEEcCCCchHHHHHHHHHc-----------CCCCCCeEEEECCEE
Confidence            3589999999999999999999           667889999999853

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=97.59  E-value=4.7e-05  Score=73.10  Aligned_cols=37  Identities=27%  Similarity=0.292  Sum_probs=32.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      --++|+|+||||||||+++|+|           ...|..|.+.++|..
T Consensus        30 e~~~llGpnGsGKSTLLr~iaG-----------l~~p~~G~I~i~g~~   66 (359)
T 2yyz_A           30 EFVALLGPSGCGKTTTLLMLAG-----------IYKPTSGEIYFDDVL   66 (359)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT-----------SSCCSEEEEEETTEE
T ss_pred             CEEEEEcCCCchHHHHHHHHHC-----------CCCCCccEEEECCEE
Confidence            3589999999999999999999           667889999999853

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=97.59  E-value=5.2e-05  Score=69.80  Aligned_cols=38  Identities=29%  Similarity=0.299  Sum_probs=31.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||++.|+|-.         ...|..|.+.++|.
T Consensus        47 e~~~l~G~NGsGKSTLlk~l~Gl~---------~~~p~~G~I~~~g~   84 (267)
T 2zu0_C           47 EVHAIMGPNGSGKSTLSATLAGRE---------DYEVTGGTVEFKGK   84 (267)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTCT---------TCEEEEEEEEETTE
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC---------CCCCCCeEEEECCE
Confidence            468999999999999999999920         02477899999884

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=97.59  E-value=5e-05  Score=77.99  Aligned_cols=22  Identities=32%  Similarity=0.514  Sum_probs=20.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      .+||+|++|||||||+++|+|.
T Consensus        47 ~iaIvG~nGsGKSTLL~~I~Gl   68 (608)
T 3szr_A           47 AIAVIGDQSSGKSSVLEALSGV   68 (608)
T ss_dssp             CEECCCCTTSCHHHHHHHHHSC
T ss_pred             eEEEECCCCChHHHHHHHHhCC
Confidence            5899999999999999999995

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=97.58  E-value=4.6e-05  Score=73.08  Aligned_cols=37  Identities=30%  Similarity=0.395  Sum_probs=33.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      --++|+|+||||||||+++|+|           ...|..|.+.++|..
T Consensus        31 e~~~llGpsGsGKSTLLr~iaG-----------l~~p~~G~I~i~G~~   67 (359)
T 3fvq_A           31 EILFIIGASGCGKTTLLRCLAG-----------FEQPDSGEISLSGKT   67 (359)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHT-----------SSCCSEEEEEETTEE
T ss_pred             CEEEEECCCCchHHHHHHHHhc-----------CCCCCCcEEEECCEE
Confidence            3589999999999999999999           677899999999853

>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=97.58  E-value=0.00022  Score=70.12  Aligned_cols=22  Identities=23%  Similarity=0.371  Sum_probs=19.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..|+++|++||||||++..|+.
T Consensus       101 ~vIlivG~~G~GKTTt~~kLA~  122 (443)
T 3dm5_A          101 TILLMVGIQGSGKTTTVAKLAR  122 (443)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHHH
Confidence            4689999999999999999983

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=97.57  E-value=5.3e-05  Score=72.79  Aligned_cols=37  Identities=30%  Similarity=0.392  Sum_probs=32.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      --++|+|+||||||||+++|+|           ...|..|.+.++|..
T Consensus        30 e~~~llGpnGsGKSTLLr~iaG-----------l~~p~~G~I~i~g~~   66 (362)
T 2it1_A           30 EFMALLGPSGSGKSTLLYTIAG-----------IYKPTSGKIYFDEKD   66 (362)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT-----------SSCCSEEEEEETTEE
T ss_pred             CEEEEECCCCchHHHHHHHHhc-----------CCCCCceEEEECCEE
Confidence            3589999999999999999999           667889999998843

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=97.54  E-value=6.7e-05  Score=72.38  Aligned_cols=38  Identities=26%  Similarity=0.311  Sum_probs=33.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.++|..+
T Consensus        38 e~~~llGpnGsGKSTLLr~iaG-----------l~~p~~G~I~i~g~~i   75 (372)
T 1v43_A           38 EFLVLLGPSGCGKTTTLRMIAG-----------LEEPTEGRIYFGDRDV   75 (372)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT-----------SSCCSEEEEEETTEEC
T ss_pred             CEEEEECCCCChHHHHHHHHHc-----------CCCCCceEEEECCEEC
Confidence            3589999999999999999999           6678899999998643

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=97.53  E-value=5.8e-05  Score=72.33  Aligned_cols=37  Identities=27%  Similarity=0.423  Sum_probs=32.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      --++|+|+||||||||+++|+|           ...|..|.+.++|..
T Consensus        42 e~~~llGpnGsGKSTLLr~iaG-----------l~~p~~G~I~i~g~~   78 (355)
T 1z47_A           42 EMVGLLGPSGSGKTTILRLIAG-----------LERPTKGDVWIGGKR   78 (355)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT-----------SSCCSEEEEEETTEE
T ss_pred             CEEEEECCCCCcHHHHHHHHhC-----------CCCCCccEEEECCEE
Confidence            3589999999999999999999           667889999998843

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=97.53  E-value=6.7e-05  Score=68.75  Aligned_cols=36  Identities=31%  Similarity=0.482  Sum_probs=30.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -.++|+|+||||||||+++|+|           ...| .|.+.++|..
T Consensus        47 e~~~i~G~nGsGKSTLl~~l~G-----------l~~~-~G~I~i~g~~   82 (260)
T 2ghi_A           47 TTCALVGHTGSGKSTIAKLLYR-----------FYDA-EGDIKIGGKN   82 (260)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT-----------SSCC-EEEEEETTEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------cCCC-CeEEEECCEE
Confidence            4689999999999999999999           3445 6999998853

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=97.51  E-value=4.9e-05  Score=74.84  Aligned_cols=22  Identities=27%  Similarity=0.339  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..|+++|++||||||+++.|++
T Consensus       100 ~vI~ivG~~GvGKTTla~~La~  121 (432)
T 2v3c_C          100 NVILLVGIQGSGKTTTAAKLAR  121 (432)
T ss_dssp             CCEEEECCSSSSTTHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999986

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=97.50  E-value=6.7e-05  Score=72.39  Aligned_cols=36  Identities=31%  Similarity=0.352  Sum_probs=32.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      --++|+|+||||||||+++|+|           ...|..|.+.++|.
T Consensus        30 e~~~llGpnGsGKSTLLr~iaG-----------l~~p~~G~I~i~g~   65 (372)
T 1g29_1           30 EFMILLGPSGCGKTTTLRMIAG-----------LEEPSRGQIYIGDK   65 (372)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT-----------SSCCSEEEEEETTE
T ss_pred             CEEEEECCCCcHHHHHHHHHHc-----------CCCCCccEEEECCE
Confidence            3589999999999999999999           66788999999984

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=97.50  E-value=4.5e-05  Score=65.83  Aligned_cols=23  Identities=35%  Similarity=0.550  Sum_probs=21.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ++++|+|+||||||||++.|++.
T Consensus         1 ~~i~l~G~nGsGKTTLl~~l~g~   23 (178)
T 1ye8_A            1 MKIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999999984

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=97.50  E-value=5.4e-05  Score=72.37  Aligned_cols=36  Identities=19%  Similarity=0.270  Sum_probs=32.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      --++|+|+||||||||+++|+|           ...|..|.+.++|.
T Consensus        27 e~~~llGpnGsGKSTLLr~iaG-----------l~~p~~G~I~~~g~   62 (348)
T 3d31_A           27 EYFVILGPTGAGKTLFLELIAG-----------FHVPDSGRILLDGK   62 (348)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHT-----------SSCCSEEEEEETTE
T ss_pred             CEEEEECCCCccHHHHHHHHHc-----------CCCCCCcEEEECCE
Confidence            3589999999999999999999           66788999999884

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=97.45  E-value=3.6e-05  Score=67.65  Aligned_cols=41  Identities=29%  Similarity=0.286  Sum_probs=32.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc--cccCCCceeecceeEE
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI--SAENYPFCTIEPNIGI   43 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~--~~~~~p~~t~~~~~g~   43 (363)
                      .-++|+||+|||||||+++|.+...  .....+.||..|..|.
T Consensus        20 ~~ivl~GPSGaGKsTL~~~L~~~~~~~~~~~vs~TTR~p~~gE   62 (197)
T 3ney_A           20 KTLVLIGASGVGRSHIKNALLSQNPEKFVYPVPYTTRPPRKSE   62 (197)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCTTTEECCCCEECSCCCTTC
T ss_pred             CEEEEECcCCCCHHHHHHHHHhhCCccEEeeecccccCCcCCe
Confidence            4689999999999999999997532  2445667888887765

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=97.44  E-value=3.3e-05  Score=65.48  Aligned_cols=34  Identities=26%  Similarity=0.288  Sum_probs=27.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      .++|+|++|||||||++.|++           .. |..|.+.+++.
T Consensus        35 ~v~L~G~nGaGKTTLlr~l~g-----------~l-~~~G~V~~~g~   68 (158)
T 1htw_A           35 MVYLNGDLGAGKTTLTRGMLQ-----------GI-GHQGNVKSPTY   68 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH-----------HT-TCCSCCCCCTT
T ss_pred             EEEEECCCCCCHHHHHHHHHH-----------hC-CCCCeEEECCE
Confidence            589999999999999999998           33 55566666553

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=97.44  E-value=8.9e-05  Score=67.66  Aligned_cols=32  Identities=34%  Similarity=0.394  Sum_probs=27.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEE
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIE   45 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~   45 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~G-----------l~~p~~G~I~   63 (253)
T 2nq2_C           32 DILAVLGQNGCGKSTLLDLLLG-----------IHRPIQGKIE   63 (253)
T ss_dssp             CEEEEECCSSSSHHHHHHHHTT-----------SSCCSEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCcEEE
Confidence            4689999999999999999999           5567778776

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=97.43  E-value=6.6e-05  Score=71.92  Aligned_cols=36  Identities=22%  Similarity=0.440  Sum_probs=32.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      -.++|+|+||||||||+++|+|           ...|..|.+.++|.
T Consensus        32 e~~~llGpnGsGKSTLLr~iaG-----------l~~p~~G~I~i~g~   67 (353)
T 1oxx_K           32 ERFGILGPSGAGKTTFMRIIAG-----------LDVPSTGELYFDDR   67 (353)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHT-----------SSCCSEEEEEETTE
T ss_pred             CEEEEECCCCCcHHHHHHHHhC-----------CCCCCceEEEECCE
Confidence            3589999999999999999999           66788999999984

>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=97.42  E-value=0.00026  Score=67.98  Aligned_cols=36  Identities=14%  Similarity=0.262  Sum_probs=24.5

Q ss_pred             eeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          66 AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        66 ~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ..+.+|||+|.......+       ....++++++|+|+|+++
T Consensus       201 ~~l~i~Dt~Gq~~~r~~w-------~~~f~~~~~iIfv~dls~  236 (362)
T 1zcb_A          201 VPFKMVDVGGQRSERKRW-------FECFDSVTSILFLVSSSE  236 (362)
T ss_dssp             EEEEEEEECC-------C-------TTSCTTCCEEEEEEETTC
T ss_pred             eEEEEEeccchhhhhhhH-------HHHhCCCCEEEEEEECcc
Confidence            679999999986554433       355689999999999975

>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=97.40  E-value=0.00012  Score=68.58  Aligned_cols=22  Identities=41%  Similarity=0.596  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ..++++|+||||||||+|+|+ .
T Consensus       166 ~i~~l~G~sG~GKSTLln~l~-~  187 (302)
T 2yv5_A          166 FICILAGPSGVGKSSILSRLT-G  187 (302)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH-S
T ss_pred             cEEEEECCCCCCHHHHHHHHH-H
Confidence            468999999999999999999 5

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.39  E-value=8.9e-05  Score=63.69  Aligned_cols=41  Identities=24%  Similarity=0.236  Sum_probs=27.3

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCc--cccCCCceeecceeE
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKI--SAENYPFCTIEPNIG   42 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~--~~~~~p~~t~~~~~g   42 (363)
                      +..++|+|++|||||||++.|.+...  .....+.+|..|..+
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~~~~~~~~~i~~ttr~~~~g   47 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITKHPDRFAYPIPHTTRPPKKD   47 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCTTTEECCCCEECSCC---
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCCccEEEeeeccCCCCCcc
Confidence            46799999999999999999997421  122334555555544

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=97.38  E-value=0.00017  Score=68.40  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-++++|+|||||||+++.|++
T Consensus       130 ~vi~lvG~nGaGKTTll~~Lag  151 (328)
T 3e70_C          130 YVIMFVGFNGSGKTTTIAKLAN  151 (328)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999997

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=97.35  E-value=0.0001  Score=73.32  Aligned_cols=22  Identities=27%  Similarity=0.498  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..++|+|+||||||||++.|++
T Consensus       294 eVI~LVGpNGSGKTTLl~~LAg  315 (503)
T 2yhs_A          294 FVILMVGVNGVGKTTTIGKLAR  315 (503)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCcccHHHHHHHHHH
Confidence            4689999999999999999987

>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=97.31  E-value=0.00017  Score=67.38  Aligned_cols=79  Identities=19%  Similarity=0.106  Sum_probs=50.5

Q ss_pred             ccccEEEeccccccCCCchHHHHHHHHHHhcCC--CcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHH
Q psy2401         198 TIKPIIFVANVKENGFKNNLLLDQLKIYAHNQN--IPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFS  275 (363)
Q Consensus       198 ~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~--~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~  275 (363)
                      ..+|+++|+||.|+.  +....+++++++...+  .+++++||+...++.++......+++.-.|-.+.|--.+++.+..
T Consensus       114 ~~~piilv~NK~DL~--~~~~v~~~~~~~~~~~~~~~~~~~SAktg~gv~~lf~~l~geiv~l~G~sG~GKSTll~~l~g  191 (301)
T 1u0l_A          114 NELETVMVINKMDLY--DEDDLRKVRELEEIYSGLYPIVKTSAKTGMGIEELKEYLKGKISTMAGLSGVGKSSLLNAINP  191 (301)
T ss_dssp             TTCEEEEEECCGGGC--CHHHHHHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHSSSEEEEECSTTSSHHHHHHHHST
T ss_pred             CCCCEEEEEeHHHcC--CchhHHHHHHHHHHHhhhCcEEEEECCCCcCHHHHHHHhcCCeEEEECCCCCcHHHHHHHhcc
Confidence            367999999999964  2222233445544444  789999999887777664433333333455566777777776655


Q ss_pred             hCC
Q psy2401         276 LLD  278 (363)
Q Consensus       276 ~l~  278 (363)
                      .+.
T Consensus       192 ~~~  194 (301)
T 1u0l_A          192 GLK  194 (301)
T ss_dssp             TCC
T ss_pred             ccc
Confidence            443

>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=97.31  E-value=0.00025  Score=67.08  Aligned_cols=36  Identities=17%  Similarity=0.382  Sum_probs=28.1

Q ss_pred             eeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          66 AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        66 ~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ..+++|||+|......       ......++++++++|+|.++
T Consensus       167 v~l~iwDtgGQe~~R~-------~w~~yf~~~~~iIfV~dls~  202 (327)
T 3ohm_A          167 VIFRMVDVGGQRSERR-------KWIHCFENVTSIMFLVALSE  202 (327)
T ss_dssp             EEEEEEEECCSHHHHT-------TGGGGCSSCSEEEEEEEGGG
T ss_pred             eeeEEEEcCCchhHHH-------HHHHHhCCCCEEEEEEECcc
Confidence            6789999999755443       33466799999999999864

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=97.29  E-value=0.00018  Score=73.47  Aligned_cols=38  Identities=26%  Similarity=0.353  Sum_probs=33.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      -.++|+|++|||||||++.|+|           ..+|..|.+.++|.++
T Consensus       370 ~~~~ivG~sGsGKSTLl~~l~g-----------~~~p~~G~i~~~g~~~  407 (582)
T 3b60_A          370 KTVALVGRSGSGKSTIASLITR-----------FYDIDEGHILMDGHDL  407 (582)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTT-----------TTCCSEEEEEETTEET
T ss_pred             CEEEEECCCCCCHHHHHHHHhh-----------ccCCCCCeEEECCEEc
Confidence            5799999999999999999999           6678899999998543

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=97.28  E-value=6.8e-05  Score=64.33  Aligned_cols=37  Identities=19%  Similarity=0.443  Sum_probs=28.1

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecce---eEEEEeCC
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPN---IGIIEVPD   48 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~---~g~v~~~~   48 (363)
                      |...++|+|++|||||||++.|.+           -..|.   .|.+.+++
T Consensus         1 m~~~v~IvG~SGsGKSTL~~~L~~-----------~~~~~g~~~G~I~~dg   40 (171)
T 2f1r_A            1 MSLILSIVGTSDSGKTTLITRMMP-----------ILRERGLRVAVVKRHA   40 (171)
T ss_dssp             --CEEEEEESCHHHHHHHHHHHHH-----------HHHHTTCCEEEEEC--
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH-----------HhhhcCCceEEEEEcC
Confidence            556899999999999999999998           33444   68888877

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=97.25  E-value=0.0005  Score=63.69  Aligned_cols=48  Identities=21%  Similarity=0.234  Sum_probs=35.6

Q ss_pred             ccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHHHHhcC
Q psy2401         198 TIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEEEISDL  247 (363)
Q Consensus       198 ~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~~i~el  247 (363)
                      ..||.++++||+|..  +.+..+...+++++.+.+++++||+....+.++
T Consensus        49 ~~kp~ilVlNK~DL~--~~~~~~~~~~~~~~~g~~~i~iSA~~~~gi~~L   96 (282)
T 1puj_A           49 KNKPRIMLLNKADKA--DAAVTQQWKEHFENQGIRSLSINSVNGQGLNQI   96 (282)
T ss_dssp             SSSCEEEEEECGGGS--CHHHHHHHHHHHHTTTCCEEECCTTTCTTGGGH
T ss_pred             CCCCEEEEEECcccC--CHHHHHHHHHHHHhcCCcEEEEECCCcccHHHH
Confidence            689999999999963  344444555556666789999999977666655

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=97.21  E-value=0.00019  Score=73.27  Aligned_cols=37  Identities=27%  Similarity=0.364  Sum_probs=33.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -.++|+|++|||||||++.|+|           ..+|..|.+.++|.+
T Consensus       370 ~~~~ivG~sGsGKSTll~~l~g-----------~~~p~~G~i~~~g~~  406 (582)
T 3b5x_A          370 KTVALVGRSGSGKSTIANLFTR-----------FYDVDSGSICLDGHD  406 (582)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCCCEEEECCEE
Confidence            4799999999999999999999           667889999998854

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=97.20  E-value=0.00021  Score=73.22  Aligned_cols=38  Identities=29%  Similarity=0.399  Sum_probs=34.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      -.++|+|++|||||||++.|+|           ..+|..|.+.++|..+
T Consensus       382 ~~~~ivG~sGsGKSTll~~l~g-----------~~~p~~G~i~~~g~~i  419 (598)
T 3qf4_B          382 QKVALVGPTGSGKTTIVNLLMR-----------FYDVDRGQILVDGIDI  419 (598)
T ss_dssp             CEEEEECCTTSSTTHHHHHHTT-----------SSCCSEEEEEETTEEG
T ss_pred             CEEEEECCCCCcHHHHHHHHhc-----------CcCCCCeEEEECCEEh
Confidence            4799999999999999999999           6778999999999644

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.19  E-value=0.00016  Score=61.05  Aligned_cols=24  Identities=29%  Similarity=0.264  Sum_probs=21.9

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |+..|+|+|+|||||||+.+.|.+
T Consensus         3 ~~~~i~l~G~~GsGKSTl~~~La~   26 (173)
T 1kag_A            3 EKRNIFLVGPMGAGKSTIGRQLAQ   26 (173)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHH
Confidence            456899999999999999999987

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=97.19  E-value=0.00017  Score=73.62  Aligned_cols=38  Identities=24%  Similarity=0.407  Sum_probs=33.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      -.++|+|++|||||||++.|+|           ..+|..|.+.++|.++
T Consensus       368 ~~~~ivG~sGsGKSTll~~l~g-----------~~~p~~G~i~~~g~~~  405 (578)
T 4a82_A          368 ETVAFVGMSGGGKSTLINLIPR-----------FYDVTSGQILIDGHNI  405 (578)
T ss_dssp             CEEEEECSTTSSHHHHHTTTTT-----------SSCCSEEEEEETTEEG
T ss_pred             CEEEEECCCCChHHHHHHHHhc-----------CCCCCCcEEEECCEEh
Confidence            4799999999999999999999           6678999999999643

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=97.19  E-value=0.00033  Score=67.89  Aligned_cols=37  Identities=30%  Similarity=0.499  Sum_probs=31.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      -.++|+|++|||||||+++|+|           ... ..|.+.++|..+
T Consensus        48 e~~~llGpsGsGKSTLLr~iaG-----------l~~-~~G~I~i~G~~i   84 (390)
T 3gd7_A           48 QRVGLLGRTGSGKSTLLSAFLR-----------LLN-TEGEIQIDGVSW   84 (390)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHT-----------CSE-EEEEEEESSCBT
T ss_pred             CEEEEECCCCChHHHHHHHHhC-----------CCC-CCeEEEECCEEC
Confidence            3589999999999999999998           333 579999998644

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.19  E-value=0.00026  Score=60.75  Aligned_cols=22  Identities=41%  Similarity=0.404  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..++|+|+||||||||++.|++
T Consensus        10 ~~i~l~G~~GsGKSTl~~~La~   31 (191)
T 1zp6_A           10 NILLLSGHPGSGKSTIAEALAN   31 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            4689999999999999999998

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.16  E-value=0.00016  Score=63.18  Aligned_cols=23  Identities=35%  Similarity=0.330  Sum_probs=21.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ..++|+|++|||||||++.|++.
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~   27 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQE   27 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            57999999999999999999974

>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=97.16  E-value=0.0012  Score=64.15  Aligned_cols=36  Identities=14%  Similarity=0.317  Sum_probs=28.3

Q ss_pred             eeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          66 AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        66 ~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ..+++|||+|......       ......++++++|+|+|.++
T Consensus       217 v~l~iwDtaGQe~~r~-------~w~~yf~~a~~iIfV~dis~  252 (402)
T 1azs_C          217 VNFHMFDVGGQRDERR-------KWIQCFNDVTAIIFVVASSS  252 (402)
T ss_dssp             EEEEEEEECCSGGGGG-------GGGGGTTTCCEEEEEEETTG
T ss_pred             ccceecccchhhhhhh-------hhHhhccCCCEEEEEEECcc
Confidence            6799999999765444       33456689999999999964

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=97.15  E-value=0.00025  Score=72.50  Aligned_cols=38  Identities=32%  Similarity=0.524  Sum_probs=34.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      -.++|+|++|||||||++.|+|           ..+|..|.+.++|.++
T Consensus       370 e~~~ivG~sGsGKSTll~~l~g-----------~~~~~~G~i~i~g~~i  407 (587)
T 3qf4_A          370 SLVAVLGETGSGKSTLMNLIPR-----------LIDPERGRVEVDELDV  407 (587)
T ss_dssp             CEEEEECSSSSSHHHHHHTTTT-----------SSCCSEEEEEESSSBG
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CccCCCcEEEECCEEc
Confidence            5799999999999999999999           6678999999999654

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.15  E-value=0.00018  Score=63.17  Aligned_cols=22  Identities=45%  Similarity=0.537  Sum_probs=20.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..++|+|+||||||||++.|++
T Consensus        23 ~~v~I~G~sGsGKSTl~~~l~~   44 (208)
T 3c8u_A           23 QLVALSGAPGSGKSTLSNPLAA   44 (208)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999998

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.15  E-value=0.0002  Score=62.15  Aligned_cols=23  Identities=26%  Similarity=0.224  Sum_probs=21.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      .-++|+|+||||||||++.|++.
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECcCCCCHHHHHHHHHhh
Confidence            56899999999999999999984

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=97.14  E-value=0.0002  Score=62.84  Aligned_cols=23  Identities=35%  Similarity=0.332  Sum_probs=20.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      .-++|+|+||||||||+++|+|.
T Consensus        21 ei~~l~GpnGsGKSTLl~~l~gl   43 (207)
T 1znw_A           21 RVVVLSGPSAVGKSTVVRCLRER   43 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            45899999999999999999983

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=97.13  E-value=0.0002  Score=67.96  Aligned_cols=36  Identities=22%  Similarity=0.281  Sum_probs=30.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      ..++|+|++|||||||+++|++           ...|..|.+.++|.
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g-----------~~~~~~g~i~i~~~  207 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIME-----------FIPKEERIISIEDT  207 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGG-----------GSCTTSCEEEEESS
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCcCCCcEEEECCe
Confidence            4689999999999999999999           55677788888774

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=97.10  E-value=0.0002  Score=61.60  Aligned_cols=24  Identities=33%  Similarity=0.325  Sum_probs=22.1

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |+.-++|+|+||||||||++.|++
T Consensus         1 mg~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            1 MKKLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhc
Confidence            667789999999999999999986

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=97.06  E-value=0.00028  Score=67.69  Aligned_cols=35  Identities=29%  Similarity=0.348  Sum_probs=29.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD   48 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~   48 (363)
                      ..++|+|++|||||||+++|++           ...|..|.+.+.|
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~-----------~~~~~~g~I~ie~  210 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQ-----------EIPFDQRLITIED  210 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHT-----------TSCTTSCEEEEES
T ss_pred             CEEEEECCCCCCHHHHHHHHHh-----------cCCCCceEEEECC
Confidence            4689999999999999999998           4456677777765

>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=97.04  E-value=0.0012  Score=63.14  Aligned_cols=36  Identities=17%  Similarity=0.281  Sum_probs=27.4

Q ss_pred             eeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          66 AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        66 ~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ..+++|||+|......       ......++++++++|+|.++
T Consensus       183 v~l~iwDtaGQe~~r~-------~~~~y~~~~~~iI~v~dis~  218 (354)
T 2xtz_A          183 EVYRLFDVGGQRNERR-------KWIHLFEGVTAVIFCAAISE  218 (354)
T ss_dssp             -EEEEEEECCSTTGGG-------GTGGGCTTEEEEEEEEEGGG
T ss_pred             eeeEEEECCCchhhhH-------HHHHHhCCCCEEEEEEECcc
Confidence            6799999999765444       33356689999999999863

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=96.99  E-value=0.00036  Score=62.19  Aligned_cols=23  Identities=30%  Similarity=0.247  Sum_probs=21.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      .-++|+|++|||||||+++|++.
T Consensus        17 ~ii~l~GpsGsGKSTLlk~L~g~   39 (219)
T 1s96_A           17 TLYIVSAPSGAGKSSLIQALLKT   39 (219)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhcc
Confidence            46899999999999999999984

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.96  E-value=0.00032  Score=62.24  Aligned_cols=22  Identities=32%  Similarity=0.401  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..++|+|++|||||||++.|++
T Consensus        24 ~~~~lvGpsGsGKSTLl~~L~g   45 (218)
T 1z6g_A           24 YPLVICGPSGVGKGTLIKKLLN   45 (218)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            4689999999999999999998

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.96  E-value=0.00028  Score=62.38  Aligned_cols=22  Identities=23%  Similarity=0.031  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -.++|+|+||||||||+++|+|
T Consensus        23 e~~~liG~nGsGKSTLl~~l~G   44 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAV   44 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4689999999999999999998

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.95  E-value=0.00022  Score=65.28  Aligned_cols=37  Identities=19%  Similarity=0.065  Sum_probs=28.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecce-eEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPN-IGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~-~g~v~~~~~~   50 (363)
                      -.++|+|++|||||||+++|++           ...|. .|.+.+.+.+
T Consensus        26 ~~v~i~Gp~GsGKSTll~~l~g-----------~~~~~~~G~I~~~g~~   63 (261)
T 2eyu_A           26 GLILVTGPTGSGKSTTIASMID-----------YINQTKSYHIITIEDP   63 (261)
T ss_dssp             EEEEEECSTTCSHHHHHHHHHH-----------HHHHHCCCEEEEEESS
T ss_pred             CEEEEECCCCccHHHHHHHHHH-----------hCCCCCCCEEEEcCCc
Confidence            3589999999999999999998           34454 5666665543

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=96.93  E-value=0.00019  Score=71.36  Aligned_cols=37  Identities=19%  Similarity=0.317  Sum_probs=29.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      .++|+|+||||||||+++|+|           ...|..|.+.+++..+
T Consensus        31 ~~~liG~nGsGKSTLl~~l~G-----------l~~p~~G~I~~~g~~~   67 (483)
T 3euj_A           31 VTTLSGGNGAGKSTTMAGFVT-----------ALIPDLTLLNFRNTTE   67 (483)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH-----------HHCCCTTTCCCCCTTS
T ss_pred             eEEEECCCCCcHHHHHHHHhc-----------CCCCCCCEEEECCEEc
Confidence            479999999999999999998           4456666666666443

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=96.93  E-value=0.00044  Score=60.25  Aligned_cols=24  Identities=38%  Similarity=0.468  Sum_probs=22.0

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |.+.|+|+|++||||||+.+.|.+
T Consensus         1 m~~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            1 MTYIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            556899999999999999999986

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.91  E-value=0.00041  Score=60.62  Aligned_cols=23  Identities=35%  Similarity=0.485  Sum_probs=21.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ..|||+|++|||||||++.|.+.
T Consensus         7 ~~i~i~G~~GsGKSTl~~~l~~~   29 (211)
T 3asz_A            7 FVIGIAGGTASGKTTLAQALART   29 (211)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999999983

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=96.89  E-value=0.00056  Score=60.05  Aligned_cols=39  Identities=28%  Similarity=0.145  Sum_probs=27.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc--cccCCCceeeccee
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI--SAENYPFCTIEPNI   41 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~--~~~~~p~~t~~~~~   41 (363)
                      .-++|+||+|||||||++.|++...  .....+.+|..|..
T Consensus         9 ~~i~l~GpsGsGKsTl~~~L~~~~~~~~~~~~~~~tr~~~~   49 (208)
T 3tau_A            9 LLIVLSGPSGVGKGTVREAVFKDPETSFDYSISMTTRLPRE   49 (208)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHSTTCCCEECCCEESSCCCT
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhCCCcEEEEEecccccCcC
Confidence            4589999999999999999997521  22333444544443

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=96.89  E-value=0.00068  Score=64.69  Aligned_cols=38  Identities=24%  Similarity=0.403  Sum_probs=30.6

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      +-+++|+|+||||||||++.|++           ...|..|.+.+.|.+
T Consensus        71 Gq~~gIiG~nGaGKTTLl~~I~g-----------~~~~~~g~i~~~G~~  108 (347)
T 2obl_A           71 GQRIGIFAGSGVGKSTLLGMICN-----------GASADIIVLALIGER  108 (347)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHH-----------HSCCSEEEEEEESCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc-----------CCCCCEEEEEEeccc
Confidence            35799999999999999999999           445667777766643

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.85  E-value=0.00055  Score=60.39  Aligned_cols=23  Identities=26%  Similarity=0.312  Sum_probs=21.2

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+|+|++||||||+.+.|.+
T Consensus         5 ~~~i~i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A            5 APVITIDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999986

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.85  E-value=0.00046  Score=58.71  Aligned_cols=21  Identities=38%  Similarity=0.328  Sum_probs=18.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -++|+|+||||||||++++.+
T Consensus        11 i~~l~G~nGsGKSTl~~~~~~   31 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKKHFK   31 (171)
T ss_dssp             EEEEECCTTSCHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHcc
Confidence            589999999999999998653

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=96.85  E-value=0.0015  Score=59.71  Aligned_cols=69  Identities=17%  Similarity=0.099  Sum_probs=43.2

Q ss_pred             cccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhh-------cCCCchhHHHHHH
Q psy2401         199 IKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDN-------LGLKETKLNDLIR  271 (363)
Q Consensus       199 ~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~-------~~l~~~~l~~l~~  271 (363)
                      .||.++++||+|+.  +.+..+...+++++.+.++ ++||+....+.++     .+.+..       .|.+..|--.+++
T Consensus        46 ~k~~iivlNK~DL~--~~~~~~~~~~~~~~~g~~v-~iSa~~~~gi~~L-----~~~l~~~~~~v~~vG~~~vGKSslin  117 (262)
T 3cnl_A           46 RKETIILLNKVDIA--DEKTTKKWVEFFKKQGKRV-ITTHKGEPRKVLL-----KKLSFDRLARVLIVGVPNTGKSTIIN  117 (262)
T ss_dssp             TSEEEEEEECGGGS--CHHHHHHHHHHHHHTTCCE-EECCTTSCHHHHH-----HHHCCCTTCEEEEEESTTSSHHHHHH
T ss_pred             CCCcEEEEECccCC--CHHHHHHHHHHHHHcCCeE-EEECCCCcCHHHH-----HHHHHHhhhheEEeCCCCCCHHHHHH
Confidence            79999999999963  3444445555566667788 9999876555433     222222       2445566666666


Q ss_pred             HHHH
Q psy2401         272 ASFS  275 (363)
Q Consensus       272 ~~~~  275 (363)
                      +...
T Consensus       118 ~l~~  121 (262)
T 3cnl_A          118 KLKG  121 (262)
T ss_dssp             HHHT
T ss_pred             HHhc
Confidence            6553

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=96.84  E-value=0.00058  Score=69.00  Aligned_cols=35  Identities=23%  Similarity=0.369  Sum_probs=29.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD   48 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~   48 (363)
                      -.+||+|+||||||||+++|+|           ...|..|.+.+.+
T Consensus       295 ei~~i~G~nGsGKSTLl~~l~G-----------l~~p~~G~i~~~~  329 (538)
T 3ozx_A          295 EIIGILGPNGIGKTTFARILVG-----------EITADEGSVTPEK  329 (538)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT-----------SSCCSBCCEESSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCcEEEECC
Confidence            4689999999999999999999           5567778877665

>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=96.84  E-value=0.00022  Score=67.17  Aligned_cols=22  Identities=27%  Similarity=0.341  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      -++|+|++|||||||+|.|.+.
T Consensus         6 v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            6 VTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHS
T ss_pred             EEEEEecCCCCHHHHHHHHHhh
Confidence            4789999999999999999974

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.83  E-value=0.00049  Score=59.88  Aligned_cols=23  Identities=35%  Similarity=0.511  Sum_probs=21.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ..++|+|+||||||||++.|++.
T Consensus         2 ~~i~i~G~nG~GKTTll~~l~g~   24 (189)
T 2i3b_A            2 RHVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCChHHHHHHHHHhh
Confidence            46899999999999999999983

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.82  E-value=0.0006  Score=68.47  Aligned_cols=36  Identities=25%  Similarity=0.465  Sum_probs=29.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      ..++++|+||||||||+++|++           .+.|..+.+.+.|.
T Consensus       261 ~~i~I~GptGSGKTTlL~aL~~-----------~i~~~~giitied~  296 (511)
T 2oap_1          261 FSAIVVGETASGKTTTLNAIMM-----------FIPPDAKVVSIEDT  296 (511)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGG-----------GSCTTCCEEEEESS
T ss_pred             CEEEEECCCCCCHHHHHHHHHh-----------hCCCCCCEEEEcCc
Confidence            4589999999999999999998           44566777777664

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.81  E-value=0.00063  Score=59.10  Aligned_cols=23  Identities=30%  Similarity=0.374  Sum_probs=21.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .++|+|+|++||||||+.+.|.+
T Consensus         1 m~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            1 MKRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCcCHHHHHHHHHH
Confidence            06899999999999999999987

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.78  E-value=0.00047  Score=61.42  Aligned_cols=23  Identities=30%  Similarity=0.248  Sum_probs=15.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHH-cC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALT-KL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt-~~   25 (363)
                      .-++|+|++|||||||++.|+ +.
T Consensus        28 ~ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           28 VILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             CEEEEECSCC----CHHHHHHC--
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            468999999999999999999 74

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=96.77  E-value=0.00052  Score=64.23  Aligned_cols=22  Identities=32%  Similarity=0.303  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..|||+|++|||||||++.|.+
T Consensus        81 ~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           81 YIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999998

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=96.76  E-value=0.00049  Score=76.70  Aligned_cols=39  Identities=23%  Similarity=0.290  Sum_probs=34.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      +-+|||||++|||||||+++|.+           -.+|..|.+.++|..+
T Consensus      1105 Ge~vaIVG~SGsGKSTL~~lL~r-----------l~~p~~G~I~iDG~di 1143 (1321)
T 4f4c_A         1105 GQTLALVGPSGCGKSTVVALLER-----------FYDTLGGEIFIDGSEI 1143 (1321)
T ss_dssp             TCEEEEECSTTSSTTSHHHHHTT-----------SSCCSSSEEEETTEET
T ss_pred             CCEEEEECCCCChHHHHHHHHhc-----------CccCCCCEEEECCEEh
Confidence            35899999999999999999999           7789999999999644

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=96.76  E-value=0.0011  Score=64.97  Aligned_cols=22  Identities=27%  Similarity=0.345  Sum_probs=19.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..|+++|++||||||++..|+.
T Consensus        98 ~vI~lvG~~GsGKTTt~~kLA~  119 (433)
T 3kl4_A           98 FIIMLVGVQGSGKTTTAGKLAY  119 (433)
T ss_dssp             EEEEECCCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999999983

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=96.76  E-value=0.00064  Score=72.94  Aligned_cols=35  Identities=34%  Similarity=0.483  Sum_probs=30.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD   48 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~   48 (363)
                      -.++|+|+||||||||++.|+|           ...|..|.+.+.+
T Consensus       700 eivaIiGpNGSGKSTLLklLaG-----------ll~P~sG~I~~~~  734 (986)
T 2iw3_A          700 SRIAVIGPNGAGKSTLINVLTG-----------ELLPTSGEVYTHE  734 (986)
T ss_dssp             CEEEECSCCCHHHHHHHHHHTT-----------SSCCSEEEEEECT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCceEEEEcC
Confidence            4799999999999999999999           5667889888865

>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=96.75  E-value=0.0012  Score=61.74  Aligned_cols=78  Identities=14%  Similarity=0.041  Sum_probs=51.3

Q ss_pred             ccccEEEeccccccCCCchH---HHHHHHHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHH
Q psy2401         198 TIKPIIFVANVKENGFKNNL---LLDQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASF  274 (363)
Q Consensus       198 ~~kp~i~v~Nk~d~~~~~~~---~~~~i~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~  274 (363)
                      ..+|.++|+||+|+.  ++.   ..+.+.+++.+.+.+++++||+...++.+|.+....+...=.|-++.|--.+++.+.
T Consensus       109 ~~~~~ilV~NK~DL~--~~~~v~~~~~~~~~~~~~g~~~~~~SA~~g~gi~~L~~~l~G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          109 FKVEPVIVFNKIDLL--NEEEKKELERWISIYRDAGYDVLKVSAKTGEGIDELVDYLEGFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             TTCEEEEEECCGGGC--CHHHHHHHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHTTTCEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCCEEEEEEcccCC--CccccHHHHHHHHHHHHCCCeEEEEECCCCCCHHHHHhhccCcEEEEECCCCCCHHHHHHHHH
Confidence            568999999999963  222   245556666667889999999987777655332222222224556677778888777


Q ss_pred             HhCC
Q psy2401         275 SLLD  278 (363)
Q Consensus       275 ~~l~  278 (363)
                       .+.
T Consensus       187 -~~~  189 (302)
T 2yv5_A          187 -GEE  189 (302)
T ss_dssp             -SCC
T ss_pred             -Hhh
Confidence             543

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.74  E-value=0.00078  Score=56.90  Aligned_cols=24  Identities=33%  Similarity=0.321  Sum_probs=22.4

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |++.|.+.|+|||||||+.+.|..
T Consensus         1 M~~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            1 MKKIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEecCCCCCHHHHHHHHHh
Confidence            778899999999999999999985

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=96.72  E-value=0.00082  Score=60.45  Aligned_cols=21  Identities=29%  Similarity=0.604  Sum_probs=20.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHH
Q psy2401           3 LKCGLIGLPNVGKSTLFNALT   23 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt   23 (363)
                      ..|+|+|+||||||||++.|+
T Consensus        28 ~~i~l~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           28 LRAVILGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            579999999999999999999

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.72  E-value=0.00075  Score=58.47  Aligned_cols=24  Identities=29%  Similarity=0.250  Sum_probs=21.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      +..++|+|++||||||+++.|.+.
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~   29 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFED   29 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            467999999999999999999984

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=96.68  E-value=0.00057  Score=63.99  Aligned_cols=22  Identities=27%  Similarity=0.400  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..++|+|++|||||||++.|++
T Consensus       103 ~vi~lvG~nGsGKTTll~~Lag  124 (304)
T 1rj9_A          103 RVVLVVGVNGVGKTTTIAKLGR  124 (304)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHH
Confidence            4689999999999999999997

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=96.67  E-value=0.00079  Score=63.04  Aligned_cols=22  Identities=45%  Similarity=0.582  Sum_probs=20.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -.++|+|+||||||||++.|+|
T Consensus       127 e~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          127 NCLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHhh
Confidence            4799999999999999999997

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.66  E-value=0.0009  Score=58.19  Aligned_cols=22  Identities=18%  Similarity=0.403  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..++|+|+||||||||++.|.+
T Consensus        30 ~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           30 RHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999986

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=96.65  E-value=0.0012  Score=64.99  Aligned_cols=37  Identities=22%  Similarity=0.411  Sum_probs=31.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -+++|+|++|||||||++.|++           ..+|..|.+.+.|.+
T Consensus       158 q~~~IvG~sGsGKSTLl~~Iag-----------~~~~~~G~i~~~G~r  194 (438)
T 2dpy_A          158 QRMGLFAGSGVGKSVLLGMMAR-----------YTRADVIVVGLIGER  194 (438)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH-----------HSCCSEEEEEEESCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------ccCCCeEEEEEecee
Confidence            4799999999999999999999           456778888888763

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=96.62  E-value=0.00072  Score=63.11  Aligned_cols=22  Identities=27%  Similarity=0.336  Sum_probs=19.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..++++|++|+||||++..|++
T Consensus        99 ~vi~i~G~~G~GKTT~~~~la~  120 (297)
T 1j8m_F           99 YVIMLVGVQGTGKTTTAGKLAY  120 (297)
T ss_dssp             EEEEEECSSCSSTTHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3588999999999999999984

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.62  E-value=0.00055  Score=64.03  Aligned_cols=22  Identities=23%  Similarity=0.333  Sum_probs=20.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-++++|+|||||||+++.|++
T Consensus       101 ~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A          101 AVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            3689999999999999999998

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=96.62  E-value=0.0012  Score=73.27  Aligned_cols=39  Identities=21%  Similarity=0.445  Sum_probs=34.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLK   52 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~   52 (363)
                      -++||+|++|||||||++.|.|           ..+|..|.+.++|..+.
T Consensus       417 ~~~~ivG~sGsGKSTl~~ll~g-----------~~~~~~G~i~i~g~~i~  455 (1284)
T 3g5u_A          417 QTVALVGNSGCGKSTTVQLMQR-----------LYDPLDGMVSIDGQDIR  455 (1284)
T ss_dssp             CEEEEECCSSSSHHHHHHHTTT-----------SSCCSEEEEEETTEEGG
T ss_pred             CEEEEECCCCCCHHHHHHHHhC-----------CCCCCCeEEEECCEEHH
Confidence            5799999999999999999999           66788999999886543

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.61  E-value=0.00073  Score=58.68  Aligned_cols=41  Identities=24%  Similarity=0.170  Sum_probs=30.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCc--cccCCCceeecceeEEE
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKI--SAENYPFCTIEPNIGII   44 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~--~~~~~p~~t~~~~~g~v   44 (363)
                      -|+|+||+|||||||++.|.....  -.-..+.||..|..|.+
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~~~~~~~~~svs~TTR~pR~gE~   45 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFAEYPDSFGFSVSSTTRTPRAGEV   45 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHCTTTEEECCCEECSCCCTTCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhCCCCeEEEEEEeccCCCCCCc
Confidence            488999999999999999986421  22355677887776643

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=96.61  E-value=0.00054  Score=67.87  Aligned_cols=23  Identities=22%  Similarity=0.367  Sum_probs=21.3

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +..++|+|++|||||||++.|+|
T Consensus       138 Ge~v~IvGpnGsGKSTLlr~L~G  160 (460)
T 2npi_A          138 GPRVVIVGGSQTGKTSLSRTLCS  160 (460)
T ss_dssp             CCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35799999999999999999999

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=96.61  E-value=0.00069  Score=68.48  Aligned_cols=22  Identities=32%  Similarity=0.505  Sum_probs=20.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      -+||+|+||||||||+++|+|.
T Consensus        27 i~gLiGpNGaGKSTLlkiL~Gl   48 (538)
T 3ozx_A           27 ILGVLGKNGVGKTTVLKILAGE   48 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            5899999999999999999994

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=96.59  E-value=0.0015  Score=72.79  Aligned_cols=41  Identities=22%  Similarity=0.344  Sum_probs=35.6

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKH   53 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~   53 (363)
                      +-+++|||++|||||||++.|.|           -.+|..|.+.++|..+..
T Consensus       444 G~~vaivG~sGsGKSTll~ll~~-----------~~~~~~G~I~idG~~i~~  484 (1321)
T 4f4c_A          444 GQTVALVGSSGCGKSTIISLLLR-----------YYDVLKGKITIDGVDVRD  484 (1321)
T ss_dssp             TCEEEEEECSSSCHHHHHHHHTT-----------SSCCSEEEEEETTEETTT
T ss_pred             CcEEEEEecCCCcHHHHHHHhcc-----------ccccccCcccCCCccchh
Confidence            35799999999999999999999           678999999999865543

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=96.57  E-value=0.0015  Score=72.55  Aligned_cols=38  Identities=26%  Similarity=0.426  Sum_probs=34.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      -++||+|++|||||||++.|.|           ..+|..|.+.++|..+
T Consensus      1060 e~v~ivG~sGsGKSTl~~~l~g-----------~~~p~~G~I~i~g~~i 1097 (1284)
T 3g5u_A         1060 QTLALVGSSGCGKSTVVQLLER-----------FYDPMAGSVFLDGKEI 1097 (1284)
T ss_dssp             SEEEEECSSSTTHHHHHHHHTT-----------SSCCSEEEEESSSSCT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CcCCCCCEEEECCEEc
Confidence            5799999999999999999999           6778999999998643

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=96.57  E-value=0.00082  Score=67.92  Aligned_cols=22  Identities=27%  Similarity=0.505  Sum_probs=20.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -.+||+|+||||||||+++|+|
T Consensus       313 e~~~i~G~NGsGKSTLlk~l~G  334 (538)
T 1yqt_A          313 EVIGIVGPNGIGKTTFVKMLAG  334 (538)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4689999999999999999999

>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=96.55  E-value=0.0028  Score=60.16  Aligned_cols=36  Identities=17%  Similarity=0.302  Sum_probs=28.1

Q ss_pred             eeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          66 AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        66 ~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ..+++|||+|.....       .......++++++|+|+|+++
T Consensus       161 v~l~iwDtaGQe~~R-------~~w~~yy~~a~~iIfV~diS~  196 (340)
T 4fid_A          161 IPFHLIDVGGQRSER-------KXWVSFFSDVDCAIFVTSLAE  196 (340)
T ss_dssp             CEEEEEECCSCHHHH-------HHHHTTSCSCSEEEEEEEGGG
T ss_pred             eeeccccCCCccccc-------ccHHHHhccCCEEEEEEECCc
Confidence            679999999964322       345567799999999999974

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.55  E-value=0.0011  Score=57.59  Aligned_cols=23  Identities=22%  Similarity=0.304  Sum_probs=20.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+|+|++||||||+.+.|.+
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~   40 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAE   40 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999999976

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=96.55  E-value=0.00097  Score=67.37  Aligned_cols=23  Identities=30%  Similarity=0.475  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      -.+||+|+||||||||+++|+|.
T Consensus        48 e~~~LvG~NGaGKSTLlk~l~Gl   70 (538)
T 1yqt_A           48 MVVGIVGPNGTGKSTAVKILAGQ   70 (538)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999999994

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.55  E-value=0.001  Score=59.82  Aligned_cols=22  Identities=27%  Similarity=0.392  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..|||+|++|||||||++.|.+
T Consensus        26 ~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           26 FLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999987

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.53  E-value=0.001  Score=58.44  Aligned_cols=21  Identities=24%  Similarity=0.264  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -++|+|+||||||||++.|++
T Consensus        27 ~~~l~G~nGsGKSTll~~l~g   47 (231)
T 4a74_A           27 ITEVFGEFGSGKTQLAHTLAV   47 (231)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999997

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=96.53  E-value=0.001  Score=63.64  Aligned_cols=23  Identities=30%  Similarity=0.423  Sum_probs=21.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.+++|+|++|||||||++.|+|
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~g  192 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAA  192 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999999998

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=96.53  E-value=0.0011  Score=62.34  Aligned_cols=22  Identities=36%  Similarity=0.412  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-+||+|++|||||||++.|++
T Consensus        91 ~ivgI~G~sGsGKSTL~~~L~g  112 (312)
T 3aez_A           91 FIIGVAGSVAVGKSTTARVLQA  112 (312)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEECCCCchHHHHHHHHHh
Confidence            4689999999999999999998

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=96.50  E-value=0.00091  Score=68.54  Aligned_cols=22  Identities=27%  Similarity=0.505  Sum_probs=20.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -.+||+|+||||||||+++|+|
T Consensus       383 ei~~i~G~NGsGKSTLlk~l~G  404 (607)
T 3bk7_A          383 EVIGIVGPNGIGKTTFVKMLAG  404 (607)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4689999999999999999999

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=96.46  E-value=0.0012  Score=67.71  Aligned_cols=23  Identities=35%  Similarity=0.486  Sum_probs=21.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      -.+||+|+||||||||++.|+|.
T Consensus       104 ei~~LvGpNGaGKSTLLkiL~Gl  126 (608)
T 3j16_B          104 QVLGLVGTNGIGKSTALKILAGK  126 (608)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCChHHHHHHHHhcC
Confidence            46899999999999999999994

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.45  E-value=0.0014  Score=55.94  Aligned_cols=24  Identities=50%  Similarity=0.645  Sum_probs=21.6

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |++.|+|+|+|||||||+.+.|..
T Consensus         1 M~~~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            1 MAPKAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             -CCSEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHH
Confidence            788999999999999999999975

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=96.43  E-value=0.0018  Score=54.72  Aligned_cols=24  Identities=25%  Similarity=0.199  Sum_probs=21.9

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |++-|.|+|++||||||+.+.|..
T Consensus         2 ~~~~i~l~G~~GsGKST~a~~La~   25 (178)
T 1qhx_A            2 TTRMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            567899999999999999999986

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.43  E-value=0.0014  Score=55.31  Aligned_cols=22  Identities=23%  Similarity=0.348  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..++|+|+|||||||+.+.|.+
T Consensus         9 ~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            9 HIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            4689999999999999999986

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=96.37  E-value=0.0013  Score=67.30  Aligned_cols=23  Identities=26%  Similarity=0.465  Sum_probs=21.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      -.+||+|+||||||||++.|+|.
T Consensus       118 e~~~LiG~NGsGKSTLlkiL~Gl  140 (607)
T 3bk7_A          118 MVVGIVGPNGTGKTTAVKILAGQ  140 (607)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCChHHHHHHHHhCC
Confidence            46899999999999999999994

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=96.36  E-value=0.0039  Score=59.83  Aligned_cols=110  Identities=15%  Similarity=0.230  Sum_probs=63.1

Q ss_pred             ccccEEEeccccccCCCch----HHHHHHHHHHhcCCC---cEEEeeHHHHHHHhcCCHHHHHHHHhh-----cCCCchh
Q psy2401         198 TIKPIIFVANVKENGFKNN----LLLDQLKIYAHNQNI---PIIIICAKLEEEISDLNNIDKKFFLDN-----LGLKETK  265 (363)
Q Consensus       198 ~~kp~i~v~Nk~d~~~~~~----~~~~~i~~~~~~~~~---~~i~~sa~~e~~i~el~~~~~~~~l~~-----~~l~~~~  265 (363)
                      ..+|+++|+||.|.. .+.    ...+.+++.+.+.|.   +++.+||+...++.++-+.. .+++..     .|-+..|
T Consensus        97 ~~~piilV~NK~DLl-~~~~~~~~~~~~l~~~~~~~g~~~~~v~~iSA~~g~gi~~L~~~I-~~~~~~~~i~~vG~~nvG  174 (369)
T 3ec1_A           97 ADNPILLVGNKADLL-PRSVKYPKLLRWMRRMAEELGLCPVDVCLVSAAKGIGMAKVMEAI-NRYREGGDVYVVGCTNVG  174 (369)
T ss_dssp             TTSCEEEEEECGGGS-CTTCCHHHHHHHHHHHHHTTTCCCSEEEECBTTTTBTHHHHHHHH-HHHHTTSCEEEECCTTSS
T ss_pred             CCCCEEEEEEChhcC-CCccCHHHHHHHHHHHHHHcCCCcccEEEEECCCCCCHHHHHHHH-HhhcccCcEEEEcCCCCc
Confidence            478999999999973 222    122333444556665   68999999877776653322 223332     2446677


Q ss_pred             HHHHHHHHHHh------CCCEEEEeCCCCceEEEeecCCCCHHHhhhhhh
Q psy2401         266 LNDLIRASFSL------LDLRTYFTVGKKEIRAWTIPNGTTAEQAAGIIH  309 (363)
Q Consensus       266 l~~l~~~~~~~------l~li~~ft~g~~e~raw~~~~g~ta~~~A~~IH  309 (363)
                      --.++++++..      .-..+-++.-.....-..+..+.+..|..|.++
T Consensus       175 KStliN~L~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~~~~liDtPG~~~  224 (369)
T 3ec1_A          175 KSTFINRIIEEATGKGNVITTSYFPGTTLDMIEIPLESGATLYDTPGIIN  224 (369)
T ss_dssp             HHHHHHHHHHHHHHTTCCCEEEECTTSSCEEEEEECSTTCEEEECCSCCC
T ss_pred             hHHHHHHHHhhccCCccceeecCCCCeEEeeEEEEeCCCeEEEeCCCcCc
Confidence            77777777765      222222222122233445566666667666653

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=96.35  E-value=0.0019  Score=54.03  Aligned_cols=22  Identities=32%  Similarity=0.067  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.|+|.|++||||||+.+.|..
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~   23 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSK   23 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999975

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.35  E-value=0.002  Score=56.06  Aligned_cols=24  Identities=38%  Similarity=0.549  Sum_probs=21.6

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      +..|+|+|++||||||+.+.|.+.
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHh
Confidence            357999999999999999999984

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=96.34  E-value=0.0011  Score=63.62  Aligned_cols=22  Identities=23%  Similarity=0.333  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..++++|+|||||||+++.|++
T Consensus       158 ~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          158 AVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEEcCCCChHHHHHHHHHh
Confidence            3589999999999999999998

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.31  E-value=0.0019  Score=56.09  Aligned_cols=22  Identities=41%  Similarity=0.397  Sum_probs=20.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..|+|+|++|||||||.+.|.+
T Consensus        26 ~~i~l~G~sGsGKSTl~~~La~   47 (200)
T 3uie_A           26 CVIWVTGLSGSGKSTLACALNQ   47 (200)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999999987

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=96.28  E-value=0.0017  Score=55.28  Aligned_cols=22  Identities=36%  Similarity=0.436  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..++|+|+||+|||||++++++
T Consensus        39 ~~~~l~G~~G~GKTtL~~~i~~   60 (180)
T 3ec2_A           39 KGLTFVGSPGVGKTHLAVATLK   60 (180)
T ss_dssp             CEEEECCSSSSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999987

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.28  E-value=0.002  Score=54.85  Aligned_cols=23  Identities=26%  Similarity=0.382  Sum_probs=21.2

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+|+|+|||||||+.+.|..
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            57899999999999999999974

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=96.27  E-value=0.0012  Score=64.48  Aligned_cols=21  Identities=29%  Similarity=0.151  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -++|+|+||||||||+++|++
T Consensus       169 ii~I~GpnGSGKTTlL~allg  189 (418)
T 1p9r_A          169 IILVTGPTGSGKSTTLYAGLQ  189 (418)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHh
Confidence            489999999999999999998

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=96.23  E-value=0.00019  Score=64.51  Aligned_cols=20  Identities=35%  Similarity=0.358  Sum_probs=18.5

Q ss_pred             EEEEeCCCCcHHHHHHHHHc
Q psy2401           5 CGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++|+|++|||||||+++|++
T Consensus        30 ~~i~GpnGsGKSTll~~i~g   49 (227)
T 1qhl_A           30 TTLSGGNGAGKSTTMAAFVT   49 (227)
T ss_dssp             HHHHSCCSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            46789999999999999998

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.23  E-value=0.0025  Score=57.67  Aligned_cols=21  Identities=33%  Similarity=0.330  Sum_probs=20.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHH
Q psy2401           3 LKCGLIGLPNVGKSTLFNALT   23 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt   23 (363)
                      ..|+|+|++||||||+++.|+
T Consensus        28 ~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           28 PVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            579999999999999999999

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.18  E-value=0.0026  Score=53.33  Aligned_cols=24  Identities=21%  Similarity=0.270  Sum_probs=21.9

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |.+.|+|.|++||||||+.+.|..
T Consensus         1 m~~~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            1 MTEPIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CCCCEEEESCTTSSHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            667899999999999999999975

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=96.17  E-value=0.0026  Score=54.09  Aligned_cols=21  Identities=24%  Similarity=0.309  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -.+|+|+||||||||+.+|..
T Consensus        28 ~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999976

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.10  E-value=0.0032  Score=53.57  Aligned_cols=24  Identities=21%  Similarity=0.235  Sum_probs=21.2

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |++.|+|.|++||||||+.+.|..
T Consensus         5 ~~~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            5 KPNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHH
Confidence            445799999999999999999975

>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=96.10  E-value=0.0032  Score=53.94  Aligned_cols=22  Identities=23%  Similarity=0.295  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-++++|++|||||||++.|.+
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~   28 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIP   28 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHH
Confidence            4689999999999999999987

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.10  E-value=0.0028  Score=55.14  Aligned_cols=24  Identities=25%  Similarity=0.205  Sum_probs=21.2

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ++-|+|+|++|||||||.+.|...
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            357899999999999999999863

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.08  E-value=0.0032  Score=53.53  Aligned_cols=22  Identities=32%  Similarity=0.486  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.|.|.|+|||||||+.+.|..
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999976

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=96.08  E-value=0.0018  Score=62.33  Aligned_cols=22  Identities=23%  Similarity=0.164  Sum_probs=20.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -.++|+|+||||||||+++|++
T Consensus       137 ~~i~ivG~~GsGKTTll~~l~~  158 (372)
T 2ewv_A          137 GLILVTGPTGSGKSTTIASMID  158 (372)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            3589999999999999999998

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=96.07  E-value=0.0024  Score=61.06  Aligned_cols=21  Identities=29%  Similarity=0.284  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .++++|++|||||||+++|++
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g  145 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLD  145 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            589999999999999999998

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=96.07  E-value=0.0032  Score=52.40  Aligned_cols=20  Identities=30%  Similarity=0.409  Sum_probs=18.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHH
Q psy2401           3 LKCGLIGLPNVGKSTLFNAL   22 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~L   22 (363)
                      +-|+|.|+|||||||+.+.|
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            56899999999999999999

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.07  E-value=0.0034  Score=53.38  Aligned_cols=23  Identities=35%  Similarity=0.378  Sum_probs=20.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +..|.|+|++||||||+.+.|..
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999999975

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=96.05  E-value=0.0035  Score=53.50  Aligned_cols=23  Identities=35%  Similarity=0.381  Sum_probs=20.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|.++|+|||||||+.+.|..
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46789999999999999999975

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.05  E-value=0.0031  Score=53.36  Aligned_cols=22  Identities=45%  Similarity=0.495  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++|.|+|+|||||||+.+.|..
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            3799999999999999999975

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.03  E-value=0.0034  Score=54.88  Aligned_cols=22  Identities=32%  Similarity=0.566  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |+|+|.|+|||||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            1 MNIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999965

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.02  E-value=0.0036  Score=54.22  Aligned_cols=22  Identities=32%  Similarity=0.416  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..|+|+|+|||||||+.+.|..
T Consensus        26 ~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           26 VRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            5799999999999999999986

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.01  E-value=0.0032  Score=54.03  Aligned_cols=23  Identities=30%  Similarity=0.287  Sum_probs=21.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+|.|+|||||||+.+.|..
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999975

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.01  E-value=0.0033  Score=54.65  Aligned_cols=22  Identities=45%  Similarity=0.649  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..++|+|++|||||||++.|.+
T Consensus        23 ~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           23 LVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5699999999999999999986

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=96.00  E-value=0.0035  Score=54.82  Aligned_cols=22  Identities=32%  Similarity=0.519  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |+|+|.|+|||||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            1 MNLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999975

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=96.00  E-value=0.0033  Score=64.37  Aligned_cols=22  Identities=27%  Similarity=0.341  Sum_probs=20.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      .+||+|+||||||||+++|+|.
T Consensus       380 iv~iiG~NGsGKSTLlk~l~Gl  401 (608)
T 3j16_B          380 ILVMMGENGTGKTTLIKLLAGA  401 (608)
T ss_dssp             EEEEESCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            4899999999999999999993

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.99  E-value=0.0038  Score=53.71  Aligned_cols=22  Identities=32%  Similarity=0.530  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.|+|+|.+||||||+.+.|..
T Consensus         1 ~~I~i~G~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            1 MKIAIFGTVGAGKSTISAEISK   22 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCccCHHHHHHHHHH
Confidence            4799999999999999999986

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.99  E-value=0.0037  Score=53.29  Aligned_cols=23  Identities=26%  Similarity=0.356  Sum_probs=20.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+|.|+|||||||+.+.|..
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            56799999999999999999975

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=95.97  E-value=0.0025  Score=53.02  Aligned_cols=22  Identities=27%  Similarity=0.206  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..++|+|++|+|||||++++.+
T Consensus        37 ~~~~l~G~~G~GKTtL~~~i~~   58 (149)
T 2kjq_A           37 QFIYVWGEEGAGKSHLLQAWVA   58 (149)
T ss_dssp             SEEEEESSSTTTTCHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999998

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=95.96  E-value=0.0042  Score=52.80  Aligned_cols=23  Identities=26%  Similarity=0.316  Sum_probs=21.0

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+|.|+|||||||+.+.|..
T Consensus         3 ~~~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999975

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=95.95  E-value=0.0043  Score=53.66  Aligned_cols=23  Identities=30%  Similarity=0.486  Sum_probs=21.2

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+|+|+|||||||+.+.|..
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            57899999999999999999975

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=95.92  E-value=0.0032  Score=57.86  Aligned_cols=21  Identities=33%  Similarity=0.447  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -++|+|+||+|||||+++|++
T Consensus        46 GvlL~Gp~GtGKTtLakala~   66 (274)
T 2x8a_A           46 GVLLAGPPGCGKTLLAKAVAN   66 (274)
T ss_dssp             EEEEESSTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            389999999999999999998

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.91  E-value=0.0037  Score=58.90  Aligned_cols=22  Identities=36%  Similarity=0.391  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +-|||+|++|||||||+++|.+
T Consensus        93 ~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           93 YIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999986

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.90  E-value=0.0043  Score=53.65  Aligned_cols=23  Identities=22%  Similarity=0.297  Sum_probs=21.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+|.|+|||||||+.+.|..
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~   26 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKD   26 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHH
Confidence            46899999999999999999986

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.89  E-value=0.0049  Score=53.48  Aligned_cols=23  Identities=30%  Similarity=0.205  Sum_probs=21.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+|.|.+||||||+.+.|..
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            46899999999999999999975

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=95.88  E-value=0.0049  Score=53.14  Aligned_cols=23  Identities=22%  Similarity=0.205  Sum_probs=21.4

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+|.|++||||||+.+.|..
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~   26 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIME   26 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHH
Confidence            57899999999999999999986

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=95.87  E-value=0.0029  Score=56.33  Aligned_cols=22  Identities=27%  Similarity=0.336  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-|+|.|++|||||||++.|.+
T Consensus        21 ~~i~i~G~~GsGKSTl~~~L~~   42 (230)
T 2vp4_A           21 FTVLIEGNIGSGKTTYLNHFEK   42 (230)
T ss_dssp             EEEEEECSTTSCHHHHHHTTGG
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            5689999999999999999998

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.84  E-value=0.004  Score=56.51  Aligned_cols=23  Identities=22%  Similarity=0.340  Sum_probs=21.4

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +..|+|+|++||||||+.+.|.+
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            56899999999999999999986

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=95.82  E-value=0.0046  Score=51.39  Aligned_cols=19  Identities=37%  Similarity=0.522  Sum_probs=17.7

Q ss_pred             EEEEeCCCCcHHHHHHHHH
Q psy2401           5 CGLIGLPNVGKSTLFNALT   23 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt   23 (363)
                      .+|+|+||+||||++.+|.
T Consensus        26 ~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5899999999999999996

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=95.76  E-value=0.0053  Score=53.00  Aligned_cols=24  Identities=21%  Similarity=0.198  Sum_probs=22.1

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |...|+|.|++||||||+.+.|..
T Consensus         1 m~~~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            1 MRGIVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            667899999999999999999986

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=95.74  E-value=0.0045  Score=59.30  Aligned_cols=19  Identities=37%  Similarity=0.550  Sum_probs=17.9

Q ss_pred             EEEEeCCCCcHHHHHHHHH
Q psy2401           5 CGLIGLPNVGKSTLFNALT   23 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt   23 (363)
                      .+|+|+|||||||||++|+
T Consensus        26 ~~i~G~NGaGKTTll~ai~   44 (365)
T 3qf7_A           26 TVVEGPNGAGKSSLFEAIS   44 (365)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5799999999999999998

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=95.73  E-value=0.01  Score=56.96  Aligned_cols=110  Identities=12%  Similarity=0.199  Sum_probs=60.4

Q ss_pred             ccccEEEeccccccCCCch----HHHHHHHHHHhcCCC---cEEEeeHHHHHHHhcCCHHHHHHHHhh-----cCCCchh
Q psy2401         198 TIKPIIFVANVKENGFKNN----LLLDQLKIYAHNQNI---PIIIICAKLEEEISDLNNIDKKFFLDN-----LGLKETK  265 (363)
Q Consensus       198 ~~kp~i~v~Nk~d~~~~~~----~~~~~i~~~~~~~~~---~~i~~sa~~e~~i~el~~~~~~~~l~~-----~~l~~~~  265 (363)
                      ..+|+++|+||+|.. ...    ...+.+++.+.+.|.   +++.+||+...++.++.+.. .+++..     .|-+..|
T Consensus        95 ~~~p~ilV~NK~DL~-~~~~~~~~~~~~l~~~~~~~g~~~~~v~~iSA~~g~gi~~L~~~l-~~~~~~~~i~~vG~~nvG  172 (368)
T 3h2y_A           95 GNNKVLLVGNKADLI-PKSVKHDKVKHWMRYSAKQLGLKPEDVFLISAAKGQGIAELADAI-EYYRGGKDVYVVGCTNVG  172 (368)
T ss_dssp             SSSCEEEEEECGGGS-CTTSCHHHHHHHHHHHHHHTTCCCSEEEECCTTTCTTHHHHHHHH-HHHHTTSCEEEEEBTTSS
T ss_pred             CCCcEEEEEEChhcC-CcccCHHHHHHHHHHHHHHcCCCcccEEEEeCCCCcCHHHHHhhh-hhhcccceEEEecCCCCC
Confidence            478999999999973 122    122333344555666   78999999887777654322 222222     1335566


Q ss_pred             HHHHHHHHHHhC-----CCEEEEeC--CCCceEEEeecCCCCHHHhhhhhh
Q psy2401         266 LNDLIRASFSLL-----DLRTYFTV--GKKEIRAWTIPNGTTAEQAAGIIH  309 (363)
Q Consensus       266 l~~l~~~~~~~l-----~li~~ft~--g~~e~raw~~~~g~ta~~~A~~IH  309 (363)
                      --.++++++...     ....+-..  -......+.+..+.+..|..|.++
T Consensus       173 KStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~~~~liDtPG~~~  223 (368)
T 3h2y_A          173 KSTFINRMIKEFSDETENVITTSHFPGTTLDLIDIPLDEESSLYDTPGIIN  223 (368)
T ss_dssp             HHHHHHHHHHHHTTSCSSCCEEECCC----CEEEEESSSSCEEEECCCBCC
T ss_pred             hhHHHHHHHhhhccccccceecCCCCCeecceEEEEecCCeEEEeCCCcCc
Confidence            667777766552     12211111  111233455555666666666554

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=95.71  E-value=0.0054  Score=51.97  Aligned_cols=23  Identities=35%  Similarity=0.407  Sum_probs=21.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+|+|++||||||+.+.|.+
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999999986

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.70  E-value=0.006  Score=50.89  Aligned_cols=22  Identities=36%  Similarity=0.468  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |+|+|.|.+||||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            1 MRIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             CEEEEESCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999975

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=95.69  E-value=0.0064  Score=51.99  Aligned_cols=22  Identities=18%  Similarity=0.457  Sum_probs=20.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.|+|+|++||||||+.+.|..
T Consensus        11 ~~I~l~G~~GsGKSTv~~~La~   32 (184)
T 1y63_A           11 INILITGTPGTGKTSMAEMIAA   32 (184)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999986

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=95.67  E-value=0.0057  Score=52.16  Aligned_cols=23  Identities=35%  Similarity=0.548  Sum_probs=20.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+++|++||||||+.+.|..
T Consensus        13 ~~~i~l~G~~GsGKsT~~~~L~~   35 (186)
T 2yvu_A           13 GIVVWLTGLPGSGKTTIATRLAD   35 (186)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHH
Confidence            35789999999999999999986

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=95.66  E-value=0.0062  Score=53.30  Aligned_cols=22  Identities=27%  Similarity=0.428  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |+|+|.|+|||||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            1 MRIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999975

>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=95.66  E-value=0.015  Score=51.48  Aligned_cols=58  Identities=12%  Similarity=0.016  Sum_probs=35.3

Q ss_pred             cccccEEEecccc-ccCCCchHHHHHHHHHHh----cCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHH
Q psy2401         197 LTIKPIIFVANVK-ENGFKNNLLLDQLKIYAH----NQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIR  271 (363)
Q Consensus       197 l~~kp~i~v~Nk~-d~~~~~~~~~~~i~~~~~----~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~  271 (363)
                      +...|+++.+||. |.+.  .-...++.+.+.    .+.+.+.++||.                      +.+||.+.+.
T Consensus       160 L~gapLLVlANKqqDlp~--Ams~~EI~e~L~L~~l~R~W~Iq~csA~----------------------TGeGL~EGLd  215 (227)
T 3l82_B          160 SSGRPLLVLSCISQGDVK--RMPCFYLAHELHLNLLNHPWLVQDTEAE----------------------TLTGFLNGIE  215 (227)
T ss_dssp             CSCSCEEEEEEESSTTSC--BCCHHHHHHHTTGGGGCSCEEEEEEETT----------------------TCTTHHHHHH
T ss_pred             hCCCeEEEEeCCCcCccC--CCCHHHHHHHcCCcCCCCCEEEEEeECC----------------------CCcCHHHHHH
Confidence            3577999999994 5432  111222332221    245668899998                      5677888777


Q ss_pred             HHHHhCC
Q psy2401         272 ASFSLLD  278 (363)
Q Consensus       272 ~~~~~l~  278 (363)
                      .+.+.+.
T Consensus       216 WL~~~l~  222 (227)
T 3l82_B          216 WILEEVE  222 (227)
T ss_dssp             HHTTTTT
T ss_pred             HHHHHHH
Confidence            6665543

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=95.64  E-value=0.005  Score=55.32  Aligned_cols=21  Identities=38%  Similarity=0.540  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -++|+|+||+|||||+++|++
T Consensus        51 g~ll~G~~G~GKTtl~~~i~~   71 (254)
T 1ixz_A           51 GVLLVGPPGVGKTHLARAVAG   71 (254)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999997

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.57  E-value=0.0068  Score=53.31  Aligned_cols=23  Identities=30%  Similarity=0.414  Sum_probs=21.0

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|.|+|+|||||||+.+.|..
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999999975

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=95.56  E-value=0.0056  Score=53.56  Aligned_cols=22  Identities=23%  Similarity=0.311  Sum_probs=20.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      --++|+|+||+|||||++.|++
T Consensus        24 ~~~~i~G~~GsGKTtl~~~l~~   45 (235)
T 2w0m_A           24 FFIALTGEPGTGKTIFSLHFIA   45 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            3579999999999999999996

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.55  E-value=0.0082  Score=51.27  Aligned_cols=23  Identities=22%  Similarity=0.267  Sum_probs=20.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+|.|+|||||||+.+.|..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            36799999999999999999975

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=95.50  E-value=0.0082  Score=52.69  Aligned_cols=23  Identities=35%  Similarity=0.514  Sum_probs=21.2

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+|+|+|||||||+.+.|..
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999999975

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=95.49  E-value=0.0077  Score=52.74  Aligned_cols=23  Identities=35%  Similarity=0.355  Sum_probs=20.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+|.|.+||||||+.+.|..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999975

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=95.49  E-value=0.0073  Score=55.61  Aligned_cols=24  Identities=33%  Similarity=0.321  Sum_probs=22.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |++.|.|+|+|||||||+.+.|..
T Consensus         1 M~~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            1 MKKIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            777899999999999999999985

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=95.49  E-value=0.0082  Score=52.09  Aligned_cols=23  Identities=30%  Similarity=0.252  Sum_probs=21.0

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+|.|.+||||||+.+.|..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999999985

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=95.46  E-value=0.0078  Score=52.90  Aligned_cols=22  Identities=32%  Similarity=0.454  Sum_probs=20.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |.|.|+|+|||||+|....|+.
T Consensus         1 M~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            1 MILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999986

>4ido_A Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HET: GDP; 2.09A {Homo sapiens} PDB: 4idn_A* 3q5d_A* 3q5e_A* 4idq_A* 4idp_A* 3qnu_A* 3qof_A*

Probab=95.43  E-value=0.036  Score=54.47  Aligned_cols=20  Identities=25%  Similarity=0.301  Sum_probs=17.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHH
Q psy2401           4 KCGLIGLPNVGKSTLFNALT   23 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt   23 (363)
                      -|+++|++++|||+|+|.|.
T Consensus        69 vvsv~G~~~~gks~l~N~ll   88 (457)
T 4ido_A           69 AVSVAGAFRKGKSFLMDFML   88 (457)
T ss_dssp             EEEEEEBTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCchhHHHHHHH
Confidence            37899999999999999775

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.43  E-value=0.0088  Score=52.84  Aligned_cols=22  Identities=32%  Similarity=0.591  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.|+|+|+|||||||+.+.|..
T Consensus         8 ~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            8 LRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999985

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=95.41  E-value=0.0067  Score=55.90  Aligned_cols=21  Identities=19%  Similarity=0.112  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -++|+|+||+|||||++.|++
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~   57 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQAL   57 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            589999999999999999998

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=95.41  E-value=0.0063  Score=57.35  Aligned_cols=23  Identities=30%  Similarity=0.379  Sum_probs=20.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      -.++|+|+||+|||||++++++.
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            35899999999999999999974

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.40  E-value=0.0086  Score=50.95  Aligned_cols=22  Identities=23%  Similarity=0.321  Sum_probs=20.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |.|+|.|.+||||||+.+.|..
T Consensus         1 ~~I~l~G~~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            1 MLIAFEGIDGSGKTTQAKKLYE   22 (195)
T ss_dssp             CEEEEECSTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999975

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=95.40  E-value=0.0084  Score=50.76  Aligned_cols=22  Identities=41%  Similarity=0.474  Sum_probs=19.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..|.|.|++||||||+.+.|..
T Consensus        12 ~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           12 PNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCHHHHHHHHHH
Confidence            4599999999999999999984

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.40  E-value=0.01  Score=58.13  Aligned_cols=21  Identities=29%  Similarity=0.324  Sum_probs=19.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHH
Q psy2401           3 LKCGLIGLPNVGKSTLFNALT   23 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt   23 (363)
                      ..|+++|++||||||+...|+
T Consensus       101 ~vI~ivG~~GvGKTT~a~~LA  121 (433)
T 2xxa_A          101 AVVLMAGLQGAGKTTSVGKLG  121 (433)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            468899999999999999997

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=95.39  E-value=0.0068  Score=55.35  Aligned_cols=21  Identities=38%  Similarity=0.540  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -++|+|+||+|||||+++|++
T Consensus        75 gvll~Gp~GtGKTtl~~~i~~   95 (278)
T 1iy2_A           75 GVLLVGPPGVGKTHLARAVAG   95 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCcChHHHHHHHHHH
Confidence            489999999999999999997

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=95.39  E-value=0.009  Score=53.63  Aligned_cols=23  Identities=26%  Similarity=0.397  Sum_probs=20.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+|.|++||||||+.+.|..
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999985

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=95.33  E-value=0.0092  Score=53.59  Aligned_cols=23  Identities=30%  Similarity=0.364  Sum_probs=21.0

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+|.|+|||||||+.+.|..
T Consensus        29 ~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           29 DGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999999975

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=95.32  E-value=0.008  Score=55.74  Aligned_cols=22  Identities=23%  Similarity=0.040  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..|||+|++|||||||.+.|.+
T Consensus        32 ~ii~I~G~sGsGKSTla~~L~~   53 (290)
T 1odf_A           32 LFIFFSGPQGSGKSFTSIQIYN   53 (290)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5699999999999999999986

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=95.30  E-value=0.0098  Score=51.08  Aligned_cols=22  Identities=32%  Similarity=0.383  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.|+|+|++||||||+.+.|..
T Consensus         9 ~~I~i~G~~GsGKST~~~~La~   30 (203)
T 1uf9_A            9 IIIGITGNIGSGKSTVAALLRS   30 (203)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999987

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.22  E-value=0.0066  Score=54.83  Aligned_cols=23  Identities=26%  Similarity=0.270  Sum_probs=20.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +..|.++|+|||||||+.+.|..
T Consensus        32 ~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           32 PIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             CEEEEEESCGGGTTHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999999986

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.22  E-value=0.011  Score=52.34  Aligned_cols=22  Identities=23%  Similarity=0.238  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |.|+|.|+|||||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            1 MNILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999975

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=95.20  E-value=0.0082  Score=60.27  Aligned_cols=22  Identities=14%  Similarity=0.074  Sum_probs=19.1

Q ss_pred             cEEEEEeCCCCcHHHHHHH--HHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNA--LTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~--Lt~   24 (363)
                      --++|+|+||||||||++.  +.|
T Consensus        40 e~~~l~G~nGsGKSTL~~~~ll~G   63 (525)
T 1tf7_A           40 RSTLVSGTSGTGKTLFSIQFLYNG   63 (525)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4589999999999999999  455

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=95.20  E-value=0.0086  Score=64.29  Aligned_cols=22  Identities=36%  Similarity=0.593  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -.++|+|+||||||||+++|++
T Consensus       462 e~v~LiGpNGsGKSTLLk~Lag  483 (986)
T 2iw3_A          462 RRYGICGPNGCGKSTLMRAIAN  483 (986)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4689999999999999999995

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.18  E-value=0.012  Score=51.68  Aligned_cols=23  Identities=35%  Similarity=0.423  Sum_probs=21.0

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+|+|+|||||||+.+.|..
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            37899999999999999999975

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=95.17  E-value=0.01  Score=52.87  Aligned_cols=23  Identities=22%  Similarity=0.257  Sum_probs=21.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++-|+|.|++||||||+.+.|..
T Consensus        26 g~~i~i~G~~GsGKsT~~~~l~~   48 (229)
T 4eaq_A           26 SAFITFEGPEGSGKTTVINEVYH   48 (229)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHH
Confidence            46799999999999999999987

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.16  E-value=0.01  Score=51.82  Aligned_cols=23  Identities=43%  Similarity=0.450  Sum_probs=20.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+|+|++||||||+.+.|.+
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            46789999999999999999986

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=95.15  E-value=0.0059  Score=53.02  Aligned_cols=22  Identities=27%  Similarity=0.448  Sum_probs=19.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +-|+|.|++||||||+.+.|..
T Consensus         1 ~~I~i~G~~GsGKsTl~~~L~~   22 (214)
T 1gtv_A            1 MLIAIEGVDGAGKRTLVEKLSG   22 (214)
T ss_dssp             CEEEEEEEEEEEHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            3589999999999999999986

>4aby_A DNA repair protein RECN; hydrolase, double strand break repair, ATPase, nucleotide binding domain; HET: DNA; 3.00A {Deinococcus radiodurans}

Probab=95.09  E-value=0.0043  Score=60.01  Aligned_cols=21  Identities=33%  Similarity=0.544  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .++|+|+||||||||+++|.+
T Consensus        62 ~~~lvG~NGaGKStLl~aI~~   82 (415)
T 4aby_A           62 FCAFTGETGAGKSIIVDALGL   82 (415)
T ss_dssp             EEEEEESHHHHHHHHTHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999964

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.08  E-value=0.0087  Score=50.57  Aligned_cols=22  Identities=23%  Similarity=0.137  Sum_probs=16.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.|.|.|.|||||||+.+.|..
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999975

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.08  E-value=0.01  Score=54.74  Aligned_cols=23  Identities=30%  Similarity=0.326  Sum_probs=20.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.-|.|.|+|||||||+.+.|..
T Consensus        33 ~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           33 PTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45689999999999999999975

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.03  E-value=0.011  Score=53.39  Aligned_cols=22  Identities=18%  Similarity=0.208  Sum_probs=19.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-++|+|+||||||||.+.|..
T Consensus         2 ~li~I~G~~GSGKSTla~~La~   23 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            4589999999999999999975

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=95.01  E-value=0.012  Score=56.77  Aligned_cols=22  Identities=32%  Similarity=0.223  Sum_probs=20.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..++|+|+||+|||||+++|++
T Consensus       170 ~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          170 RYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            4689999999999999999997

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=94.95  E-value=0.013  Score=51.26  Aligned_cols=19  Identities=37%  Similarity=0.522  Sum_probs=17.6

Q ss_pred             EEEEeCCCCcHHHHHHHHH
Q psy2401           5 CGLIGLPNVGKSTLFNALT   23 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt   23 (363)
                      .+|+|+||+||||++.+|.
T Consensus        26 ~~I~G~NgsGKStil~ai~   44 (203)
T 3qks_A           26 NLIIGQNGSGKSSLLDAIL   44 (203)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHH
Confidence            5789999999999999996

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=94.93  E-value=0.014  Score=50.25  Aligned_cols=22  Identities=32%  Similarity=0.347  Sum_probs=20.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.|+|.|++||||||+.+.|..
T Consensus        16 ~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           16 SVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999985

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=94.92  E-value=0.015  Score=49.59  Aligned_cols=22  Identities=23%  Similarity=0.353  Sum_probs=20.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..++++|++|||||||++.|..
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~   26 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVA   26 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999986

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=94.89  E-value=0.015  Score=52.76  Aligned_cols=22  Identities=50%  Similarity=0.644  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.|.++|+|||||||+.+.|..
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            5789999999999999999975

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=94.88  E-value=0.014  Score=51.46  Aligned_cols=22  Identities=18%  Similarity=0.253  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-++|+|+||+|||||+..|++
T Consensus        25 ~~~~i~G~~GsGKTtl~~~l~~   46 (243)
T 1n0w_A           25 SITEMFGEFRTGKTQICHTLAV   46 (243)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHH
Confidence            4589999999999999999997

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=94.86  E-value=0.012  Score=51.05  Aligned_cols=22  Identities=23%  Similarity=0.108  Sum_probs=20.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      --++|+|+||+|||||+..|++
T Consensus        21 ~~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           21 VLTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999999986

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=94.84  E-value=0.015  Score=51.81  Aligned_cols=23  Identities=26%  Similarity=0.411  Sum_probs=21.0

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +..|+|+|++||||||+.+.|.+
T Consensus        16 ~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           16 TIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999986

>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=94.83  E-value=0.025  Score=52.87  Aligned_cols=76  Identities=9%  Similarity=-0.040  Sum_probs=46.3

Q ss_pred             ccccEEEeccccccCCCchH---HHHHHHHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHH
Q psy2401         198 TIKPIIFVANVKENGFKNNL---LLDQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASF  274 (363)
Q Consensus       198 ~~kp~i~v~Nk~d~~~~~~~---~~~~i~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~  274 (363)
                      ..+|.++++||+|+. .+.+   ..+.+.+.+...|.+++++||.....+.+|.+-...+..-=.|-++.|--.+++.+.
T Consensus       116 ~~~~~vivlnK~DL~-~~~~~~~~~~~~~~~y~~~g~~v~~~sa~~~~g~~~L~~~~~G~~~~lvG~sG~GKSTLln~L~  194 (307)
T 1t9h_A          116 NDIQPIICITKMDLI-EDQDTEDTIQAYAEDYRNIGYDVYLTSSKDQDSLADIIPHFQDKTTVFAGQSGVGKSSLLNAIS  194 (307)
T ss_dssp             TTCEEEEEEECGGGC-CCHHHHHHHHHHHHHHHHHTCCEEECCHHHHTTCTTTGGGGTTSEEEEEESHHHHHHHHHHHHC
T ss_pred             CCCCEEEEEECCccC-chhhhHHHHHHHHHHHHhCCCeEEEEecCCCCCHHHHHhhcCCCEEEEECCCCCCHHHHHHHhc
Confidence            578889999999963 2222   245555666556889999999877666655322211222223334555556776654

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=94.79  E-value=0.018  Score=51.14  Aligned_cols=22  Identities=36%  Similarity=0.549  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.|.|+|++||||||+.+.|..
T Consensus        17 ~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           17 VRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999986

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=94.77  E-value=0.016  Score=53.89  Aligned_cols=23  Identities=26%  Similarity=0.325  Sum_probs=20.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ..++++|++||||||++..|++.
T Consensus       106 ~vi~lvG~~GsGKTTl~~~LA~~  128 (296)
T 2px0_A          106 KYIVLFGSTGAGKTTTLAKLAAI  128 (296)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999999863

>3qkt_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATP binding, DNA bindi MRE11, replication; HET: DNA ANP; 1.90A {Pyrococcus furiosus} PDB: 3qku_A* 1ii8_A 3qks_B* 3qkr_B* 1ii8_B

Probab=94.69  E-value=0.015  Score=54.93  Aligned_cols=20  Identities=35%  Similarity=0.468  Sum_probs=17.9

Q ss_pred             EEEEeCCCCcHHHHHHHHHc
Q psy2401           5 CGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .+|+|+||+|||||+.+|+.
T Consensus        26 ~~i~G~NGsGKS~lleAi~~   45 (339)
T 3qkt_A           26 NLIIGQNGSGKSSLLDAILV   45 (339)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            57999999999999999853

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=94.64  E-value=0.012  Score=59.60  Aligned_cols=22  Identities=41%  Similarity=0.499  Sum_probs=20.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..++|+|++|||||||.++|.+
T Consensus       370 ~iI~LiG~sGSGKSTLar~La~  391 (552)
T 3cr8_A          370 FTVFFTGLSGAGKSTLARALAA  391 (552)
T ss_dssp             EEEEEEESSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCChHHHHHHHHHH
Confidence            5689999999999999999998

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=94.63  E-value=0.019  Score=51.37  Aligned_cols=22  Identities=32%  Similarity=0.519  Sum_probs=20.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |+.|++|+|||||||+...|..
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~   30 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKE   30 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cceeeECCCCCCHHHHHHHHHH
Confidence            8999999999999999999975

>2kmm_A Guanosine-3',5'-BIS(diphosphate) 3'- pyrophosphohydrolase; methods development, TGS domain, predominantly beta-sheet structure; NMR {Porphyromonas gingivalis}

Probab=94.60  E-value=0.036  Score=39.77  Aligned_cols=52  Identities=27%  Similarity=0.316  Sum_probs=41.7

Q ss_pred             EEEeecCCCCHHHhhhhhhcchhcccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEEEEEe
Q psy2401         291 RAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFLF  361 (363)
Q Consensus       291 raw~~~~g~ta~~~A~~IHsD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~~~f  361 (363)
                      +...++.|+|+.|+|..||+++.+..+-|+|                 .|+  +...++.+++||.|+|.-
T Consensus        11 ~~~~~~~g~T~~dla~~i~~~l~~~~vaa~v-----------------Ng~--lvdl~~~L~~~~~Veivt   62 (73)
T 2kmm_A           11 EIKRLPQGATALDFAYSLHSDLGDHCIGAKV-----------------NHK--LVPLSYVLNSGDQVEVLS   62 (73)
T ss_dssp             CEEEECTTCBHHHHHHHHCSHHHHTEEEEEE-----------------TTE--ECCTTCBCCSSSBEEEEE
T ss_pred             CEEEcCCCCcHHHHHHHHhhccccceEEEEE-----------------CCE--EeCCCcCcCCCCEEEEEE
Confidence            3577899999999999999999988776652                 143  347899999999988753

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=94.53  E-value=0.019  Score=51.48  Aligned_cols=22  Identities=27%  Similarity=0.422  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..+.|.|+||+|||||.++|.+
T Consensus        46 ~~vll~G~~GtGKT~la~~la~   67 (257)
T 1lv7_A           46 KGVLMVGPPGTGKTLLAKAIAG   67 (257)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHH
Confidence            4589999999999999999987

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=94.46  E-value=0.018  Score=52.63  Aligned_cols=22  Identities=27%  Similarity=0.209  Sum_probs=20.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      --++|+|+||+|||||+..+++
T Consensus        31 ~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           31 TVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            3589999999999999999987

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=94.42  E-value=0.022  Score=51.19  Aligned_cols=22  Identities=23%  Similarity=0.372  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.|+|.|++||||||+.+.|..
T Consensus        23 ~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           23 FLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999976

>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome segregation, cell adhesion, kleisin, MIT cell cycle; HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.12

Probab=94.39  E-value=0.017  Score=56.30  Aligned_cols=22  Identities=27%  Similarity=0.463  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      -++|+|+||+|||||+++|++.
T Consensus        28 ~~~i~G~nG~GKstll~ai~~~   49 (430)
T 1w1w_A           28 FTSIIGPNGSGKSNMMDAISFV   49 (430)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4789999999999999999863

>2o5v_A DNA replication and repair protein RECF; ABC ATPase, walker A motif, P-loop, signature motif, replication/recombination complex; HET: DNA; 1.61A {Deinococcus radiodurans}

Probab=94.38  E-value=0.018  Score=55.01  Aligned_cols=21  Identities=29%  Similarity=0.411  Sum_probs=19.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -.+|+|+||+|||||+++|.+
T Consensus        28 ~~~i~G~nG~GKttll~ai~~   48 (359)
T 2o5v_A           28 VTGIYGENGAGKTNLLEAAYL   48 (359)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHH
Confidence            468999999999999999975

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=94.37  E-value=0.021  Score=53.38  Aligned_cols=23  Identities=26%  Similarity=0.436  Sum_probs=20.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ..++++|+|||||||++..|++.
T Consensus       105 ~vi~ivG~~GsGKTTl~~~LA~~  127 (306)
T 1vma_A          105 FVIMVVGVNGTGKTTSCGKLAKM  127 (306)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCChHHHHHHHHHHH
Confidence            46899999999999999999863

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.31  E-value=0.024  Score=53.35  Aligned_cols=24  Identities=29%  Similarity=0.306  Sum_probs=21.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |+..|+|+|++|||||||...|..
T Consensus         4 m~~~i~i~GptGsGKTtla~~La~   27 (323)
T 3crm_A            4 LPPAIFLMGPTAAGKTDLAMALAD   27 (323)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            445799999999999999999986

>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=94.30  E-value=0.073  Score=49.29  Aligned_cols=58  Identities=12%  Similarity=0.024  Sum_probs=36.0

Q ss_pred             cccccEEEeccc-cccCCCchHHHHHHHHHHh----cCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHH
Q psy2401         197 LTIKPIIFVANV-KENGFKNNLLLDQLKIYAH----NQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIR  271 (363)
Q Consensus       197 l~~kp~i~v~Nk-~d~~~~~~~~~~~i~~~~~----~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~  271 (363)
                      +...|+++.+|| .|.+.  .-...++.+.+.    .+...+.++||.                      +++|+.+.+.
T Consensus       245 l~~apLLVfANKkQDlp~--Ams~~EI~e~L~L~~l~r~W~Iq~csA~----------------------tGeGL~EGld  300 (312)
T 3l2o_B          245 SSGRPLLVLSCISQGDVK--RMPCFYLAHELHLNLLNHPWLVQDTEAE----------------------TLTGFLNGIE  300 (312)
T ss_dssp             CTTCCEEEEEEESSTTSC--BCCHHHHHHHTTGGGGCSCEEEEEEETT----------------------TCTTHHHHHH
T ss_pred             cCCCeEEEEeCCcccccC--CCCHHHHHHHcCCccCCCcEEEEecccC----------------------CCcCHHHHHH
Confidence            357799999997 46532  111223332221    245568889997                      5778888888


Q ss_pred             HHHHhCC
Q psy2401         272 ASFSLLD  278 (363)
Q Consensus       272 ~~~~~l~  278 (363)
                      .+.+.+.
T Consensus       301 WL~~~l~  307 (312)
T 3l2o_B          301 WILEEVE  307 (312)
T ss_dssp             HHHHHSC
T ss_pred             HHHHHHH
Confidence            7766654

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=94.29  E-value=0.025  Score=47.17  Aligned_cols=22  Identities=36%  Similarity=0.372  Sum_probs=19.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -.|+|.|.+||||||+.+.|..
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999975

>1e69_A Chromosome segregation SMC protein; structural maintenance of chromosomes, coiled coil; 3.1A {Thermotoga maritima} SCOP: c.37.1.12

Probab=94.23  E-value=0.016  Score=54.24  Aligned_cols=21  Identities=24%  Similarity=0.435  Sum_probs=19.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -.+|+|+||+|||||+.+|..
T Consensus        26 ~~~i~G~NGsGKS~ll~ai~~   46 (322)
T 1e69_A           26 VTAIVGPNGSGKSNIIDAIKW   46 (322)
T ss_dssp             EEEEECCTTTCSTHHHHHHHH
T ss_pred             cEEEECCCCCcHHHHHHHHHH
Confidence            468999999999999999984

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=94.22  E-value=0.014  Score=60.28  Aligned_cols=21  Identities=33%  Similarity=0.449  Sum_probs=18.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHH
Q psy2401           3 LKCGLIGLPNVGKSTLFNALT   23 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt   23 (363)
                      -.++|+|+||||||||++.++
T Consensus       349 e~vaIiGpnGsGKSTLl~~i~  369 (670)
T 3ux8_A          349 TFVAVTGVSGSGKSTLVNEVL  369 (670)
T ss_dssp             SEEEEECSTTSSHHHHHTTTH
T ss_pred             CEEEEEeeCCCCHHHHHHHHH
Confidence            468999999999999998764

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=94.11  E-value=0.027  Score=51.67  Aligned_cols=22  Identities=32%  Similarity=0.516  Sum_probs=20.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.|+|.|++||||||+.+.|..
T Consensus        76 ~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           76 YVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5699999999999999999973

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=94.04  E-value=0.028  Score=48.72  Aligned_cols=22  Identities=32%  Similarity=0.465  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.|||.|.+||||||+.+.|..
T Consensus        13 ~iIgltG~~GSGKSTva~~L~~   34 (192)
T 2grj_A           13 MVIGVTGKIGTGKSTVCEILKN   34 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999986

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=94.03  E-value=0.031  Score=56.32  Aligned_cols=22  Identities=36%  Similarity=0.516  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..++|+|+||+|||||.++|.+
T Consensus       109 ~~vll~Gp~GtGKTtlar~ia~  130 (543)
T 3m6a_A          109 PILCLAGPPGVGKTSLAKSIAK  130 (543)
T ss_dssp             CEEEEESSSSSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999987

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.02  E-value=0.052  Score=53.18  Aligned_cols=22  Identities=32%  Similarity=0.378  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-|.|.||||+|||+|.+++++
T Consensus       216 rGvLL~GPPGtGKTllAkAiA~  237 (437)
T 4b4t_L          216 KGVLLYGPPGTGKTLLAKAVAA  237 (437)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHH
Confidence            4588999999999999999997

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=93.98  E-value=0.035  Score=46.37  Aligned_cols=22  Identities=36%  Similarity=0.560  Sum_probs=19.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..+.|.|++|+|||||.+++..
T Consensus        44 ~~~ll~G~~G~GKT~l~~~~~~   65 (195)
T 1jbk_A           44 NNPVLIGEPGVGKTAIVEGLAQ   65 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHH
Confidence            4588999999999999999986

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=93.93  E-value=0.038  Score=57.13  Aligned_cols=17  Identities=41%  Similarity=0.423  Sum_probs=15.5

Q ss_pred             cEEEEEeCCCCcHHHHH
Q psy2401           3 LKCGLIGLPNVGKSTLF   19 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~   19 (363)
                      -.+||+|+||||||||+
T Consensus        45 e~~~liGpNGaGKSTLl   61 (670)
T 3ux8_A           45 KLVVLTGLSGSGKSSLA   61 (670)
T ss_dssp             SEEEEECSTTSSHHHHH
T ss_pred             CEEEEECCCCCCHHHHh
Confidence            46899999999999996

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=93.92  E-value=0.03  Score=48.77  Aligned_cols=23  Identities=26%  Similarity=0.364  Sum_probs=21.0

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|+|.|++||||||+.+.|..
T Consensus         3 ~~~i~i~G~~gsGkst~~~~l~~   25 (219)
T 2h92_A            3 AINIALDGPAAAGKSTIAKRVAS   25 (219)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999976

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=93.83  E-value=0.033  Score=52.75  Aligned_cols=21  Identities=24%  Similarity=0.283  Sum_probs=19.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -|+|+|++|||||||...|..
T Consensus         9 lI~I~GptgSGKTtla~~La~   29 (340)
T 3d3q_A            9 LIVIVGPTASGKTELSIEVAK   29 (340)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCcCcHHHHHHHHHH
Confidence            589999999999999999986

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=93.81  E-value=0.034  Score=47.80  Aligned_cols=22  Identities=32%  Similarity=0.294  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..+.|.|+||+|||||..++.+
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~   76 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIAN   76 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            5688999999999999999986

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=93.73  E-value=0.029  Score=53.26  Aligned_cols=22  Identities=23%  Similarity=0.234  Sum_probs=20.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-++|+|+||+|||||++.|++
T Consensus       132 ~i~~I~G~~GsGKTTL~~~l~~  153 (349)
T 1pzn_A          132 AITEVFGEFGSGKTQLAHTLAV  153 (349)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3579999999999999999997

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=93.68  E-value=0.66  Score=40.14  Aligned_cols=33  Identities=6%  Similarity=-0.081  Sum_probs=23.8

Q ss_pred             eeEEEEeeecc-cCCCCcccchhhHHHhhccccCEEEEEEecc
Q psy2401          66 AIIKLVDIAGL-VSGASKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        66 ~~i~lvDtpGl-~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ..+.++|+|+. ..         ......+..+|.++++++..
T Consensus        68 yD~viiD~p~~~~~---------~~~~~~l~~aD~viiv~~~~  101 (209)
T 3cwq_A           68 YQNIVIDTQARPED---------EDLEALADGCDLLVIPSTPD  101 (209)
T ss_dssp             CSEEEEEEECCCSS---------SHHHHHHHTSSEEEEEECSS
T ss_pred             CCEEEEeCCCCcCc---------HHHHHHHHHCCEEEEEecCC
Confidence            46889999985 22         13445667899999999873

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.64  E-value=0.017  Score=56.43  Aligned_cols=22  Identities=32%  Similarity=0.442  Sum_probs=20.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-+.|.||||+|||+|.+++++
T Consensus       207 rGiLL~GPPGtGKT~lakAiA~  228 (428)
T 4b4t_K          207 RGVLLYGPPGTGKTMLVKAVAN  228 (428)
T ss_dssp             CEEEEESCTTTTHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3488999999999999999997

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.63  E-value=0.014  Score=56.52  Aligned_cols=22  Identities=32%  Similarity=0.385  Sum_probs=20.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-+-|.||||+|||+|.+++++
T Consensus       183 rGvLL~GPPGTGKTllAkAiA~  204 (405)
T 4b4t_J          183 KGVILYGPPGTGKTLLARAVAH  204 (405)
T ss_dssp             CCEEEESCSSSSHHHHHHHHHH
T ss_pred             CceEEeCCCCCCHHHHHHHHHH
Confidence            4588999999999999999997

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=93.58  E-value=0.033  Score=58.46  Aligned_cols=23  Identities=22%  Similarity=0.187  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      -.++|+|+||+|||||++.+.+.
T Consensus       577 ~i~~I~GpNGsGKSTlLr~iagl  599 (765)
T 1ewq_A          577 ELVLITGPNMAGKSTFLRQTALI  599 (765)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCChHHHHHHHHhh
Confidence            35899999999999999999873

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=93.58  E-value=0.037  Score=54.62  Aligned_cols=23  Identities=30%  Similarity=0.466  Sum_probs=20.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|.++|.|||||||+.+.|..
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~   61 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTR   61 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999999986

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*

Probab=93.48  E-value=0.036  Score=58.48  Aligned_cols=23  Identities=22%  Similarity=0.099  Sum_probs=20.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      .-++|+|+||+|||||++.+.+.
T Consensus       608 ~i~~ItGpNGsGKSTlLr~iagl  630 (800)
T 1wb9_A          608 RMLIITGPNMGGKSTYMRQTALI  630 (800)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCChHHHHHHHHHH
Confidence            35899999999999999999873

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=93.45  E-value=0.041  Score=48.72  Aligned_cols=21  Identities=29%  Similarity=0.352  Sum_probs=18.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -|.|+|+|||||||....|+.
T Consensus        31 iI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           31 VIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             EEEEECCTTCCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            367789999999999999985

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=93.44  E-value=0.046  Score=47.74  Aligned_cols=22  Identities=23%  Similarity=0.220  Sum_probs=20.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..+.|.|+||+|||||.+++..
T Consensus        53 ~~~ll~G~~G~GKT~la~~l~~   74 (242)
T 3bos_A           53 QAIYLWGPVKSGRTHLIHAACA   74 (242)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4688999999999999999986

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.31  E-value=0.019  Score=56.21  Aligned_cols=22  Identities=27%  Similarity=0.311  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-|-|.||||+|||+|.+++++
T Consensus       216 rGvLLyGPPGTGKTllAkAiA~  237 (434)
T 4b4t_M          216 KGALMYGPPGTGKTLLARACAA  237 (434)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             CeeEEECcCCCCHHHHHHHHHH
Confidence            4688999999999999999997

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=93.27  E-value=0.036  Score=52.00  Aligned_cols=20  Identities=35%  Similarity=0.247  Sum_probs=19.1

Q ss_pred             EEEEeCCCCcHHHHHHHHHc
Q psy2401           5 CGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.|.|+||+||||++++|++
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~   58 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLE   58 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            88999999999999999987

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=93.06  E-value=0.15  Score=47.67  Aligned_cols=22  Identities=36%  Similarity=0.395  Sum_probs=20.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..+.|.|+||+|||+|.+++.+
T Consensus        46 ~~iLL~GppGtGKT~la~ala~   67 (322)
T 1xwi_A           46 RGILLFGPPGTGKSYLAKAVAT   67 (322)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHH
Confidence            4588999999999999999987

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=93.05  E-value=0.049  Score=49.80  Aligned_cols=22  Identities=32%  Similarity=0.348  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..+.|.|+||+|||||.+++.+
T Consensus        55 ~~vll~Gp~GtGKT~la~~la~   76 (297)
T 3b9p_A           55 KGLLLFGPPGNGKTLLARAVAT   76 (297)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHH
Confidence            4688999999999999999987

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=93.00  E-value=0.052  Score=47.80  Aligned_cols=22  Identities=23%  Similarity=0.167  Sum_probs=18.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      --++|+|+||+|||||...++.
T Consensus        24 ~~~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           24 NVVLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3578999999999999777764

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=92.99  E-value=0.051  Score=50.21  Aligned_cols=22  Identities=27%  Similarity=0.381  Sum_probs=20.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..+.|.|+||+|||||.+++.+
T Consensus        50 ~~vLL~Gp~GtGKT~la~ala~   71 (301)
T 3cf0_A           50 KGVLFYGPPGCGKTLLAKAIAN   71 (301)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHH
T ss_pred             ceEEEECCCCcCHHHHHHHHHH
Confidence            3588999999999999999997

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=92.95  E-value=0.046  Score=45.58  Aligned_cols=22  Identities=32%  Similarity=0.451  Sum_probs=19.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..+.|.|++|+|||||.+++..
T Consensus        44 ~~vll~G~~G~GKT~la~~~~~   65 (187)
T 2p65_A           44 NNPILLGDPGVGKTAIVEGLAI   65 (187)
T ss_dssp             CEEEEESCGGGCHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999986

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=92.79  E-value=0.052  Score=51.70  Aligned_cols=23  Identities=35%  Similarity=0.534  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      .+|+|+|++|+||||+.++|++.
T Consensus        25 ~~i~l~G~~G~GKTTl~~~la~~   47 (359)
T 2ga8_A           25 VCVILVGSPGSGKSTIAEELCQI   47 (359)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHHH
Confidence            35999999999999999999863

>3auy_A DNA double-strand break repair RAD50 ATPase; DNA repair, ABC transporter ATPase domain-like; HET: DNA ADP; 2.70A {Methanocaldococcus jannaschii} PDB: 3aux_A* 3av0_B*

Probab=92.76  E-value=0.055  Score=51.62  Aligned_cols=19  Identities=37%  Similarity=0.628  Sum_probs=17.6

Q ss_pred             EEEEeCCCCcHHHHHHHHH
Q psy2401           5 CGLIGLPNVGKSTLFNALT   23 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt   23 (363)
                      .+|+|+||+||||++.||.
T Consensus        28 ~vi~G~NGaGKT~ileAI~   46 (371)
T 3auy_A           28 VAIIGENGSGKSSIFEAVF   46 (371)
T ss_dssp             EEEEECTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5799999999999999996

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=92.74  E-value=0.064  Score=50.12  Aligned_cols=22  Identities=32%  Similarity=0.283  Sum_probs=19.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-|+|+||+|||||||...|..
T Consensus        11 ~~i~i~GptgsGKt~la~~La~   32 (316)
T 3foz_A           11 KAIFLMGPTASGKTALAIELRK   32 (316)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCccCHHHHHHHHHH
Confidence            4588999999999999999986

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=92.66  E-value=0.041  Score=48.38  Aligned_cols=21  Identities=24%  Similarity=0.153  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .+.+.||||+||||+..+|.+
T Consensus        60 ~ili~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           60 CLVFCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             EEEEESCGGGCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999999986

>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=92.66  E-value=0.11  Score=49.50  Aligned_cols=79  Identities=10%  Similarity=0.045  Sum_probs=49.0

Q ss_pred             ccccEEEeccccccCCCchHH---HHHHHHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHH
Q psy2401         198 TIKPIIFVANVKENGFKNNLL---LDQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASF  274 (363)
Q Consensus       198 ~~kp~i~v~Nk~d~~~~~~~~---~~~i~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~  274 (363)
                      ..+|.++|+||+|+.  +.+.   .+.+...+...|++++++||.....+.++......+...=.|-++.|--.+++.+.
T Consensus       159 ~~~~~iivlNK~DL~--~~~~~~~~~~~~~~y~~~G~~v~~~Sa~~~~gl~~L~~~~~G~~~~lvG~sG~GKSTLln~L~  236 (358)
T 2rcn_A          159 LQVEPLIVLNKIDLL--DDEGMDFVNEQMDIYRNIGYRVLMVSSHTQDGLKPLEEALTGRISIFAGQSGVGKSSLLNALL  236 (358)
T ss_dssp             HTCEEEEEEECGGGC--CHHHHHHHHHHHHHHHTTTCCEEECBTTTTBTHHHHHHHHTTSEEEEECCTTSSHHHHHHHHH
T ss_pred             cCCCEEEEEECccCC--CchhHHHHHHHHHHHHhCCCcEEEEecCCCcCHHHHHHhcCCCEEEEECCCCccHHHHHHHHh
Confidence            467779999999963  3332   33344445567899999999876666555332222222234556677777777776


Q ss_pred             HhCC
Q psy2401         275 SLLD  278 (363)
Q Consensus       275 ~~l~  278 (363)
                      ..+.
T Consensus       237 g~~~  240 (358)
T 2rcn_A          237 GLQN  240 (358)
T ss_dssp             CCSS
T ss_pred             cccc
Confidence            5443

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=92.63  E-value=0.091  Score=42.82  Aligned_cols=22  Identities=27%  Similarity=0.336  Sum_probs=20.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..|.|.|+||+|||++.+++..
T Consensus        25 ~~vll~G~~GtGKt~lA~~i~~   46 (145)
T 3n70_A           25 IAVWLYGAPGTGRMTGARYLHQ   46 (145)
T ss_dssp             SCEEEESSTTSSHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHH
Confidence            4688999999999999999986

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=92.60  E-value=0.062  Score=48.74  Aligned_cols=22  Identities=32%  Similarity=0.369  Sum_probs=20.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..+.|.|+||+|||||.+++.+
T Consensus        52 ~~~ll~G~~GtGKT~la~~la~   73 (285)
T 3h4m_A           52 KGILLYGPPGTGKTLLAKAVAT   73 (285)
T ss_dssp             SEEEEESSSSSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHH
Confidence            4588999999999999999986

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=92.52  E-value=0.064  Score=53.48  Aligned_cols=23  Identities=35%  Similarity=0.423  Sum_probs=20.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      .-+.|+|+||+|||||+++|.+.
T Consensus        65 ~GvLL~GppGtGKTtLaraIa~~   87 (499)
T 2dhr_A           65 KGVLLVGPPGVGKTHLARAVAGE   87 (499)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            34899999999999999999973

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=92.50  E-value=0.072  Score=47.29  Aligned_cols=23  Identities=39%  Similarity=0.416  Sum_probs=21.0

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|++.|.+||||||+.+.|..
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~   24 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHH
Confidence            46799999999999999999986

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=92.47  E-value=0.038  Score=54.55  Aligned_cols=23  Identities=35%  Similarity=0.478  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ..+.|+|+||+|||++.++|...
T Consensus       202 ~~~LL~G~pG~GKT~la~~la~~  224 (468)
T 3pxg_A          202 NNPVLIGEPGVGKTAIAEGLAQQ  224 (468)
T ss_dssp             CEEEEESCTTTTTHHHHHHHHHH
T ss_pred             CCeEEECCCCCCHHHHHHHHHHH
Confidence            36889999999999999999864

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=92.46  E-value=0.071  Score=49.09  Aligned_cols=22  Identities=27%  Similarity=0.273  Sum_probs=19.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-+.|.|+||+|||+|.++++.
T Consensus        37 ~~lLl~GppGtGKT~la~aiA~   58 (293)
T 3t15_A           37 LILGIWGGKGQGKSFQCELVFR   58 (293)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3466779999999999999986

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=92.44  E-value=0.07  Score=47.55  Aligned_cols=22  Identities=32%  Similarity=0.446  Sum_probs=19.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..+.|.|+||+|||||.+++.+
T Consensus        40 ~~vll~G~~GtGKT~la~~la~   61 (262)
T 2qz4_A           40 KGALLLGPPGCGKTLLAKAVAT   61 (262)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3578999999999999999986

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.40  E-value=0.035  Score=54.16  Aligned_cols=22  Identities=32%  Similarity=0.412  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-|-|.||||+|||+|.+++++
T Consensus       217 rGvLLyGPPGTGKTlLAkAiA~  238 (437)
T 4b4t_I          217 KGVILYGAPGTGKTLLAKAVAN  238 (437)
T ss_dssp             SEEEEESSTTTTHHHHHHHHHH
T ss_pred             CCCceECCCCchHHHHHHHHHH
Confidence            4588999999999999999997

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=92.32  E-value=0.065  Score=46.35  Aligned_cols=22  Identities=27%  Similarity=0.288  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      -+.|.|++|+|||||++.+...
T Consensus        47 ~~ll~G~~G~GKT~l~~~~~~~   68 (250)
T 1njg_A           47 AYLFSGTRGVGKTSIARLLAKG   68 (250)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999763

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=92.30  E-value=0.06  Score=50.45  Aligned_cols=21  Identities=29%  Similarity=0.396  Sum_probs=19.5

Q ss_pred             EEEEeCCCCcHHHHHHHHHcC
Q psy2401           5 CGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      +.|.|+||+||||+++++++.
T Consensus        49 ~ll~Gp~G~GKTtla~~la~~   69 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALARE   69 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999999874

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=92.26  E-value=0.063  Score=53.77  Aligned_cols=23  Identities=17%  Similarity=0.133  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      --++|+|+||+|||||++.+++.
T Consensus       282 ~i~~i~G~~GsGKSTLl~~l~g~  304 (525)
T 1tf7_A          282 SIILATGATGTGKTLLVSRFVEN  304 (525)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHH
Confidence            35899999999999999999983

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=92.22  E-value=0.068  Score=50.12  Aligned_cols=22  Identities=23%  Similarity=0.347  Sum_probs=19.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..++++|++|+||||++..|++
T Consensus       106 ~vI~ivG~~G~GKTT~~~~LA~  127 (320)
T 1zu4_A          106 NIFMLVGVNGTGKTTSLAKMAN  127 (320)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999999975

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=92.22  E-value=0.076  Score=52.60  Aligned_cols=23  Identities=30%  Similarity=0.343  Sum_probs=20.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      .-+.|+|+||+|||||.+++.+.
T Consensus        50 ~gvLL~GppGtGKT~Laraia~~   72 (476)
T 2ce7_A           50 KGILLVGPPGTGKTLLARAVAGE   72 (476)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            45889999999999999999873

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=92.19  E-value=0.068  Score=50.21  Aligned_cols=22  Identities=18%  Similarity=0.268  Sum_probs=20.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..+.|.|++|+|||||++.+.+
T Consensus        46 ~~vli~G~~G~GKTtl~~~l~~   67 (386)
T 2qby_A           46 NNIFIYGLTGTGKTAVVKFVLS   67 (386)
T ss_dssp             CCEEEEECTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3588999999999999999986

>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B* 3thy_B* 3thz_B*

Probab=92.17  E-value=0.048  Score=58.33  Aligned_cols=21  Identities=19%  Similarity=0.135  Sum_probs=19.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -++|+||||+|||||++.+.+
T Consensus       675 i~~ItGPNGaGKSTlLr~i~~  695 (918)
T 3thx_B          675 VMIITGPNMGGKSSYIKQVAL  695 (918)
T ss_dssp             EEEEESCCCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCchHHHHHHHHH
Confidence            589999999999999999864

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=92.13  E-value=0.075  Score=49.16  Aligned_cols=23  Identities=30%  Similarity=0.257  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ..++++|++|+||||++..|++.
T Consensus        99 ~~i~i~g~~G~GKTT~~~~la~~  121 (295)
T 1ls1_A           99 NLWFLVGLQGSGKTTTAAKLALY  121 (295)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999999863

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=92.12  E-value=0.066  Score=49.73  Aligned_cols=21  Identities=24%  Similarity=0.270  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .+.|.|+||+|||||++++.+
T Consensus        39 ~lll~G~~GtGKT~la~~i~~   59 (324)
T 1l8q_A           39 PIFIYGSVGTGKTHLLQAAGN   59 (324)
T ss_dssp             SEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            588999999999999999986

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=91.95  E-value=0.083  Score=45.09  Aligned_cols=21  Identities=29%  Similarity=0.357  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .+.|.|++|+|||||.+.+..
T Consensus        40 ~~ll~G~~G~GKT~l~~~l~~   60 (226)
T 2chg_A           40 HLLFSGPPGTGKTATAIALAR   60 (226)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999999986

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=91.87  E-value=0.074  Score=48.75  Aligned_cols=21  Identities=29%  Similarity=0.420  Sum_probs=19.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .+.|.|+||+||||+.++|.+
T Consensus        49 ~~ll~G~~GtGKt~la~~la~   69 (311)
T 4fcw_A           49 SFLFLGPTGVGKTELAKTLAA   69 (311)
T ss_dssp             EEEEESCSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            589999999999999999987

---

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	363
d1jala1	278	c.37.1.8 (A:1-278) YchF GTP-binding protein N-term	1e-107
d1ni3a1	296	c.37.1.8 (A:11-306) YchF GTP-binding protein N-ter	1e-70
d1wxqa1	319	c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyr	6e-57
d1jala2	85	d.15.10.2 (A:279-363) YchF GTP-binding protein, C-	5e-42
d1ni3a2	82	d.15.10.2 (A:307-388) YchF GTP-binding protein, C-	3e-37
d1lnza2	185	c.37.1.8 (A:158-342) Obg GTP-binding protein middl	6e-21
d1udxa2	180	c.37.1.8 (A:157-336) Obg GTP-binding protein middl	5e-19
d1egaa1	179	c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {	5e-08
d1xzpa2	160	c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotog	1e-07
d2cxxa1	184	c.37.1.8 (A:2-185) GTP-binding protein engB {Pyroc	1e-07
d1mkya2	186	c.37.1.8 (A:173-358) Probable GTPase Der, N-termin	4e-06
d2gj8a1	161	c.37.1.8 (A:216-376) Probable tRNA modification GT	5e-06
d1mkya1	171	c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal	2e-05
d1puia_	188	c.37.1.8 (A:) Probable GTPase EngB {Escherichia co	3e-05
d1wf3a1	178	c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {	4e-05
d1wxqa2	76	d.15.10.2 (A:320-395) GTP-binding protein PH0525 {	9e-05
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	2e-04
d1knqa_	171	c.37.1.17 (A:) Gluconate kinase {Escherichia coli	3e-04
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	5e-04
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	6e-04
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	7e-04
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	0.001
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	0.001
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	0.002
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	0.002
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	0.003
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	0.003
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	0.003
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	0.004

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]} Length = 278

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

 Score =  314 bits (807), Expect = e-107
 Identities = 136/278 (48%), Positives = 200/278 (71%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKT 60
           M  KCG++GLPNVGKSTLFNALTK  I A NYPFCTIEPN G++ +PD RL  L  IVK 
Sbjct: 1   MGFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKP 60

Query: 61  KKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEIN 120
           ++I P  ++ VDIAGLV+GASKGEGLGNKFLA+IRET+ + HV+RCF++D I H++G+I+
Sbjct: 61  ERILPTTMEFVDIAGLVAGASKGEGLGNKFLANIRETDAIGHVVRCFENDDIVHVAGKID 120

Query: 121 PIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRL 180
           P+ D + I TEL L+DL   E+ I +  K+    ++ +   L ++++I+  L  +  IR 
Sbjct: 121 PLDDIDTINTELALADLDSCERAIQRLQKRAKGGDKEAKFELSVMEKILPVLENAGMIRS 180

Query: 181 MSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL 240
           + L+ EEL +IK  N LT+KP +++ANV E+GF+NN  LD+++  A  +   ++ +CA +
Sbjct: 181 VGLDKEELQAIKSYNFLTLKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAAI 240

Query: 241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLD 278
           E EI++L++ +K  FL +LG++E  LN +IRA ++LL+
Sbjct: 241 ESEIAELDDEEKVEFLQDLGIEEPGLNRVIRAGYALLN 278

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Length = 296

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

 Score =  220 bits (562), Expect = 1e-70
 Identities = 93/289 (32%), Positives = 147/289 (50%), Gaps = 12/289 (4%)

Query: 1   MNLKCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDKRLKHLNNIVK 59
            NLK G++G+PNVGKST F A+TK  +    NYP+ TI+P    + VPD+R   L    K
Sbjct: 9   NNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYK 68

Query: 60  TKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEI 119
            K   PA + + DIAGL  GAS G GLGN FL+H+R  + +  V+R F D +I H+ G++
Sbjct: 69  PKSRVPAFLTVFDIAGLTKGASTGVGLGNAFLSHVRAVDAIYQVVRAFDDAEIIHVEGDV 128

Query: 120 NPIHDAEVIQTELILSDLAILEKYIDKENKKFFL------KNEHSIELLKLLKRIIFNLN 173
           +PI D  +I  EL++ D   +EK+++   K                E   + K   +   
Sbjct: 129 DPIRDLSIIVDELLIKDAEFVEKHLEGLRKITSRGANTLEMKAKKEEQAIIEKVYQYLTE 188

Query: 174 KSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGF--KNNLLLDQLKIYA--HNQ 229
              PIR    +N E+  I  L LLT KP+I++ N+ E  F  + N  L ++K +   ++ 
Sbjct: 189 TKQPIRKGDWSNREVEIINSLYLLTAKPVIYLVNMSERDFLRQKNKYLPKIKKWIDENSP 248

Query: 230 NIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLD 278
              +I +    EE +++    +       L   ++ L  +I   ++ L+
Sbjct: 249 GDTLIPMSVAFEERLTNFTEEEAIEECKKLNT-KSMLPKIIVTGYNALN 296

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]} Length = 319

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

 Score =  186 bits (472), Expect = 6e-57
 Identities = 75/311 (24%), Positives = 130/311 (41%), Gaps = 26/311 (8%)

Query: 3   LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGII-EVPDKRLKHLNNIVKTK 61
           ++ G++G PNVGKST F+A T + +   NYPF TIE N+G+   + D   K L      +
Sbjct: 1   MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQ 60

Query: 62  K------IFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKI-TH 114
                  +    +K+VD+AGLV GA +G GLGNKFL  +R  + +IHV+           
Sbjct: 61  NYEYRNGLALIPVKMVDVAGLVPGAHEGRGLGNKFLDDLRMASALIHVVDATGKTDPEGQ 120

Query: 115 ISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLK--------NEHSIELLKLLK 166
            +   +P+ D E ++ E+      IL K  DK  K+  L+         EH   +     
Sbjct: 121 PTDYHDPVEDIEFLEREIDYWIYGILSKGWDKFAKRIKLQKIKLESAIAEHLSGIGVNEN 180

Query: 167 RIIFNLNK-SIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIY 225
            +   ++K ++P      + ++L++         KP++  AN  +        + +L   
Sbjct: 181 DVWEAMHKLNLPEDPTKWSQDDLLAFASEIRRVNKPMVIAANKADAASDEQ--IKRLVRE 238

Query: 226 AHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLD------L 279
              +   +I   A  E  +          ++     +   L D+       L       L
Sbjct: 239 EEKRGYIVIPTSAAAELTLRKAAKAGFIEYIPGAS-EFKVLRDMSEKQKRALMVIKEKVL 297

Query: 280 RTYFTVGKKEI 290
             + + G +E+
Sbjct: 298 DRFGSTGVQEV 308

>d1jala2 d.15.10.2 (A:279-363) YchF GTP-binding protein, C-terminal domain {Haemophilus influenzae [TaxId: 727]} Length = 85

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: TGS-like
family: G domain-linked domain
domain: YchF GTP-binding protein, C-terminal domain
species: Haemophilus influenzae [TaxId: 727]

 Score =  139 bits (353), Expect = 5e-42
 Identities = 49/85 (57%), Positives = 66/85 (77%)

Query: 279 LRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKN 338
           L+TYFT G KE+RAWT+  G TA +AA +IHTD ++GFIRA  I+Y+DF+ + GE G K 
Sbjct: 1   LQTYFTAGVKEVRAWTVSVGATAPKAAAVIHTDFEKGFIRAEVIAYEDFIQFNGENGAKE 60

Query: 339 AGKIRSEGKKYLVEDGDILNFLFNI 363
           AGK R EGK Y+V+DGD+++F FN+
Sbjct: 61  AGKWRLEGKDYIVQDGDVMHFRFNV 85

>d1ni3a2 d.15.10.2 (A:307-388) YchF GTP-binding protein, C-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Length = 82

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: TGS-like
family: G domain-linked domain
domain: YchF GTP-binding protein, C-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

 Score =  127 bits (320), Expect = 3e-37
 Identities = 38/81 (46%), Positives = 55/81 (67%)

Query: 279 LRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKN 338
           L  YFT G+ E+R+WTI  GT A QAAG+IHTD ++ F+    + Y+D   YK E  C+ 
Sbjct: 1   LINYFTCGEDEVRSWTIRKGTKAPQAAGVIHTDFEKAFVVGEIMHYQDLFDYKTENACRA 60

Query: 339 AGKIRSEGKKYLVEDGDILNF 359
           AGK  ++GK+Y++E GDI ++
Sbjct: 61  AGKYLTKGKEYVMESGDIAHW 81

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]} Length = 185

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

 Score = 86.9 bits (214), Expect = 6e-21
 Identities = 50/208 (24%), Positives = 84/208 (40%), Gaps = 31/208 (14%)

Query: 6   GLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFP 65
           GL+G P+VGKSTL + ++  K    +Y F T+ PN+G++E  D R               
Sbjct: 5   GLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDGRS-------------- 50

Query: 66  AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDA 125
               + D+ GL+ GA +G GLG++FL HI  T +++HVI     +        +    + 
Sbjct: 51  --FVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQEL 108

Query: 126 EVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMS-LN 184
                        + E+       K  +         + L+     L    P+  +S + 
Sbjct: 109 SEYNLR-------LTERPQIIVANKMDMPEAA-----ENLEAFKEKLTDDYPVFPISAVT 156

Query: 185 NEELMSIKF--LNLLTIKPIIFVANVKE 210
            E L  + F   N L   P   + + +E
Sbjct: 157 REGLRELLFEVANQLENTPEFPLYDEEE 184

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]} Length = 180

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

 Score = 81.6 bits (200), Expect = 5e-19
 Identities = 47/183 (25%), Positives = 77/183 (42%), Gaps = 27/183 (14%)

Query: 6   GLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFP 65
           GL+G PN GKS+L  A+T+       YPF T+ PN+G++EV ++                
Sbjct: 5   GLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSEEER-------------- 50

Query: 66  AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDA 125
               L DI G++ GAS+G+GLG +FL HI  T ++++V+    +   T  +         
Sbjct: 51  --FTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYD 108

Query: 126 EVIQT-----------ELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNK 174
             +              L    +  L   + +E       +  +   L  LK  +  L +
Sbjct: 109 PALLRRPSLVALNKVDLLEEEAVKALADALAREGLAVLPVSALTGAGLPALKEALHALVR 168

Query: 175 SIP 177
           S P
Sbjct: 169 STP 171

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]} Length = 179

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 50.1 bits (118), Expect = 5e-08
 Identities = 19/48 (39%), Positives = 22/48 (45%), Gaps = 3/48 (6%)

Query: 4  KCG---LIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD 48
           CG   ++G PNVGKSTL N L   KIS  +    T    I  I    
Sbjct: 4  YCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEG 51

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]} Length = 160

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 48.8 bits (115), Expect = 1e-07
 Identities = 21/114 (18%), Positives = 40/114 (35%), Gaps = 16/114 (14%)

Query: 3   LKCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTK 61
           L+  ++G PNVGKSTL N L     +   + P  T +     I +     + ++      
Sbjct: 1   LRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGILFRIVDT----- 55

Query: 62  KIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHI 115
                      +    +   +  G+  + L  I + +IV+ V+           
Sbjct: 56  ---------AGVRSETNDLVERLGI-ERTLQEIEKADIVLFVLDASSPLDEEDR 99

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

 Score = 48.9 bits (115), Expect = 1e-07
 Identities = 13/35 (37%), Positives = 15/35 (42%)

Query: 6  GLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPN 40
             G  NVGKSTL   LT  K+     P  T +  
Sbjct: 4  IFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKII 38

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

 Score = 44.7 bits (104), Expect = 4e-06
 Identities = 27/127 (21%), Positives = 51/127 (40%), Gaps = 15/127 (11%)

Query: 3   LKCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDKRLKHL------- 54
           +K  ++G PNVGKSTLFNA+   + +     P  T +P    + +  ++   +       
Sbjct: 9   IKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGRKYVFVDTAGLRR 68

Query: 55  -------NNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCF 107
                       +       I+  D+  +V  A++G    ++ +A + E      V+   
Sbjct: 69  KSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQRMAGLMERRGRASVVVFN 128

Query: 108 KDDKITH 114
           K D + H
Sbjct: 129 KWDLVVH 135

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]} Length = 161

class: 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]

 Score = 44.0 bits (102), Expect = 5e-06
 Identities = 12/39 (30%), Positives = 18/39 (46%)

Query: 3  LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNI 41
          +K  + G PN GKS+L NAL   + +       T    +
Sbjct: 2  MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVL 40

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

 Score = 42.8 bits (99), Expect = 2e-05
 Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 1/36 (2%)

Query: 6  GLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPN 40
           ++G PNVGKSTLFN L K K +  E+    T +P 
Sbjct: 4  LIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPV 39

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]} Length = 188

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

 Score = 42.1 bits (97), Expect = 3e-05
 Identities = 14/52 (26%), Positives = 19/52 (36%)

Query: 3  LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHL 54
          ++    G  N GKS+  N LT  K  A           I + EV D +    
Sbjct: 17 IEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVD 68

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]} Length = 178

class: 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]

 Score = 41.6 bits (96), Expect = 4e-05
 Identities = 13/35 (37%), Positives = 19/35 (54%)

Query: 6  GLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPN 40
           ++G PNVGKSTL N L  +K++  +    T    
Sbjct: 9  AIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKR 43

>d1wxqa2 d.15.10.2 (A:320-395) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]} Length = 76

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: TGS-like
family: G domain-linked domain
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

 Score = 38.2 bits (89), Expect = 9e-05
 Identities = 16/79 (20%), Positives = 28/79 (35%), Gaps = 19/79 (24%)

Query: 281 TYFTVGKKEI--RAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKN 338
              T     +    + +  G+T    A  +HTD+ +GF+                    N
Sbjct: 10  NKLTDQFGNVLPHVFLMKKGSTPRDLAFKVHTDLGKGFL-----------------YAIN 52

Query: 339 AGKIRSEGKKYLVEDGDIL 357
           A   R  G+ Y ++  DI+
Sbjct: 53  ARTKRRVGEDYELQFNDIV 71

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.0 bits (90), Expect = 2e-04
 Identities = 12/50 (24%), Positives = 21/50 (42%)

Query: 3  LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLK 52
           K  LIG   VGK+ L    T+            ++  I  +E+  +++K
Sbjct: 6  FKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVK 55

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

 Score = 38.9 bits (89), Expect = 3e-04
 Identities = 16/168 (9%), Positives = 46/168 (27%), Gaps = 7/168 (4%)

Query: 7   LIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA 66
           L+G+   GKS + + +     +A                   + L   +     + +  A
Sbjct: 11  LMGVSGSGKSAVASEVAHQLHAAFLDGDFLHPRRNIEKMASGEPLNDDDRKPWLQALNDA 70

Query: 67  IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAE 126
              +     +            + L      N+    ++   D   + +          +
Sbjct: 71  AFAMQRTNKVSLIVCSALKKHYRDLLREGNPNLSFIYLKGDFDVIESRLKARKGHFFKTQ 130

Query: 127 VIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLKLLKRIIFNLNK 174
           ++      +    L++    E     +  +  +E   ++   I  + K
Sbjct: 131 MLV-----TQFETLQEPGADETDVLVVDIDQPLE--GVVASTIEVIKK 171

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 38.2 bits (88), Expect = 5e-04
 Identities = 14/50 (28%), Positives = 23/50 (46%)

Query: 3  LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLK 52
          +K  LIG   VGKS L     + K +        I+  I  +++  K++K
Sbjct: 3  MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVK 52

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.8 bits (87), Expect = 6e-04
 Identities = 25/132 (18%), Positives = 45/132 (34%), Gaps = 22/132 (16%)

Query: 3   LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKK 62
            K  LIG   VGK+ +    ++   ++       I+  I  IE+  KR+K          
Sbjct: 7   FKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIK---------- 56

Query: 63  IFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPI 122
                +++ D AG        E       A+ R    ++ V     +    +I   I  I
Sbjct: 57  -----LQIWDTAGQ-------ERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNI 104

Query: 123 HDAEVIQTELIL 134
            +      E ++
Sbjct: 105 EEHASADVEKMI 116

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.1 bits (87), Expect = 7e-04
 Identities = 11/47 (23%), Positives = 20/47 (42%), Gaps = 3/47 (6%)

Query: 7  LIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKH 53
           +GL + GK+ LF  L   +   +     +I  +  I +V + R   
Sbjct: 5  FVGLCDSGKTLLFVRLLTGQYR-DTQT--SITDSSAIYKVNNNRGNS 48

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.5 bits (86), Expect = 0.001
 Identities = 16/50 (32%), Positives = 24/50 (48%)

Query: 3  LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLK 52
           K  LIG   VGKS L +  T+ + + E+     +E     I+V  K +K
Sbjct: 5  FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIK 54

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 209

class: 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]

 Score = 37.3 bits (85), Expect = 0.001
 Identities = 9/55 (16%), Positives = 18/55 (32%), Gaps = 4/55 (7%)

Query: 7  LIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTK 61
          + G  N GK++L   LT         P    +  +   +     +  ++     K
Sbjct: 8  IAGPQNSGKTSLLTLLTT----DSVRPTVVSQEPLSAADYDGSGVTLVDFPGHVK 58

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 36.4 bits (83), Expect = 0.002
 Identities = 20/121 (16%), Positives = 36/121 (29%), Gaps = 22/121 (18%)

Query: 3   LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKK 62
            K  +IG  +VGK++          +        I+  +  I   DKR+K          
Sbjct: 6   FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIK---------- 55

Query: 63  IFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPI 122
                +++ D AG        E       A+ R     I +     ++    +      I
Sbjct: 56  -----LQIWDTAGQ-------ERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI 103

Query: 123 H 123
            
Sbjct: 104 K 104

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.2 bits (82), Expect = 0.002
 Identities = 10/49 (20%), Positives = 22/49 (44%)

Query: 1  MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK 49
          + +K  ++G   VGKS++     K   + +      ++     I+V D+
Sbjct: 1  VAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDE 49

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

 Score = 36.2 bits (82), Expect = 0.003
 Identities = 8/35 (22%), Positives = 16/35 (45%)

Query: 3  LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTI 37
          ++  L+GL   GK+T  N +   + + +  P    
Sbjct: 3  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGF 37

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.0 bits (82), Expect = 0.003
 Identities = 14/50 (28%), Positives = 20/50 (40%)

Query: 3  LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLK 52
          LK  +IG   VGKS+L    T      E      ++  +  I V   + K
Sbjct: 8  LKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAK 57

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.6 bits (81), Expect = 0.003
 Identities = 17/51 (33%), Positives = 25/51 (49%)

Query: 3  LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKH 53
           K  +IG   VGKS L +  T+ K  A+      +E    IIEV  +++K 
Sbjct: 5  FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKL 55

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 35.4 bits (80), Expect = 0.004
 Identities = 12/43 (27%), Positives = 17/43 (39%), Gaps = 7/43 (16%)

Query: 4  KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEV 46
          K   +GL N GK+TL + L        N    T++P       
Sbjct: 2  KLLFLGLDNAGKTTLLHMLK-------NDRLATLQPTWHPTSE 37

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	363
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	100.0
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	100.0
d1jala2	85	YchF GTP-binding protein, C-terminal domain {Haemo	100.0
d1ni3a2	82	YchF GTP-binding protein, C-terminal domain {Fissi	100.0
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	100.0
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.87
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.85
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.85
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.82
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.82
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.79
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.78
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.74
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.74
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.73
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.72
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.7
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.68
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.68
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.67
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.66
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.66
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.66
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.66
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.66
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.65
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.65
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.65
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.64
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.64
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.63
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.63
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.63
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.63
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.62
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.62
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.62
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.62
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.62
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.62
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.61
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.61
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.61
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.6
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.59
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.58
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.58
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.58
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.58
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.58
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.58
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.57
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.57
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.57
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.57
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.56
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.56
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.56
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.55
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.54
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.54
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.53
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.53
d1wxqa2	76	GTP-binding protein PH0525 {Pyrococcus horikoshii	99.52
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.51
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.48
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.46
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.46
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.46
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.45
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.45
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.43
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.42
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.4
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.39
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.38
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.36
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.35
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.32
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.31
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.31
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.3
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.29
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.24
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.0
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	98.97
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	98.97
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	98.96
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.89
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	98.83
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	98.62
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	98.51
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	98.43
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	98.4
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.27
d2awna2	232	Maltose transport protein MalK, N-terminal domain	98.12
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	98.11
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	98.05
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	97.99
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	97.97
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.96
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	97.96
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.92
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.88
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	97.87
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	97.87
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	97.87
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	97.86
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	97.86
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	97.86
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.86
d1g2912	240	Maltose transport protein MalK, N-terminal domain	97.86
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	97.84
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	97.73
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	97.71
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	97.7
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	97.67
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	97.52
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.38
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.06
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.03
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.01
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.0
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.97
d1okkd2	207	GTPase domain of the signal recognition particle r	96.95
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.86
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.84
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.84
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.8
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	96.75
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.73
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.72
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.7
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.69
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.69
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	96.68
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.68
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.63
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.62
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.61
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.61
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.59
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.54
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.54
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.49
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.39
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.37
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.37
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.35
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.34
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.32
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.32
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.31
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.18
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.17
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.16
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.16
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.15
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.11
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.07
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.03
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	95.95
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.83
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	95.79
d1tkea1	62	Threonyl-tRNA synthetase (ThrRS), N-terminal 'addi	95.63
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	95.58
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	95.53
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	95.43
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.42
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	95.4
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.36
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	95.33
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.16
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	95.15
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	95.15
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	95.1
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.98
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	94.97
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	94.91
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	94.86
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	94.83
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	94.79
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.69
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	94.65
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	94.51
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	94.29
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	94.26
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	94.09
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.05
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	93.96
d1nyra2	59	Threonyl-tRNA synthetase (ThrRS), N-terminal 'addi	93.91
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	93.82
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	93.8
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	93.45
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	93.44
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	93.44
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	92.99
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	92.92
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	92.86
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	92.81
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	92.61
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	92.45
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	92.3
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	92.26
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	91.89
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	91.87
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	91.77
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	91.72
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	91.49
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	91.45
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	91.18
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	91.08
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	91.04
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	90.96
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	90.64
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	90.03
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	89.72
d1tuea_	205	Replication protein E1 helicase domain {Human papi	89.6
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	89.6
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	89.41
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	88.1
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	88.1
d2hj1a1	77	Hypothetical protein HI0395 {Haemophilus influenza	87.74
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	87.67
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	87.57
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	87.21
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	87.11
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	87.06
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	86.83
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	86.51
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	86.29
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	85.96
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	85.95
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	85.82
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	85.63
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	85.31
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	84.93
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	84.62
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	84.42
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	84.39
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	84.3
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	83.8
d1xpua3	289	Transcription termination factor Rho, ATPase domai	83.76
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	83.29
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	83.26
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	83.0
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	82.89
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	82.77
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	82.7
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	81.89
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	81.59
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	80.01

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=100.00  E-value=1.1e-58  Score=433.18  Aligned_cols=278  Identities=49%  Similarity=0.841  Sum_probs=250.5

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      |+|||||||.||||||||||+||++.+.+++|||||++|+.|.+.++|.|++.++.+++|++.+|++++++|+||+++++
T Consensus         1 m~~~~GivG~Pn~GKSTlf~~lt~~~~~~~~ypf~ti~pn~gvv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~GLi~ga   80 (278)
T d1jala1           1 MGFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGA   80 (278)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHCCCCccccCCCCCCCCceEEEecccHhHHHHHHhcCCCceeeeeEEEEEccccCCCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHH
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIE  160 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~  160 (363)
                      +.|+|+|++||+++|+||+++||||||++++++|++|.+||++|++.+++||.+||++.++++++++.|..+.+++....
T Consensus        81 ~~g~Glg~~FL~~ir~~d~LihVVr~f~~~di~~~~g~~dP~~Die~I~~EL~l~Dle~lek~~ekl~k~~k~~~~~~~~  160 (278)
T d1jala1          81 SKGEGLGNKFLANIRETDAIGHVVRCFENDDIVHVAGKIDPLDDIDTINTELALADLDSCERAIQRLQKRAKGGDKEAKF  160 (278)
T ss_dssp             HHHGGGTCCHHHHHHTCSEEEEEEECSCC---------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCHHHHH
T ss_pred             ccCCCccHHHHHHHHhccceEEEeeccCCCCCcCCCCCcCHHHHHHHHHHHHHHhhHHHHHHHHHHHhcccccccchhhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999888888877777


Q ss_pred             HHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHH
Q psy2401         161 LLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL  240 (363)
Q Consensus       161 ~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~  240 (363)
                      ....++++...++.+.+++...|+.++...++.+.+++.||++|++|+.+.....+++.+++++++.+.+..++++||++
T Consensus       161 ~~~~l~~~~~~l~~~~~i~~~~~~~~e~~~l~~l~lLt~KP~i~v~Nv~E~~~~~~~~~~~l~~~~~~~~~~vI~isa~i  240 (278)
T d1jala1         161 ELSVMEKILPVLENAGMIRSVGLDKEELQAIKSYNFLTLKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAAI  240 (278)
T ss_dssp             HHHHHHHHHHHHHTTCCGGGSCCCHHHHHHHGGGCCSTTSCEEEEEECCTTCSSSCHHHHHHHHHHHHTTCEEEEECHHH
T ss_pred             HHHHHHHHhhhccccceeecccCChhHhHHHHhhhhhhcchhhhhhccccccccccHHHHHHHHHHHhcCCeEEEeEHHH
Confidence            88889999999999999999999999999999999999999999999887654456788899998888888999999999


Q ss_pred             HHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCC
Q psy2401         241 EEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLD  278 (363)
Q Consensus       241 e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~  278 (363)
                      |.++++|+++++.+||+++|++++|++++++++|++|+
T Consensus       241 E~el~~L~~eE~~efL~~~gl~e~gl~klIk~gy~lLn  278 (278)
T d1jala1         241 ESEIAELDDEEKVEFLQDLGIEEPGLNRVIRAGYALLN  278 (278)
T ss_dssp             HHHGGGSCSSTTHHHHTTSSCCSCTTHHHHHHHHHHTT
T ss_pred             HHHHHcCCHHHHHHHHHHcCCChhhHHHHHHHHHHhhC
Confidence            99999999999999999999999999999999999986

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=100.00  E-value=1.2e-53  Score=402.48  Aligned_cols=277  Identities=34%  Similarity=0.574  Sum_probs=251.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCC
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSG   79 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
                      |+|+|||||.||||||||||+||++. +.+++|||||++|+.|.+.++|.|++.++..+.|++.++.+++++|+||++++
T Consensus         9 ~~~kiGivG~Pn~GKSTlfnalT~~~~~~~anypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~g   88 (296)
T d1ni3a1           9 NNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKG   88 (296)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCCCCcCCCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeeccccccc
Confidence            57999999999999999999999885 57999999999999999999999999999999999999999999999999999


Q ss_pred             CCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchh-
Q psy2401          80 ASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHS-  158 (363)
Q Consensus        80 ~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~-  158 (363)
                      ++.++++|++|+.++|.||+++||||+|++.+++|++|.+||++|++.++.||.+||++.+++++.+++|..+.+.... 
T Consensus        89 A~~g~GLGn~fL~~ir~~d~lihVV~~f~d~~i~~~~g~~dP~~Di~~I~~EL~l~d~~~iek~~~kl~K~~k~~~~~~~  168 (296)
T d1ni3a1          89 ASTGVGLGNAFLSHVRAVDAIYQVVRAFDDAEIIHVEGDVDPIRDLSIIVDELLIKDAEFVEKHLEGLRKITSRGANTLE  168 (296)
T ss_dssp             CCSSSSSCHHHHHHHTTCSEEEEEEECCCTTCSSCCSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSSCSSS
T ss_pred             cccccccHHHHHHHhhccceeEEEEeccCCCCCCCCCCCcCcchhhhhhhhhHHHhhHHHhhHHHHHHHHHHhhccchhh
Confidence            9999999999999999999999999999999999999999999999999999999999999999999998877664321 


Q ss_pred             ----HHHHHHHHHHHhhhcCC-CcccccCCChHHHHHHhhhcccccccEEEeccccccCC--CchHHHHHHHHHHhcC--
Q psy2401         159 ----IELLKLLKRIIFNLNKS-IPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGF--KNNLLLDQLKIYAHNQ--  229 (363)
Q Consensus       159 ----~~~~~~l~~i~~~L~~~-~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~--~~~~~~~~i~~~~~~~--  229 (363)
                          ......++.+.+.|... .+.+...|+.+|...++.+.+++.||++||+|++|.+.  ..+.+.+++++++.++  
T Consensus       169 ~~~~~~~~~~l~~~~~~L~~~~~~~~~~~~~~~e~~~l~~~~llt~KP~i~v~Nv~E~~~~~~~n~~~~~v~~~~~~~~~  248 (296)
T d1ni3a1         169 MKAKKEEQAIIEKVYQYLTETKQPIRKGDWSNREVEIINSLYLLTAKPVIYLVNMSERDFLRQKNKYLPKIKKWIDENSP  248 (296)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCSCGGGSCCCHHHHHHHHTTCCGGGSCEEEEEECCHHHHTTTCCSSHHHHHHHHHTTST
T ss_pred             hhhhhcchhhhhHhhhhhhccccccccccccHHHHHHHHHhhhhcCCCeeeeccccchhhhhhhhHHHHHHHHHHHhhCC
Confidence                22455788899999875 46677789999999999999999999999999998643  2456778888887765  


Q ss_pred             CCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCC
Q psy2401         230 NIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLD  278 (363)
Q Consensus       230 ~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~  278 (363)
                      +..++++||++|.+|++|+++++.+||+++|+ ++|++++++++|++|+
T Consensus       249 ~~~vi~isa~~E~eL~~l~~eE~~e~l~~lg~-e~gL~rlIr~~y~lLn  296 (296)
T d1ni3a1         249 GDTLIPMSVAFEERLTNFTEEEAIEECKKLNT-KSMLPKIIVTGYNALN  296 (296)
T ss_dssp             TCCEEEECHHHHHHHTTSCHHHHHHHHHHTTC-CCSHHHHHHHHHHHTT
T ss_pred             CCeEEEEEHHHHHHHhCCCHHHHHHHHHHcCC-hhHHHHHHHHHHHhhC
Confidence            46799999999999999999999999999998 7999999999999986

>d1jala2 d.15.10.2 (A:279-363) YchF GTP-binding protein, C-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: TGS-like
family: G domain-linked domain
domain: YchF GTP-binding protein, C-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=100.00  E-value=1.1e-45  Score=273.15  Aligned_cols=85  Identities=58%  Similarity=1.059  Sum_probs=84.3

Q ss_pred             CEEEEeCCCCceEEEeecCCCCHHHhhhhhhcchhcccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEEE
Q psy2401         279 LRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILN  358 (363)
Q Consensus       279 li~~ft~g~~e~raw~~~~g~ta~~~A~~IHsD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~  358 (363)
                      |++|||+||+|+|||++++|+||+||||+|||||+||||||||++|+||+++||++.||++|++|+|||||+|||||||+
T Consensus         1 L~tFfT~G~~E~raWti~~G~~Ap~AAG~IHsDfekgFIrAeVi~~~d~i~~g~~~~~k~~Gk~r~eGKdYiv~DGDii~   80 (85)
T d1jala2           1 LQTYFTAGVKEVRAWTVSVGATAPKAAAVIHTDFEKGFIRAEVIAYEDFIQFNGENGAKEAGKWRLEGKDYIVQDGDVMH   80 (85)
T ss_dssp             EEEEEEECSSEEEEEEEETTCBHHHHHHTTCTTHHHHCCEEEEECHHHHHHTTSHHHHHHTTCCEEECTTCBCCTTCEEE
T ss_pred             CcceecCCCCeeEEeecccccchhhhhCceechhhhCcEEEEEEcHHHHHHcCCHHHHHHcCcchhhCCCCcEeCCCEEE
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEecC
Q psy2401         359 FLFNI  363 (363)
Q Consensus       359 ~~f~~  363 (363)
                      |||||
T Consensus        81 F~fNV   85 (85)
T d1jala2          81 FRFNV   85 (85)
T ss_dssp             EESCC
T ss_pred             EEecC
Confidence            99997

>d1ni3a2 d.15.10.2 (A:307-388) YchF GTP-binding protein, C-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: TGS-like
family: G domain-linked domain
domain: YchF GTP-binding protein, C-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=100.00  E-value=7.3e-44  Score=261.08  Aligned_cols=82  Identities=46%  Similarity=0.881  Sum_probs=81.0

Q ss_pred             CEEEEeCCCCceEEEeecCCCCHHHhhhhhhcchhcccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEEE
Q psy2401         279 LRTYFTVGKKEIRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILN  358 (363)
Q Consensus       279 li~~ft~g~~e~raw~~~~g~ta~~~A~~IHsD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~  358 (363)
                      |++|||+||+|+||||+++|+||+||||+|||||+||||||||++|+||+++||+..||++|++|+|||||+|||||||+
T Consensus         1 LitffT~G~~EvraWti~~g~~Ap~AAG~IHsDfekgFIrAEvi~~~D~i~~g~~~~~k~~Gk~r~eGKdYiv~DGDVi~   80 (82)
T d1ni3a2           1 LINYFTCGEDEVRSWTIRKGTKAPQAAGVIHTDFEKAFVVGEIMHYQDLFDYKTENACRAAGKYLTKGKEYVMESGDIAH   80 (82)
T ss_dssp             EEEEEECCSSEEEEEEEETTCBHHHHHHHHCHHHHHTCSEEEEECHHHHHHHTSHHHHHHTTCSCEEETTCBCCTTCEEE
T ss_pred             CceEEcCCCCceeEEEeccccchHHHhhhhhHHHhhccEEEEEecHHHHHHcCCHHHHHHhCchhhcCCcceEeCCcEEE
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EE
Q psy2401         359 FL  360 (363)
Q Consensus       359 ~~  360 (363)
                      ||
T Consensus        81 Fr   82 (82)
T d1ni3a2          81 WK   82 (82)
T ss_dssp             CC
T ss_pred             eC
Confidence            96

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=100.00  E-value=7.6e-41  Score=317.39  Aligned_cols=284  Identities=26%  Similarity=0.365  Sum_probs=186.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEE-EeCCccccccccccccccc------cceeEEEEeeec
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGII-EVPDKRLKHLNNIVKTKKI------FPAIIKLVDIAG   75 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v-~~~~~~~~~l~~~~~~~~~------~~~~i~lvDtpG   75 (363)
                      |+|||||.||||||||||+||++.+++++|||||++|+.|.+ .+++.|++.++.+++|.+.      .+.+++++|+||
T Consensus         1 ~~v~lvG~pn~GKStlfn~lt~~~~~v~nypftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~pG   80 (319)
T d1wxqa1           1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (319)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CcEeEECCCCCCHHHHHHHHHCCCCchhcCCCCcccCccceeeCCCCchhhhhhhccCccccccccccccccEEEEECCC
Confidence            699999999999999999999999999999999999999986 5788899999999999863      447899999999


Q ss_pred             ccCCCCcccchhhHHHhhccccCEEEEEEecccCCce-eeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccC
Q psy2401          76 LVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKI-THISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLK  154 (363)
Q Consensus        76 l~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~-~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g  154 (363)
                      +.++++.+++++++|+++++++|+++||||||+..++ .|+.+..||.++++.++.|+.+++++.+++++.++.|..+.+
T Consensus        81 li~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~~~~d~~~~~~~~~dp~~d~~~i~~eL~~~~~~~~~k~~~~l~K~~~~~  160 (319)
T d1wxqa1          81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDATGKTDPEGQPTDYHDPVEDIEFLEREIDYWIYGILSKGWDKFAKRIKLQ  160 (319)
T ss_dssp             --------------CCCSSTTCSEEEEEEETTCCBCTTSCBCSCCCHHHHHHHHHHHHHHHHHHHHHTTTHHHHSTTTSS
T ss_pred             cccchhcccchHHHHHHhhccceEEEEEecccccccccccccccccHHHHHHHHHHHHHHhhHHHhhhhhhhhhhhcccc
Confidence            9999999999999999999999999999999987665 588899999999999999999999999999999998776554


Q ss_pred             CchhHH-HHH-------HHHHHHhhhcC-CCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHH
Q psy2401         155 NEHSIE-LLK-------LLKRIIFNLNK-SIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIY  225 (363)
Q Consensus       155 ~~~~~~-~~~-------~l~~i~~~L~~-~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~  225 (363)
                      +..... ...       ....+.+.+.. ........|+.++...+....+++.||++|++||.|..  .++..+++.+.
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~e~~~~~~~~~~~~kP~~~v~Nk~d~~--~~e~~~~~~~~  238 (319)
T d1wxqa1         161 KIKLESAIAEHLSGIGVNENDVWEAMHKLNLPEDPTKWSQDDLLAFASEIRRVNKPMVIAANKADAA--SDEQIKRLVRE  238 (319)
T ss_dssp             CCCHHHHHHHHTGGGTCCHHHHHHHHHHTTCCSCGGGCCHHHHHHHHHHHHHHHSCEEEEEECGGGS--CHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHhhHHHHHHHHHhcCCcchhhhcCHHHHHHhHHHhhhhcCchhhhcccccch--hhHHHHHHHHH
Confidence            322211 111       01223333332 22233456888887778878888999999999999964  46667777666


Q ss_pred             HhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCC------CEEEEeCCCCc
Q psy2401         226 AHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLD------LRTYFTVGKKE  289 (363)
Q Consensus       226 ~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~------li~~ft~g~~e  289 (363)
                      ..+.+..++++||+.|.++.+++++...+|+.... ...++.++..+.+..|.      |.+|||+|++|
T Consensus       239 ~~~~~~~vi~~sa~~E~~L~~~~~~~~i~~~~~~~-~~~~l~~l~~~~~~~l~~i~e~~L~~~~ttGv~e  307 (319)
T d1wxqa1         239 EEKRGYIVIPTSAAAELTLRKAAKAGFIEYIPGAS-EFKVLRDMSEKQKRALMVIKEKVLDRFGSTGVQE  307 (319)
T ss_dssp             HHHTTCEEEEECHHHHHHHHSCSSSCCCCSCC------------------CTTHHHHHHTSSSSSCSHHH
T ss_pred             HhhcCCEEEEecHHHHHHHHHhHHHHHHHHhcccc-hhhhhHHHhHHHHHHHHHHHHHhhhhccCcCHHH
Confidence            67778889999999999999987655444544322 12334444444444333      45677776544

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.87  E-value=9.9e-22  Score=180.60  Aligned_cols=226  Identities=17%  Similarity=0.129  Sum_probs=180.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHH---cCCc---------cccCC------CceeecceeEEEEeCCcccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALT---KLKI---------SAENY------PFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIF   64 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt---~~~~---------~~~~~------p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~   64 (363)
                      ++|+|+|+.++|||||..+|+   |...         .+.++      .+.|+......+.|++                
T Consensus         7 Rni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~----------------   70 (276)
T d2bv3a2           7 RNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKD----------------   70 (276)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETT----------------
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCC----------------
Confidence            479999999999999999995   2111         11222      3667788888888888                


Q ss_pred             ceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-h
Q psy2401          65 PAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-Y  143 (363)
Q Consensus        65 ~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~  143 (363)
                       .+++++||||+.++..       .....++.+|.+|+|||+.++.                ..+++..|..+...+. +
T Consensus        71 -~~~n~iDtPG~~dF~~-------e~~~~l~~~D~avlVvda~~Gv----------------~~~T~~~w~~a~~~~lP~  126 (276)
T d2bv3a2          71 -HRINIIDAPGHVDFTI-------EVERSMRVLDGAIVVFDSSQGV----------------EPQSETVWRQAEKYKVPR  126 (276)
T ss_dssp             -EEEEEECCCSSSSCST-------THHHHHHHCCEEEEEEETTTSS----------------CHHHHHHHHHHHTTTCCE
T ss_pred             -eEEEEecCCchhhhHH-------HHHHHHHhhhheEEeccccCCc----------------chhHHHHHHHHHHcCCCE
Confidence             7899999999998876       6778889999999999997654                3456888888887776 6


Q ss_pred             hhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEecc---ccccCCCchHHH
Q psy2401         144 IDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFVAN---VKENGFKNNLLL  219 (363)
Q Consensus       144 ~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v~N---k~d~~~~~~~~~  219 (363)
                      +.++||+++    ...++..+++++++.|.....+.++|++.++  .++++ ++++.+.+.|-..   +......|++..
T Consensus       127 i~fINKmDr----~~ad~~~~l~ei~~~l~~~~vp~~~Pig~~~--~f~GvvDl~~~~a~~~~~~~g~~~~~~~ip~~~~  200 (276)
T d2bv3a2         127 IAFANKMDK----TGADLWLVIRTMQERLGARPVVMQLPIGRED--TFSGIIDVLRMKAYTYGNDLGTDIREIPIPEEYL  200 (276)
T ss_dssp             EEEEECTTS----TTCCHHHHHHHHHHTTCCCEEECEEEESCGG--GCCEEEETTTTEEEEESSSSSCCEEEECCCGGGH
T ss_pred             EEEEecccc----cccccchhHHHHHHHhCCCeEEEEecccCCC--ceeEEeeccceEEEEecCCCCccceeccCchHHH
Confidence            899999954    4456889999999999988888888998776  67888 8888888888432   111101356677


Q ss_pred             HHHHHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeC
Q psy2401         220 DQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTV  285 (363)
Q Consensus       220 ~~i~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~  285 (363)
                      +...++           ...+.+.+++.+++++++||++..++.+.+.+.+++++....++|||-.
T Consensus       201 ~~~~~~-----------~~~l~e~vae~Dd~L~e~yle~~e~~~eel~~~l~~a~~~g~i~PV~~G  255 (276)
T d2bv3a2         201 DQAREY-----------HEKLVEVAADFDENIMLKYLEGEEPTEEELVAAIRKGTIDLKITPVFLG  255 (276)
T ss_dssp             HHHHHH-----------HHHHHHHHHTTCHHHHHHHHHTCCCCHHHHHHHHHHHHHTTSCEEEEEC
T ss_pred             HHHHHH-----------HHHHhhhhhcccHHHHHHHhcCCCCCHHHHHHHHHHHHhcCcEEEEEEe
Confidence            777776           5668888999999999999999999999999999999999999999975

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.85  E-value=2.5e-21  Score=166.82  Aligned_cols=165  Identities=28%  Similarity=0.497  Sum_probs=124.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      .|||+|+||||||||+|+|++....+++++++|..++.+.......                .++.+|||||+..+.+.+
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~----------------~~~~~~DtpG~~~~~~~~   66 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSEE----------------ERFTLADIPGIIEGASEG   66 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSSS----------------CEEEEEECCCCCCCGGGS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceeccCCCceeeeeceeeecCC----------------CeEEEcCCCeeecCchHH
Confidence            5999999999999999999999888889999999998887766543                578999999998877777


Q ss_pred             cchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHHH
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELLK  163 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~~  163 (363)
                      ..+..+++.+++.+|++++++|++...           ..+                                       
T Consensus        67 ~~~~~~~l~~~~~~~~~~~~~d~~~~~-----------~~~---------------------------------------   96 (180)
T d1udxa2          67 KGLGLEFLRHIARTRVLLYVLDAADEP-----------LKT---------------------------------------   96 (180)
T ss_dssp             CCSCHHHHHHHTSSSEEEEEEETTSCH-----------HHH---------------------------------------
T ss_pred             HHHHHHHHHHHHhhhhhhhhccccccc-----------ccc---------------------------------------
Confidence            778889999999999999999985310           000                                       


Q ss_pred             HHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         164 LLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       164 ~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       ++....++                   ..+ .....+|+++|+||+|..  ..+..+.+.+.+...+.+++++||+   
T Consensus        97 -~~~~~~~~-------------------~~~~~~~~~~p~iiv~NK~D~~--~~~~~~~~~~~~~~~~~~~~~iSA~---  151 (180)
T d1udxa2          97 -LETLRKEV-------------------GAYDPALLRRPSLVALNKVDLL--EEEAVKALADALAREGLAVLPVSAL---  151 (180)
T ss_dssp             -HHHHHHHH-------------------HHHCHHHHHSCEEEEEECCTTS--CHHHHHHHHHHHHTTTSCEEECCTT---
T ss_pred             -hhhhhhhh-------------------hccccccchhhhhhhhhhhhhh--hHHHHHHHHHHHHhcCCeEEEEEcC---
Confidence             00000101                   001 112468999999999974  3555666777777788999999998   


Q ss_pred             HHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCC
Q psy2401         243 EISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLD  278 (363)
Q Consensus       243 ~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~  278 (363)
                                         +.+|++++.+.+.+.+.
T Consensus       152 -------------------tg~gid~L~~~i~~~l~  168 (180)
T d1udxa2         152 -------------------TGAGLPALKEALHALVR  168 (180)
T ss_dssp             -------------------TCTTHHHHHHHHHHHHH
T ss_pred             -------------------CCCCHHHHHHHHHHHHh
Confidence                               46777777777666554

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=99.85  E-value=5.9e-22  Score=171.44  Aligned_cols=89  Identities=40%  Similarity=0.779  Sum_probs=79.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      +|||+|+||||||||+|+|+++...+.+++++|.+++.+...+.+.                ..+.++||||+.+..+.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~~~~~~~~~T~~~~~~~~~~~~~----------------~~~~~~DtpG~~~~~~~~   66 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDG----------------RSFVMADLPGLIEGAHQG   66 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSS----------------CEEEEEEHHHHHHHTTCT
T ss_pred             eEEEECCCCCCHHHHHHHHhCCCCceecCCCceEeeeeceeEecCC----------------cEEEEecCCCcccCchHH
Confidence            6999999999999999999999888899999999999999888763                468999999998777777


Q ss_pred             cchhhHHHhhccccCEEEEEEeccc
Q psy2401          84 EGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        84 ~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ..+.++++..++.++.++++++.+.
T Consensus        67 ~~~~~~~l~~~~~~~~i~~~v~~~~   91 (185)
T d1lnza2          67 VGLGHQFLRHIERTRVIVHVIDMSG   91 (185)
T ss_dssp             TTTHHHHHHHHHHCCEEEEEEESSC
T ss_pred             HHHHHHHHHHHHHhhhhhheeeecc
Confidence            7788899999999999999998753

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=99.82  E-value=5.6e-20  Score=168.29  Aligned_cols=225  Identities=14%  Similarity=0.072  Sum_probs=170.5

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHH---cCCcc---------ccCC------CceeecceeEEEEeCCcccccccccccccc
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALT---KLKIS---------AENY------PFCTIEPNIGIIEVPDKRLKHLNNIVKTKK   62 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt---~~~~~---------~~~~------p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~   62 (363)
                      |=++|+++|+.++|||||+.+|.   |....         +.++      .+.|+......+.|++              
T Consensus         1 ~iRNv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~~~--------------   66 (267)
T d2dy1a2           1 MIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRG--------------   66 (267)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETT--------------
T ss_pred             CeeEEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeecccccccc--------------
Confidence            44689999999999999999995   22111         1111      3567777778888888              


Q ss_pred             ccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh
Q psy2401          63 IFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK  142 (363)
Q Consensus        63 ~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~  142 (363)
                         .+++++||||+.++..       .....++.+|++++|||+.++.                ..+++..|..+.....
T Consensus        67 ---~~~n~iDtPGh~dF~~-------e~~~al~~~D~avlvvda~~Gv----------------~~~t~~~~~~~~~~~~  120 (267)
T d2dy1a2          67 ---HRVFLLDAPGYGDFVG-------EIRGALEAADAALVAVSAEAGV----------------QVGTERAWTVAERLGL  120 (267)
T ss_dssp             ---EEEEEEECCCSGGGHH-------HHHHHHHHCSEEEEEEETTTCS----------------CHHHHHHHHHHHHTTC
T ss_pred             ---cceeEEccCchhhhhh-------hhhhhhcccCceEEEeeccCCc----------------cchhHHHHHhhhhccc
Confidence               7899999999887554       7788899999999999996654                3455777777777666


Q ss_pred             -hhhhhhcccccCCchhHHHHHHHHHHHhhhcCCCcccccCCChHHHHHHhhh-cccccccEEEec-cccccCCCchHHH
Q psy2401         143 -YIDKENKKFFLKNEHSIELLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFL-NLLTIKPIIFVA-NVKENGFKNNLLL  219 (363)
Q Consensus       143 -~~~~i~k~~~~g~~~~~~~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~-~~l~~kp~i~v~-Nk~d~~~~~~~~~  219 (363)
                       ++..+||+++..     +..+.++++++.|. ...+.++|+..++  .+.++ ++++.+.+.|-. +....+ .|.+..
T Consensus       121 p~~i~iNk~D~~~-----~~~~~l~~~~~~lg-~~vp~~~Pi~~~~--~f~GvvDl~~~~a~~~~~~~~~~~~-ip~~~~  191 (267)
T d2dy1a2         121 PRMVVVTKLDKGG-----DYYALLEDLRSTLG-PILPIDLPLYEGG--KWVGLIDVFHGKAYRYENGEEREAE-VPPEER  191 (267)
T ss_dssp             CEEEEEECGGGCC-----CHHHHHHHHHHHHC-SEEECEEEEEETT--EEEEEEETTTTEEEEEETTEEEEEC-CCGGGH
T ss_pred             ccccccccccccc-----cchhhhhhHHHHhc-cCcCeEeeeccCC--ceeEEeecCcceEEEecCCCCceee-CCHHHH
Confidence             568999997533     35577888999986 3455666776554  45666 777777776632 222222 356666


Q ss_pred             HHHHHHHhcCCCcEEEeeHHHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCCCEEEEeC
Q psy2401         220 DQLKIYAHNQNIPIIIICAKLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLDLRTYFTV  285 (363)
Q Consensus       220 ~~i~~~~~~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~li~~ft~  285 (363)
                      +.++++           ...+-+.+++.+++.+++||++..++.+.+.+.+++++....++|||..
T Consensus       192 ~~~~~~-----------r~~L~E~vae~Dd~Lle~yle~~~l~~eel~~~l~~ai~~g~i~PV~~G  246 (267)
T d2dy1a2         192 ERVQRF-----------RQEVLEAIVETDEGLLEKYLEGEEVTGEALEKAFHEAVRRGLLYPVALA  246 (267)
T ss_dssp             HHHHHH-----------HHHHHHHHHTTCHHHHHHHHHTCCCCHHHHHHHHHHHHHTTSCEEEEEC
T ss_pred             HHHHHH-----------HHHHHHHHHhcCHHHHHHHhCCCcccHHHHHHHHHHHHHcCcEEEEEeC
Confidence            777766           5668888999999999999999999999999999999999999999975

>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=99.82  E-value=1.3e-19  Score=155.75  Aligned_cols=89  Identities=27%  Similarity=0.299  Sum_probs=74.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      -.|+++|++|||||||+|+|++.. ..++++|++|.....+.....+                 .++.++||||+.....
T Consensus         6 ~~I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~~~-----------------~~~~~~DtpG~~~~~~   68 (178)
T d1wf3a1           6 GFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGR-----------------RQIVFVDTPGLHKPMD   68 (178)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETT-----------------EEEEEEECCCCCCCCS
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCceeecccCCcccccccceeeeee-----------------eeeeeccccccccccc
Confidence            369999999999999999999985 5678999999999988888887                 6799999999976655


Q ss_pred             ccc-chhhHHHhhccccCEEEEEEeccc
Q psy2401          82 KGE-GLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        82 ~~~-~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ... .+.......+++||++++|+|++.
T Consensus        69 ~~~~~~~~~~~~~~~~ad~il~v~D~~~   96 (178)
T d1wf3a1          69 ALGEFMDQEVYEALADVNAVVWVVDLRH   96 (178)
T ss_dssp             HHHHHHHHHHHHHTSSCSEEEEEEETTS
T ss_pred             ccchhcccccccccccccceeeeechhh
Confidence            432 234456678899999999999953

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.79  E-value=4.5e-19  Score=149.03  Aligned_cols=89  Identities=28%  Similarity=0.350  Sum_probs=74.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +||+++|+||||||||+|+|+|.. ..++++|++|..+....+...+                 ..+.++||||+.....
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~~-----------------~~~~~~Dt~G~~~~~~   63 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG-----------------ILFRIVDTAGVRSETN   63 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT-----------------EEEEEEESSCCCSSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeeccccccccceeEEEEeCC-----------------eeEEeccccccccCCc
Confidence            589999999999999999999874 5688999999999999999888                 7799999999865433


Q ss_pred             c--ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          82 K--GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        82 ~--~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      .  .......+++.++.+|++++|+|+++
T Consensus        64 ~~~~~~~~~~~~~~~~~ad~ii~v~d~~~   92 (160)
T d1xzpa2          64 DLVERLGIERTLQEIEKADIVLFVLDASS   92 (160)
T ss_dssp             TTCCCCCHHHHHHHHHHCSEEEEEEETTS
T ss_pred             cHHHHHHHHHHHHHHHhCCEEEEEEeCCC
Confidence            2  12223578888999999999999953

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.78  E-value=1.3e-18  Score=149.50  Aligned_cols=83  Identities=23%  Similarity=0.184  Sum_probs=62.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASKG   83 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~   83 (363)
                      .|+|+|+||||||||+|+|+++.+.++++||+|.+..  .+.+.                   .+.++||||+.......
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~~~~~~g~T~~~~--~~~~~-------------------~~~ivDtpG~~~~~~~~   60 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKII--EIEWK-------------------NHKIIDMPGFGFMMGLP   60 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSCE--EEEET-------------------TEEEEECCCBSCCTTSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCEeeccc--ccccc-------------------cceecccCCceeccccc
Confidence            6999999999999999999999888999999998754  33333                   36789999985433322


Q ss_pred             cc--------hhhHHHhhccccCEEEEEEecc
Q psy2401          84 EG--------LGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        84 ~~--------l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ..        +...+...++.+|++++|+|++
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~d~~~~vvD~~   92 (184)
T d2cxxa1          61 KEVQERIKDEIVHFIEDNAKNIDVAVLVVDGK   92 (184)
T ss_dssp             HHHHHHHHHHHHHHHHHHGGGCCEEEEEEETT
T ss_pred             cccccccchhhhhhhhhcccccchheeeeecc
Confidence            11        1223345668899999999985

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=99.74  E-value=7.6e-18  Score=145.05  Aligned_cols=90  Identities=27%  Similarity=0.364  Sum_probs=66.3

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      ++|||++|++|||||||+|+|++.. ..+++++++|.....+.+.+++                 ..+.++|+||+....
T Consensus         8 ~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~~-----------------~~~~~~d~~g~~~~~   70 (186)
T d1mkya2           8 AIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDG-----------------RKYVFVDTAGLRRKS   70 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETT-----------------EEEEESSCSCC----
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCcceeecccccccccceeeeccCC-----------------ceeeeeccCCccccc
Confidence            3799999999999999999999974 5689999999999999999988                 678999999985422


Q ss_pred             Cc-----ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          81 SK-----GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        81 ~~-----~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ..     ...........++.+|++++|+|+..
T Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~dvii~v~d~~~  103 (186)
T d1mkya2          71 RVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQ  103 (186)
T ss_dssp             -------CCSCCHHHHHHHHHCSEEEEEEETTT
T ss_pred             cccccccccchhHHHHHHHhcCCEEEEeecccc
Confidence            21     12233567788899999999999953

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=99.74  E-value=1.1e-17  Score=142.51  Aligned_cols=88  Identities=33%  Similarity=0.402  Sum_probs=60.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +|+++|++|||||||+|+|++.. ..++++|++|..+..+.+...+                 .++.++|+||+......
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~~~~~~t~~~~~~~~~~~~-----------------~~~~~~d~~g~~~~~~~   64 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYG-----------------KTFKLVDTCGVFDNPQD   64 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETT-----------------EEEEEEECTTTTSSGGG
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcceecccCceeeccccccccccc-----------------cccccccccceeeeecc
Confidence            68999999999999999999975 4588999999999988888777                 77899999998765443


Q ss_pred             cc--chhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GE--GLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~--~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ..  ......+..+..+|++++++++++
T Consensus        65 ~~~~~~~~~~~~~~~~ad~i~~~~~~~~   92 (171)
T d1mkya1          65 IISQKMKEVTLNMIREADLVLFVVDGKR   92 (171)
T ss_dssp             CCCHHHHHHHHHHHTTCSEEEEEEETTT
T ss_pred             ccccccccccccccccCcEEEEeecccc
Confidence            22  223455667789999999999853

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.73  E-value=3.2e-18  Score=144.93  Aligned_cols=154  Identities=16%  Similarity=0.083  Sum_probs=98.4

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      |++||+++|.+|||||||++++++........|....+.........+..               ..+.+|||+|.....
T Consensus         1 ~~iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~---------------~~~~i~d~~g~~~~~   65 (164)
T d1z2aa1           1 VAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDED---------------VRLMLWDTAGQEEFD   65 (164)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEE---------------EEEEEECCTTGGGTT
T ss_pred             CeEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCce---------------eeeeeeccCCccchh
Confidence            67899999999999999999999754433333433333344445555533               678999999976554


Q ss_pred             CcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHH
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIE  160 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~  160 (363)
                      ...       ...++.+|++++|+|+.+.                                                   
T Consensus        66 ~~~-------~~~~~~~~~~i~v~d~~~~---------------------------------------------------   87 (164)
T d1z2aa1          66 AIT-------KAYYRGAQACVLVFSTTDR---------------------------------------------------   87 (164)
T ss_dssp             CCC-------HHHHTTCCEEEEEEETTCH---------------------------------------------------
T ss_pred             hhh-------hhhhccCceEEEEEeccch---------------------------------------------------
Confidence            322       2445899999999998531                                                   


Q ss_pred             HHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHH
Q psy2401         161 LLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL  240 (363)
Q Consensus       161 ~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~  240 (363)
                        ..++.+..|++                .+..  .....|+++|+||.|.........+++++++++.+.+++.+||+.
T Consensus        88 --~s~~~~~~~~~----------------~i~~--~~~~~~iilVgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~  147 (164)
T d1z2aa1          88 --ESFEAISSWRE----------------KVVA--EVGDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKE  147 (164)
T ss_dssp             --HHHHTHHHHHH----------------HHHH--HHCSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTT
T ss_pred             --hhhhhcccccc----------------cccc--cCCCceEEEeeccCCcccceeeeehhhHHHHHHcCCEEEEeccCC
Confidence              11111222221                0111  114679999999999642112234456677777788999999996


Q ss_pred             HHHHhcC
Q psy2401         241 EEEISDL  247 (363)
Q Consensus       241 e~~i~el  247 (363)
                      ..++.++
T Consensus       148 g~~v~e~  154 (164)
T d1z2aa1         148 DLNVSEV  154 (164)
T ss_dssp             TBSSHHH
T ss_pred             CcCHHHH
Confidence            5554444

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=99.72  E-value=2.4e-18  Score=144.68  Aligned_cols=90  Identities=22%  Similarity=0.302  Sum_probs=73.0

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCcc-ccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~-~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      ++||+++|+||||||||+|+|++.... ++++|++|.....+.+...+                 .++.++|+||+.+..
T Consensus         1 ~~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------~~~~~~d~~g~~~~~   63 (161)
T d2gj8a1           1 GMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDG-----------------MPLHIIDTAGLREAS   63 (161)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETT-----------------EEEEEEECCCCSCCS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeeccC-----------------ceeeecccccccccc
Confidence            579999999999999999999998544 78889999998888888888                 678999999998755


Q ss_pred             Ccccch-hhHHHhhccccCEEEEEEeccc
Q psy2401          81 SKGEGL-GNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        81 ~~~~~l-~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ...... ........+.+|++++++|+..
T Consensus        64 ~~~~~~~~~~~~~~~~~~d~~i~~~d~~~   92 (161)
T d2gj8a1          64 DEVERIGIERAWQEIEQADRVLFMVDGTT   92 (161)
T ss_dssp             SHHHHHHHHHHHHHHHTCSEEEEEEETTT
T ss_pred             ccchhHHHHHHHHHHHhccccceeecccc
Confidence            433222 2344566788999999999853

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=3.5e-17  Score=139.30  Aligned_cols=153  Identities=16%  Similarity=0.155  Sum_probs=101.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++++++........|..+.+.....+.+++..               ..+.+|||||.....  
T Consensus         6 ~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~e~~~--   68 (171)
T d2ew1a1           6 FKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEK---------------VKLQIWDTAGQERFR--   68 (171)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEE---------------EEEEEEEECCSGGGH--
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEE---------------EEEEEEECCCchhhH--
Confidence            689999999999999999999876666666666666666677777744               678999999953221  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                           ......++.+|++++|+|.++..                                                    
T Consensus        69 -----~~~~~~~~~~~~~i~v~d~~~~~----------------------------------------------------   91 (171)
T d2ew1a1          69 -----SITQSYYRSANALILTYDITCEE----------------------------------------------------   91 (171)
T ss_dssp             -----HHHGGGSTTCSEEEEEEETTCHH----------------------------------------------------
T ss_pred             -----HHHHHHHhccceEEEeeecccch----------------------------------------------------
Confidence                 12234568999999999985311                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       .++.+.+++.                .+... .....|+++++||.|.+.......++++++....+.+++++||+..+
T Consensus        92 -s~~~~~~~~~----------------~i~~~-~~~~~~~ilvgnK~D~~~~~~v~~~~~~~~~~~~~~~~~~~SAktg~  153 (171)
T d2ew1a1          92 -SFRCLPEWLR----------------EIEQY-ASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESD  153 (171)
T ss_dssp             -HHHTHHHHHH----------------HHHHH-SCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCT
T ss_pred             -hhhhhhhhhh----------------hhccc-ccccccEEEEEeecccccccchhhhHHHHHHHhCCCEEEEEccCCCC
Confidence             0011111110                01001 11456889999999964211223455667777778899999999655


Q ss_pred             HHhcC
Q psy2401         243 EISDL  247 (363)
Q Consensus       243 ~i~el  247 (363)
                      +|.++
T Consensus       154 gV~e~  158 (171)
T d2ew1a1         154 NVEKL  158 (171)
T ss_dssp             THHHH
T ss_pred             CHHHH
Confidence            55444

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=1.7e-16  Score=135.38  Aligned_cols=152  Identities=15%  Similarity=0.122  Sum_probs=99.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++.+++.... ..++.++.+.....+.+++..               ..+.+||++|.......
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~~f~-~~~~~t~~~~~~~~~~~~~~~---------------~~l~~~d~~g~~~~~~~   70 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQSYFV-SDYDPTIEDSYTKICSVDGIP---------------ARLDILDTAGQEEFGAM   70 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSSCC-SSCCTTCCEEEEEEEEETTEE---------------EEEEEEECCCTTTTSCC
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCC-cccccccccceeeEeccCCee---------------eeeeccccccccccccc
Confidence            68999999999999999999975443 344444444555567777654               67899999997665442


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                             ....++.+|++++|+|.++.                                                     
T Consensus        71 -------~~~~~~~~~~~i~v~d~~~~-----------------------------------------------------   90 (173)
T d2fn4a1          71 -------REQYMRAGHGFLLVFAINDR-----------------------------------------------------   90 (173)
T ss_dssp             -------HHHHHHHCSEEEEEEETTCH-----------------------------------------------------
T ss_pred             -------cchhhccceeeeeecccccc-----------------------------------------------------
Confidence                   23445889999999998531                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      ..++.+..|+.                .+.........|+++|+||.|+........++.++++.+.+.+++.+||+...
T Consensus        91 ~s~~~~~~~~~----------------~i~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~  154 (173)
T d2fn4a1          91 QSFNEVGKLFT----------------QILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRL  154 (173)
T ss_dssp             HHHHHHHHHHH----------------HHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTB
T ss_pred             cccchhhhhhH----------------HHHHHhccCCCceEEEEEeechhhccccchhhhhHHHHhcCCEEEEEeCCCCc
Confidence            11111222211                01111112467999999999964322223456777788889999999999544


Q ss_pred             HHhc
Q psy2401         243 EISD  246 (363)
Q Consensus       243 ~i~e  246 (363)
                      ++.+
T Consensus       155 gv~e  158 (173)
T d2fn4a1         155 NVDE  158 (173)
T ss_dssp             SHHH
T ss_pred             CHHH
Confidence            4433

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=1.4e-16  Score=135.38  Aligned_cols=152  Identities=18%  Similarity=0.100  Sum_probs=88.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||++.+.+....  .++.++.......+.+++..               ..+.+||+||...+.. 
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~~--~~~~~~~~~~~~~i~~~~~~---------------~~l~i~D~~g~e~~~~-   63 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVEDG--PEAEAAGHTYDRSIVVDGEE---------------ASLMVYDIWEQDGGRW-   63 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC-----------CEEEEEEEEETTEE---------------EEEEEEECC--------
T ss_pred             eEEEEECCCCcCHHHHHHHHhCCccC--CcCCeeeeeecceeeccccc---------------cceeeeecccccccce-
Confidence            58999999999999999999986332  22222222233455666643               6899999999754432 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                         +.   ...++.+|++++|+|+++.                                                     
T Consensus        64 ---~~---~~~~~~~d~~ilv~d~t~~-----------------------------------------------------   84 (168)
T d2gjsa1          64 ---LP---GHCMAMGDAYVIVYSVTDK-----------------------------------------------------   84 (168)
T ss_dssp             ---CH---HHHHTSCSEEEEEEETTCH-----------------------------------------------------
T ss_pred             ---ec---ccchhhhhhhceecccccc-----------------------------------------------------
Confidence               22   2445899999999998531                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      ..++.+..|+.                .+.........|+++|+||.|++.......++.++++...+.+++.+||+...
T Consensus        85 ~s~~~~~~~~~----------------~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~  148 (168)
T d2gjsa1          85 GSFEKASELRV----------------QLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHH  148 (168)
T ss_dssp             HHHHHHHHHHH----------------HHHHHCC--CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTSEEEECBTTTTB
T ss_pred             ccccccccccc----------------hhhcccccccceEEEeecccchhhhcchhHHHHHHHHHhcCCEEEEEeCCCCc
Confidence            11222222221                01111112457999999999964211123455666777778899999999655


Q ss_pred             HHhcC
Q psy2401         243 EISDL  247 (363)
Q Consensus       243 ~i~el  247 (363)
                      ++.++
T Consensus       149 ~v~~~  153 (168)
T d2gjsa1         149 NVQAL  153 (168)
T ss_dssp             SHHHH
T ss_pred             CHHHH
Confidence            44443

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.67  E-value=7.2e-17  Score=137.17  Aligned_cols=83  Identities=20%  Similarity=0.143  Sum_probs=58.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++++++........|..+.+.....+...+..               ..+++|||||.....  
T Consensus         6 ~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~l~~wDt~G~e~~~--   68 (169)
T d3raba_           6 FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKR---------------IKLQIWDTAGQERYR--   68 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEE---------------EEEEEEEECCSGGGH--
T ss_pred             EEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecce---------------EEEEEEECCCchhhH--
Confidence            689999999999999999998765443333433434444455555432               679999999954321  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           ......++.+|++++|+|+.
T Consensus        69 -----~~~~~~~~~ad~~ilv~d~~   88 (169)
T d3raba_          69 -----TITTAYYRGAMGFILMYDIT   88 (169)
T ss_dssp             -----HHHHTTTTTCCEEEEEEETT
T ss_pred             -----HHHHHHHhcCCEEEEEEECc
Confidence                 12234578999999999985

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=2.8e-16  Score=134.25  Aligned_cols=83  Identities=25%  Similarity=0.179  Sum_probs=61.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++++++........|+++.......+..++..               ..+.+||+||...+...
T Consensus         5 ~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~d~~g~e~~~~~   69 (175)
T d2f9la1           5 FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKT---------------IKAQIWDTAGQERYRRI   69 (175)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEE---------------EEEEEEECSSGGGTTCC
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEE---------------EEEEecccCCcHHHHHH
Confidence            699999999999999999999876555555555555555666776643               68899999997654442


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                             ....++.+|++++|+|+.
T Consensus        70 -------~~~~~~~~~~~i~v~d~~   87 (175)
T d2f9la1          70 -------TSAYYRGAVGALLVYDIA   87 (175)
T ss_dssp             -------CHHHHTTCSEEEEEEETT
T ss_pred             -------HHHHhhccCeEEEEEECC
Confidence                   234568899999999985

>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=99.66  E-value=1.2e-16  Score=137.37  Aligned_cols=82  Identities=23%  Similarity=0.303  Sum_probs=53.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc-cccCC------CceeecceeEEEEeCCccccccccccccccccceeEEEEeeec
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI-SAENY------PFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAG   75 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~-~~~~~------p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpG   75 (363)
                      ++||++|+||||||||+|+|++... ...+.      .+.|.......+.+++                 ..+.++|+||
T Consensus         6 inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~-----------------~~~~~~d~~g   68 (179)
T d1wb1a4           6 INLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN-----------------YRITLVDAPG   68 (179)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT-----------------EEEEECCCSS
T ss_pred             EEEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccCC-----------------cccccccccc
Confidence            5799999999999999999997532 12221      1222333333334444                 5788999998


Q ss_pred             ccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          76 LVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        76 l~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ..+       +.......+..+|++++|+|+.+
T Consensus        69 ~~~-------~~~~~~~~l~~~d~~ilv~d~~~   94 (179)
T d1wb1a4          69 HAD-------LIRAVVSAADIIDLALIVVDAKE   94 (179)
T ss_dssp             HHH-------HHHHHHHHTTSCCEEEEEEETTT
T ss_pred             ccc-------cccchhhhhhhcccccccccccc
Confidence            643       33456677789999999999964

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=2.9e-16  Score=132.43  Aligned_cols=146  Identities=17%  Similarity=0.125  Sum_probs=95.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||++++++........|..+..........++..               ..+.+||++|...... 
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~d~~g~~~~~~-   64 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRT---------------IRLQLWDTAGQERFRS-   64 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCE---------------EEEEEEEECCSGGGGG-
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCc---------------eeeeecccCCcchhcc-
Confidence            589999999999999999999865544434433334444445555543               7889999999754322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++.+|++++|+|+.+.                                                     
T Consensus        65 ------~~~~~~~~~~~~ilv~d~~~~-----------------------------------------------------   85 (164)
T d1yzqa1          65 ------LIPSYIRDSAAAVVVYDITNV-----------------------------------------------------   85 (164)
T ss_dssp             ------GHHHHHTTCSEEEEEEETTCH-----------------------------------------------------
T ss_pred             ------chHHHhhccceEEEeeccccc-----------------------------------------------------
Confidence                  333556899999999998431                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL  240 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~  240 (363)
                      ..++.+..++.+                +... .-...|+++|+||.|.........+..++++++.+.+++.+||+.
T Consensus        86 ~s~~~i~~~~~~----------------~~~~-~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~SAk~  146 (164)
T d1yzqa1          86 NSFQQTTKWIDD----------------VRTE-RGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKA  146 (164)
T ss_dssp             HHHHTHHHHHHH----------------HHHH-HTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTT
T ss_pred             cchhhhHhhHHH----------------HHHh-cCCCceEEEEecccchhhhhhhhHHHHHHHHHHcCCEEEEecCCC
Confidence            111111222210                0001 114678999999999642223345667778888888999999994

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=5.2e-16  Score=132.72  Aligned_cols=154  Identities=20%  Similarity=0.154  Sum_probs=99.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+||+++|.+|||||||+++|++........+..+.......+.+++..               ..+.+|||||......
T Consensus         7 ~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~Dt~G~~~~~~   71 (177)
T d1x3sa1           7 TLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNK---------------AKLAIWDTAGQERFRT   71 (177)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEE---------------EEEEEEEECSSGGGCC
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccc---------------cEEEEEECCCchhhHH
Confidence            3799999999999999999999876554444444444445556666543               6799999999755433


Q ss_pred             cccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHH
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIEL  161 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~  161 (363)
                          +..   ..++.+|++++|+|+.+..                                                   
T Consensus        72 ----~~~---~~~~~~~~ii~v~d~~~~~---------------------------------------------------   93 (177)
T d1x3sa1          72 ----LTP---SYYRGAQGVILVYDVTRRD---------------------------------------------------   93 (177)
T ss_dssp             ----SHH---HHHTTCCEEEEEEETTCHH---------------------------------------------------
T ss_pred             ----HHH---HHHhcCCEEEEEEECCCcc---------------------------------------------------
Confidence                222   3458899999999984210                                                   


Q ss_pred             HHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHH
Q psy2401         162 LKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLE  241 (363)
Q Consensus       162 ~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e  241 (363)
                        .++.+..++.                .+.........|+++++||.|... .....++.++++.+++.+++.+||+..
T Consensus        94 --s~~~~~~~~~----------------~i~~~~~~~~~~i~~~~nk~d~~~-~~v~~~~~~~~~~~~~~~~~e~Sa~tg  154 (177)
T d1x3sa1          94 --TFVKLDNWLN----------------ELETYCTRNDIVNMLVGNKIDKEN-REVDRNEGLKFARKHSMLFIEASAKTC  154 (177)
T ss_dssp             --HHHTHHHHHH----------------HHTTCCSCSCCEEEEEEECTTSSS-CCSCHHHHHHHHHHTTCEEEECCTTTC
T ss_pred             --ccccchhhhh----------------hhcccccccceeeEEEeecccccc-ccccHHHHHHHHHHCCCEEEEEeCCCC
Confidence              0111111111                111112235678889999999642 233445666777788899999999965


Q ss_pred             HHHhcC
Q psy2401         242 EEISDL  247 (363)
Q Consensus       242 ~~i~el  247 (363)
                      +++.++
T Consensus       155 ~gv~e~  160 (177)
T d1x3sa1         155 DGVQCA  160 (177)
T ss_dssp             TTHHHH
T ss_pred             CCHHHH
Confidence            554443

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=5.8e-16  Score=131.61  Aligned_cols=152  Identities=14%  Similarity=0.141  Sum_probs=94.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||++++++.... .++..+..+.....+.+++..               ..+.+||++|...... 
T Consensus         6 ~Ki~lvG~~~vGKTsLi~r~~~~~f~-~~~~~t~~~~~~~~~~~~~~~---------------~~~~~~d~~g~~~~~~-   68 (171)
T d2erya1           6 YRLVVVGGGGVGKSALTIQFIQSYFV-TDYDPTIEDSYTKQCVIDDRA---------------ARLDILDTAGQEEFGA-   68 (171)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSCCC-SSCCTTCCEEEEEEEEETTEE---------------EEEEEEECC----CCH-
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCC-cccCcccccceeeeeeecccc---------------cccccccccccccccc-
Confidence            48999999999999999999875433 233333334444555666643               6789999999765443 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++.+|++++|+|.+..                                                     
T Consensus        69 ------~~~~~~~~~~~~ilv~d~~~~-----------------------------------------------------   89 (171)
T d2erya1          69 ------MREQYMRTGEGFLLVFSVTDR-----------------------------------------------------   89 (171)
T ss_dssp             ------HHHHHHHHCSEEEEEEETTCH-----------------------------------------------------
T ss_pred             ------cccccccccceEEEeeccccc-----------------------------------------------------
Confidence                  233456889999999998531                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      ..++.+..|+.+               .++ .......|+++++||.|.+.......+++++++++.+.+++.+||+...
T Consensus        90 ~s~~~~~~~~~~---------------~~~-~~~~~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~  153 (171)
T d2erya1          90 GSFEEIYKFQRQ---------------ILR-VKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRM  153 (171)
T ss_dssp             HHHHTHHHHHHH---------------HHH-HHTSSCCSEEEEEECTTCTTSCSSCHHHHHHHHHHTTCEEEECBTTTTB
T ss_pred             cchhhHHHHhHH---------------HHh-hcccCCCCEEEEEeccchhhhccchHHHHHHHHHHcCCEEEEEcCCCCc
Confidence            111111121110               011 1123578999999999964322234456778888888999999999544


Q ss_pred             HHhc
Q psy2401         243 EISD  246 (363)
Q Consensus       243 ~i~e  246 (363)
                      +|.+
T Consensus       154 ~i~e  157 (171)
T d2erya1         154 NVDQ  157 (171)
T ss_dssp             SHHH
T ss_pred             CHHH
Confidence            4433

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=99.65  E-value=6.6e-16  Score=133.95  Aligned_cols=86  Identities=23%  Similarity=0.293  Sum_probs=53.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCC--ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLK--ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~--~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      .+|+|+|+||||||||+|+|+|..  +..+.++++|.....+...                    ..+.++|++|.....
T Consensus        24 ~~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~~~~~--------------------~~~~~~d~~~~~~~~   83 (195)
T d1svia_          24 PEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIN--------------------DELHFVDVPGYGFAK   83 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEET--------------------TTEEEEECCCBCCCS
T ss_pred             CEEEEECCCCCCHHHHHHHhcCCCceEEeecccceeeeccccccc--------------------ccceEEEEEeecccc
Confidence            489999999999999999999874  4677888888765544332                    346678888875433


Q ss_pred             Cccc------chhhHHHhhccccCEEEEEEeccc
Q psy2401          81 SKGE------GLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        81 ~~~~------~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ....      .+...+......+|++++|+|+++
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~vi~viD~~~  117 (195)
T d1svia_          84 VSKSEREAWGRMIETYITTREELKAVVQIVDLRH  117 (195)
T ss_dssp             SCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTS
T ss_pred             ccccccchhhhHHhhhhccccchhhhhhhhhccc
Confidence            3221      122344566677899999999853

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=5.2e-16  Score=131.27  Aligned_cols=153  Identities=20%  Similarity=0.158  Sum_probs=95.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++++++..... +++.+..+.......+++..               ..+.+||++|...... 
T Consensus         4 ~Ki~lvG~~~vGKTsLi~r~~~~~f~~-~~~~t~~~~~~~~~~~~~~~---------------~~l~~~d~~g~~~~~~-   66 (167)
T d1kaoa_           4 YKVVVLGSGGVGKSALTVQFVTGTFIE-KYDPTIEDFYRKEIEVDSSP---------------SVLEILDTAGTEQFAS-   66 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCS-CCCTTCCEEEEEEEEETTEE---------------EEEEEEECCCTTCCHH-
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCCCCC-ccCCceeeeeeeeeecCcce---------------EeeccccCCCcccccc-
Confidence            799999999999999999999764332 22222222223344555533               6789999999643222 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            ......+.+|++++|+|+.+.                                                     
T Consensus        67 ------~~~~~~~~a~~~ilv~d~~~~-----------------------------------------------------   87 (167)
T d1kaoa_          67 ------MRDLYIKNGQGFILVYSLVNQ-----------------------------------------------------   87 (167)
T ss_dssp             ------HHHHHHHHCSEEEEEEETTCH-----------------------------------------------------
T ss_pred             ------chHHHhhcccceeeeeeecch-----------------------------------------------------
Confidence                  334556889999999998531                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      ..++.+..|+.                .+.........|+++|+||.|.........++.+.++.+.+.+++.+||+...
T Consensus        88 ~s~~~~~~~~~----------------~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~  151 (167)
T d1kaoa_          88 QSFQDIKPMRD----------------QIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKT  151 (167)
T ss_dssp             HHHHHHHHHHH----------------HHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHH
T ss_pred             hhhhhhhchhh----------------hhhhhccCCCCCEEEEEEccchhhcccchHHHHHHHHHHcCCeEEEECCCCCc
Confidence            11111222211                01111122467999999999964212223345666667778899999999666


Q ss_pred             HHhcC
Q psy2401         243 EISDL  247 (363)
Q Consensus       243 ~i~el  247 (363)
                      ++.++
T Consensus       152 ~i~e~  156 (167)
T d1kaoa_         152 MVDEL  156 (167)
T ss_dssp             HHHHH
T ss_pred             CHHHH
Confidence            65544

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=3.4e-16  Score=132.45  Aligned_cols=151  Identities=21%  Similarity=0.202  Sum_probs=97.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++++.+........|..+.+.......+++..               ..+.+||+||...... 
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~l~i~D~~g~~~~~~-   68 (166)
T d1z0fa1           5 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQK---------------IKLQIWDTAGQERFRA-   68 (166)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEE---------------EEEEEEECTTGGGTCH-
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEE---------------EEEEEeccCCchhHHH-
Confidence            689999999999999999999865554444544545455556666643               6899999999654332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++.+|++++|+|..+..                                                    
T Consensus        69 ------~~~~~~~~~d~~ilv~d~~~~~----------------------------------------------------   90 (166)
T d1z0fa1          69 ------VTRSYYRGAAGALMVYDITRRS----------------------------------------------------   90 (166)
T ss_dssp             ------HHHHHHHTCSEEEEEEETTCHH----------------------------------------------------
T ss_pred             ------HHHHHhcCCcEEEEEeccCchH----------------------------------------------------
Confidence                  2234458899999999984310                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       .++.+..++.                .+... .....|+++++||.|.+.......++.++++++.+.+++.+||+...
T Consensus        91 -s~~~~~~~~~----------------~~~~~-~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Saktg~  152 (166)
T d1z0fa1          91 -TYNHLSSWLT----------------DARNL-TNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGE  152 (166)
T ss_dssp             -HHHTHHHHHH----------------HHHHH-SCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCT
T ss_pred             -HHHHHHHHHH----------------HHHhh-ccccceEEEEcccccchhhcccHHHHHHHHHHHcCCEEEEEeCCCCC
Confidence             0111111111                00001 11456889999999964322233456777777788899999999544


Q ss_pred             HHh
Q psy2401         243 EIS  245 (363)
Q Consensus       243 ~i~  245 (363)
                      ++.
T Consensus       153 ~v~  155 (166)
T d1z0fa1         153 NVE  155 (166)
T ss_dssp             THH
T ss_pred             CHH
Confidence            433

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=1.2e-15  Score=129.87  Aligned_cols=153  Identities=18%  Similarity=0.162  Sum_probs=94.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++++++........|..........+..++..               ..+.+|||||...+.+ 
T Consensus         6 ~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~i~D~~G~~~~~~-   69 (174)
T d2bmea1           6 FKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKY---------------VKLQIWDTAGQERFRS-   69 (174)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEE---------------EEEEEEEECCSGGGHH-
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcc---------------eeEEEEECCCchhhhh-
Confidence            689999999999999999998765543333333322223333444432               6799999999654222 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++.+|++++|+|.....                                                    
T Consensus        70 ------~~~~~~~~~~~~i~v~d~~~~~----------------------------------------------------   91 (174)
T d2bmea1          70 ------VTRSYYRGAAGALLVYDITSRE----------------------------------------------------   91 (174)
T ss_dssp             ------HHHTTSTTCSEEEEEEETTCHH----------------------------------------------------
T ss_pred             ------hHHHHhhhCCEEEEEEecccch----------------------------------------------------
Confidence                  3345678999999999985310                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       .++.+..++.                .+... .-...|+++++||.|.+.......+...++..+.+.+++.+||+...
T Consensus        92 -s~~~~~~~~~----------------~~~~~-~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~  153 (174)
T d2bmea1          92 -TYNALTNWLT----------------DARML-ASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGE  153 (174)
T ss_dssp             -HHHTHHHHHH----------------HHHHH-SCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCT
T ss_pred             -hHHHHhhhhc----------------ccccc-cCCceEEEEEEecccccchhchhhhHHHHHHHhCCCEEEEeeCCCCc
Confidence             0000111111                00001 11468999999999964322223345566677788899999999655


Q ss_pred             HHhcC
Q psy2401         243 EISDL  247 (363)
Q Consensus       243 ~i~el  247 (363)
                      ++.++
T Consensus       154 gi~e~  158 (174)
T d2bmea1         154 NVEEA  158 (174)
T ss_dssp             THHHH
T ss_pred             CHHHH
Confidence            55444

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=8e-16  Score=130.52  Aligned_cols=83  Identities=18%  Similarity=0.185  Sum_probs=56.4

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      ..||+++|.+|||||||++++++.... ..+..|..........+++..               ..+.+||++|......
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~~~~~f~-~~~~~T~~~~~~~~~~~~~~~---------------~~l~~~d~~g~~~~~~   65 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRFVKGTFR-ESYIPTVEDTYRQVISCDKSI---------------CTLQITDTTGSHQFPA   65 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCC-SSCCCCSCEEEEEEEEETTEE---------------EEEEEEECCSCSSCHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCC-CccCcceeeccccceeecccc---------------ceeccccccccccccc
Confidence            369999999999999999999986443 233222222222234444432               6788999999654322


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                             .....++.+|++++|+|+.
T Consensus        66 -------~~~~~~~~a~~~ilv~d~~   84 (171)
T d2erxa1          66 -------MQRLSISKGHAFILVYSIT   84 (171)
T ss_dssp             -------HHHHHHHHCSEEEEEEETT
T ss_pred             -------cccccccceeEEEEEeecc
Confidence                   3345568899999999985

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=9.9e-16  Score=129.49  Aligned_cols=147  Identities=19%  Similarity=0.156  Sum_probs=92.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||++++++..... .++.+........+...+.+               ..+.+||++|...... 
T Consensus         4 ~Ki~viG~~~vGKTsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~---------------~~l~~~d~~~~~~~~~-   66 (166)
T d1ctqa_           4 YKLVVVGAGGVGKSALTIQLIQNHFVD-EYDPTIEDSYRKQVVIDGET---------------CLLDILDTAGQEEYSA-   66 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCC-SCCCCSEEEEEEEEEETTEE---------------EEEEEEEECCCGGGHH-
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCC-ccCCccceeeccceeeecee---------------eeeeeeeccCcccccc-
Confidence            689999999999999999999864432 22222222222334444433               6789999999754321 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++.+|++++|+|..+.                                                     
T Consensus        67 ------~~~~~~~~~~~~iiv~d~~~~-----------------------------------------------------   87 (166)
T d1ctqa_          67 ------MRDQYMRTGEGFLCVFAINNT-----------------------------------------------------   87 (166)
T ss_dssp             ------HHHHHHHHCSEEEEEEETTCH-----------------------------------------------------
T ss_pred             ------chhhhhhcccccceeeccccc-----------------------------------------------------
Confidence                  223456889999999998531                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      ..++.+..|+.                .+.........|+++++||.|... .....++++++++.++.+++.+||+..+
T Consensus        88 ~s~~~~~~~~~----------------~i~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~e~Sak~g~  150 (166)
T d1ctqa_          88 KSFEDIHQYRE----------------QIKRVKDSDDVPMVLVGNKCDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQ  150 (166)
T ss_dssp             HHHHTHHHHHH----------------HHHHHHTCSSCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCT
T ss_pred             ccHHHHHHHHH----------------HHHHhcCCCCCeEEEEeccccccc-ccccHHHHHHHHHHhCCeEEEEcCCCCc
Confidence            11111222221                111111224679999999999742 2223456677777788899999999433

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=99.63  E-value=9.9e-16  Score=130.00  Aligned_cols=150  Identities=17%  Similarity=0.104  Sum_probs=91.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||++++++..... .+..|........+.+++..               ..+.+||++|...... 
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~~f~~-~~~~T~~~~~~~~~~~~~~~---------------~~l~i~d~~g~~~~~~-   67 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYDEFVE-DYEPTKADSYRKKVVLDGEE---------------VQIDILDTAGQEDYAA-   67 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCS-CCCTTCCEEEEEEEEETTEE---------------EEEEEEECCC---CHH-
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCCCCc-ccCCcccccccccccccccc---------------ccccccccccccchhh-
Confidence            589999999999999999998754332 22222222223445566543               6889999999754321 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++.+|++++|+|+.+.                                                     
T Consensus        68 ------~~~~~~~~~~~~ilv~d~~~~-----------------------------------------------------   88 (168)
T d1u8za_          68 ------IRDNYFRSGEGFLCVFSITEM-----------------------------------------------------   88 (168)
T ss_dssp             ------HHHHHHHHCSEEEEEEETTCH-----------------------------------------------------
T ss_pred             ------hhhhcccccceeEEEeeccch-----------------------------------------------------
Confidence                  223456889999999998431                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      ..++.+..|+++                +.........|+++|+||.|......-..+++++++.+.+.+++.+||+...
T Consensus        89 ~s~~~~~~~~~~----------------i~~~~~~~~~piiivgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~  152 (168)
T d1u8za_          89 ESFAATADFREQ----------------ILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRA  152 (168)
T ss_dssp             HHHHHHHHHHHH----------------HHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCT
T ss_pred             hhhhhHHHHHHH----------------HHHhhCCCCCcEEEEeccccccccccccHHHHHHHHHHcCCeEEEEcCCCCc
Confidence            111222222220                1111112467999999999964211123456677777778899999999544


Q ss_pred             HH
Q psy2401         243 EI  244 (363)
Q Consensus       243 ~i  244 (363)
                      ++
T Consensus       153 gv  154 (168)
T d1u8za_         153 NV  154 (168)
T ss_dssp             TH
T ss_pred             CH
Confidence            33

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=2.2e-16  Score=133.80  Aligned_cols=154  Identities=17%  Similarity=0.129  Sum_probs=95.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+||+++|.+|||||||++++.+........|..........+..++..               ..+.+||++|......
T Consensus         3 ~fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~~~d~~g~~~~~~   67 (167)
T d1z08a1           3 SFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKR---------------VNLAIWDTAGQERFHA   67 (167)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCE---------------EEEEEEECCCC-----
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeeccCCcc---------------ceeeeeccCCcceecc
Confidence            3699999999999999999999865544434433333334445555533               7889999999765443


Q ss_pred             cccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHH
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIEL  161 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~  161 (363)
                      .       ....++++|++++|+|.++.                                                    
T Consensus        68 ~-------~~~~~~~~~~~i~v~d~~~~----------------------------------------------------   88 (167)
T d1z08a1          68 L-------GPIYYRDSNGAILVYDITDE----------------------------------------------------   88 (167)
T ss_dssp             ---------CCSSTTCSEEEEEEETTCH----------------------------------------------------
T ss_pred             c-------chhhccCCceeEEEEeCCch----------------------------------------------------
Confidence            2       22456889999999998531                                                    


Q ss_pred             HHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHH
Q psy2401         162 LKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLE  241 (363)
Q Consensus       162 ~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e  241 (363)
                       +.++.+..++.                .+... .....|+++++||.|+.....-..+++++++++++.+++.+||+..
T Consensus        89 -~Sf~~~~~~~~----------------~~~~~-~~~~~~~ilvgnK~Dl~~~~~v~~~e~~~~a~~~~~~~~e~Sak~~  150 (167)
T d1z08a1          89 -DSFQKVKNWVK----------------ELRKM-LGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQN  150 (167)
T ss_dssp             -HHHHHHHHHHH----------------HHHHH-HGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTT
T ss_pred             -hHHHhhhhhhh----------------hcccc-cccccceeeeccccccccccccchHHHHHHHHHcCCeEEEEecCCC
Confidence             11222222221                00001 1256688889999996421122346677888888999999999954


Q ss_pred             HHHhcC
Q psy2401         242 EEISDL  247 (363)
Q Consensus       242 ~~i~el  247 (363)
                      .+|.++
T Consensus       151 ~~v~e~  156 (167)
T d1z08a1         151 KGIEEL  156 (167)
T ss_dssp             BSHHHH
T ss_pred             cCHHHH
Confidence            444433

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=1.9e-15  Score=127.72  Aligned_cols=153  Identities=21%  Similarity=0.152  Sum_probs=96.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+++|.+|||||||++++++........|..... ....+.+++..               ..+.+||++|...+...
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~-~~~~~~~~~~~---------------~~l~i~d~~g~~~~~~~   68 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENT-FTKLITVNGQE---------------YHLQLVDTAGQDEYSIF   68 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEE-EEEEEEETTEE---------------EEEEEEECCCCCTTCCC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCCCCcccCcceecc-cceEEecCcEE---------------EEeeecccccccccccc
Confidence            689999999999999999998754332222321111 23345666643               67899999997665432


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                      .       ...++.+|++++|+|+.+.                                                     
T Consensus        69 ~-------~~~~~~~d~~ilv~d~~~~-----------------------------------------------------   88 (167)
T d1xtqa1          69 P-------QTYSIDINGYILVYSVTSI-----------------------------------------------------   88 (167)
T ss_dssp             C-------GGGTSSCCEEEEEEETTCH-----------------------------------------------------
T ss_pred             c-------chhhhhhhhhhhhcccchh-----------------------------------------------------
Confidence            1       2455889999999998531                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      +.++.+..|+.+               ..+.. .....|+++++||.|......-..+++++++.+++.+++.+||+...
T Consensus        89 ~s~~~~~~~~~~---------------i~~~~-~~~~~piilvgnK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~Sak~~~  152 (167)
T d1xtqa1          89 KSFEVIKVIHGK---------------LLDMV-GKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQ  152 (167)
T ss_dssp             HHHHHHHHHHHH---------------HHHHH-CSSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHH
T ss_pred             hhhhhhhhhhhh---------------hhhcc-cccccceeeeccccccccccchhHHHHHHHHHHcCCEEEEEecCCCC
Confidence            111222222210               01111 11456999999999964211123456677777788899999999665


Q ss_pred             HHhcC
Q psy2401         243 EISDL  247 (363)
Q Consensus       243 ~i~el  247 (363)
                      ++.++
T Consensus       153 ~v~~~  157 (167)
T d1xtqa1         153 TAVDV  157 (167)
T ss_dssp             HHHHH
T ss_pred             CHHHH
Confidence            55444

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.62  E-value=9.8e-16  Score=129.42  Aligned_cols=151  Identities=21%  Similarity=0.210  Sum_probs=96.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++++++........|..+.+.....+.+++..               ..+.+|||||...+...
T Consensus         3 ~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~---------------~~~~i~Dt~G~~~~~~~   67 (166)
T d1g16a_           3 MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKK---------------VKLQIWDTAGQERFRTI   67 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCE---------------EEEEEECCTTGGGTSCC
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEE---------------EEEEEEECCCchhhHHH
Confidence            689999999999999999999876555555655666666677777754               67889999997654432


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                          ..   ..++++|++++|+|..+..                                                    
T Consensus        68 ----~~---~~~~~~~~~i~v~d~~~~~----------------------------------------------------   88 (166)
T d1g16a_          68 ----TT---AYYRGAMGIILVYDITDER----------------------------------------------------   88 (166)
T ss_dssp             ----CH---HHHTTEEEEEEEEETTCHH----------------------------------------------------
T ss_pred             ----HH---HHHhcCCEEEEEEECCCcc----------------------------------------------------
Confidence                22   3458999999999985310                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       .++.+..+..                .+. .......|.+++.||.|... .....+.+++++..++.+++.+||+..+
T Consensus        89 -s~~~~~~~~~----------------~~~-~~~~~~~~~i~~~~k~d~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  149 (166)
T d1g16a_          89 -TFTNIKQWFK----------------TVN-EHANDEAQLLLVGNKSDMET-RVVTADQGEALAKELGIPFIESSAKNDD  149 (166)
T ss_dssp             -HHHTHHHHHH----------------HHH-HHSCTTCEEEEEEECTTCTT-CCSCHHHHHHHHHHHTCCEEECBTTTTB
T ss_pred             -CHHHHHhhhh----------------hhh-ccccCcceeeeecchhhhhh-hhhhHHHHHHHHHhcCCeEEEECCCCCC
Confidence             0000100000                000 11235678888999988642 3344556677777778999999999554


Q ss_pred             HHhc
Q psy2401         243 EISD  246 (363)
Q Consensus       243 ~i~e  246 (363)
                      ++.+
T Consensus       150 ~v~e  153 (166)
T d1g16a_         150 NVNE  153 (166)
T ss_dssp             SHHH
T ss_pred             CHHH
Confidence            4433

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.62  E-value=5.7e-16  Score=131.99  Aligned_cols=153  Identities=18%  Similarity=0.127  Sum_probs=76.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||+++|++........|..+.+.....+.+++.+               ..+++|||||...+...
T Consensus         7 ~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~l~i~D~~G~e~~~~~   71 (173)
T d2fu5c1           7 FKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKR---------------IKLQIWDTAGQERFRTI   71 (173)
T ss_dssp             EEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEE---------------EEEEEEEC---------
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEE---------------EEEEEEECCCchhhHHH
Confidence            689999999999999999999865544444444445555567776644               67899999997654432


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                      ..       ..++.+|++++|+|+++..                                                    
T Consensus        72 ~~-------~~~~~~~~~i~v~d~~~~~----------------------------------------------------   92 (173)
T d2fu5c1          72 TT-------AYYRGAMGIMLVYDITNEK----------------------------------------------------   92 (173)
T ss_dssp             CC-------TTTTTCSEEEEEEETTCHH----------------------------------------------------
T ss_pred             HH-------HhccCCCEEEEEEECCChh----------------------------------------------------
Confidence            22       3468899999999985310                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       .++.+..++.                .+.. ......|+++++||.|.........+....++...+.+++.+||+..+
T Consensus        93 -s~~~~~~~~~----------------~~~~-~~~~~~~iilv~~k~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~  154 (173)
T d2fu5c1          93 -SFDNIRNWIR----------------NIEE-HASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANI  154 (173)
T ss_dssp             -HHHHHHHHHH----------------HHHH-HSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---C
T ss_pred             -hHHHHHHHHH----------------Hhhh-hccCCceEEEEEecccchhhcccHHHHHHHHHHhcCCEEEEEeCCCCC
Confidence             0111111111                0110 112567999999999975322333445566666678899999999655


Q ss_pred             HHhcC
Q psy2401         243 EISDL  247 (363)
Q Consensus       243 ~i~el  247 (363)
                      ++.++
T Consensus       155 gv~e~  159 (173)
T d2fu5c1         155 NVENA  159 (173)
T ss_dssp             CHHHH
T ss_pred             CHHHH
Confidence            54443

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.62  E-value=4.5e-15  Score=128.79  Aligned_cols=154  Identities=19%  Similarity=0.168  Sum_probs=97.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++.+++........|..+.....-.+.+++..               ..+.+|||||...+...
T Consensus         7 ~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~---------------~~l~i~Dt~G~e~~~~~   71 (194)
T d2bcgy1           7 FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKT---------------VKLQIWDTAGQERFRTI   71 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEE---------------EEEEEECCTTTTTTTCC
T ss_pred             EEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEE---------------EEEEEEECCCchhhHHH
Confidence            689999999999999999999765443333332333333455666643               68999999997655442


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                      .       ...++.||++++|+|++...                                                    
T Consensus        72 ~-------~~~~~~a~~~i~v~d~t~~~----------------------------------------------------   92 (194)
T d2bcgy1          72 T-------SSYYRGSHGIIIVYDVTDQE----------------------------------------------------   92 (194)
T ss_dssp             C-------GGGGTTCSEEEEEEETTCHH----------------------------------------------------
T ss_pred             H-------HHHhccCCEEEEEEeCcchh----------------------------------------------------
Confidence            2       24558999999999985310                                                    


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                       .+..+..+..                .+... .....|+++++||.|.........+....+....+.+++.+||+...
T Consensus        93 -s~~~~~~~~~----------------~~~~~-~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~  154 (194)
T d2bcgy1          93 -SFNGVKMWLQ----------------EIDRY-ATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDST  154 (194)
T ss_dssp             -HHHHHHHHHH----------------HHHHH-SCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCT
T ss_pred             -hhhhHhhhhh----------------hhhhc-ccCCceEEEEEeccccccccchhHHHHhhhhhccCcceEEEecCcCc
Confidence             0000000000                01101 12567999999999975322223445566667778899999999766


Q ss_pred             HHhcCC
Q psy2401         243 EISDLN  248 (363)
Q Consensus       243 ~i~el~  248 (363)
                      +|.++.
T Consensus       155 gi~e~f  160 (194)
T d2bcgy1         155 NVEDAF  160 (194)
T ss_dssp             THHHHH
T ss_pred             cHHHHH
Confidence            665543

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=99.62  E-value=1.7e-15  Score=127.62  Aligned_cols=80  Identities=23%  Similarity=0.257  Sum_probs=58.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+||+++|++|||||||+++|++....   ....|.......+...+                 ..+.+||+||......
T Consensus         2 ~~ki~ivG~~~~GKTsLi~~l~~~~~~---~~~~t~~~~~~~~~~~~-----------------~~~~~~D~~G~~~~~~   61 (165)
T d1ksha_           2 ELRLLMLGLDNAGKTTILKKFNGEDVD---TISPTLGFNIKTLEHRG-----------------FKLNIWDVGGQKSLRS   61 (165)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCCCS---SCCCCSSEEEEEEEETT-----------------EEEEEEEECCSHHHHT
T ss_pred             cEEEEEECCCCCCHHHHHHHHcCCCCC---cccceEeeeeeeccccc-----------------cceeeeecCcchhhhh
Confidence            479999999999999999999986432   12235555566666665                 7899999999543221


Q ss_pred             cccchhhHHHhhccccCEEEEEEeccc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                             .....++.+|++++|+|+++
T Consensus        62 -------~~~~~~~~~~~~i~v~d~~d   81 (165)
T d1ksha_          62 -------YWRNYFESTDGLIWVVDSAD   81 (165)
T ss_dssp             -------TGGGGCTTCSEEEEEEETTC
T ss_pred             -------HHHhhhhhhhcceeeeeccc
Confidence                   23356688999999999853

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.62  E-value=2.1e-16  Score=134.69  Aligned_cols=156  Identities=15%  Similarity=0.132  Sum_probs=99.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++++++........|..+...........+..               ..+.+||++|.......
T Consensus         4 ~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~d~~g~~~~~~~   68 (173)
T d2a5ja1           4 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQ---------------IKLQIWDTAGQESFRSI   68 (173)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEE---------------EEEEEECCTTGGGTSCC
T ss_pred             EEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeE---------------EEEEeecccCccchhhH
Confidence            699999999999999999999876555555555555555555555533               68899999998655442


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                      .       ...++.+|++++|+|..+.                                                     
T Consensus        69 ~-------~~~~~~~d~~ilv~d~~~~-----------------------------------------------------   88 (173)
T d2a5ja1          69 T-------RSYYRGAAGALLVYDITRR-----------------------------------------------------   88 (173)
T ss_dssp             C-------HHHHTTCSEEEEEEETTCH-----------------------------------------------------
T ss_pred             H-------HHHhhccCEEEEEEeecCh-----------------------------------------------------
Confidence            2       2344889999999998431                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      ..++.+..++.                .+..+ .-...|+++++||.|.+.......+....++.+++.+++.+||+...
T Consensus        89 ~sf~~~~~~~~----------------~~~~~-~~~~~piilv~nK~D~~~~~~~~~~~~~~~a~~~~~~~~e~Sa~tg~  151 (173)
T d2a5ja1          89 ETFNHLTSWLE----------------DARQH-SSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTAC  151 (173)
T ss_dssp             HHHHTHHHHHH----------------HHHHH-SCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCT
T ss_pred             HHHHhHHHHHH----------------HHHHh-CCCCCeEEEEecCCchhhhhhhHHHHHHHHHHHcCCEEEEecCCCCC
Confidence            11111111111                01111 11467999999999964322233455667777778899999999776


Q ss_pred             HHhcCCHH
Q psy2401         243 EISDLNNI  250 (363)
Q Consensus       243 ~i~el~~~  250 (363)
                      +|.++..+
T Consensus       152 ~V~e~f~~  159 (173)
T d2a5ja1         152 NVEEAFIN  159 (173)
T ss_dssp             THHHHHHH
T ss_pred             CHHHHHHH
Confidence            66655333

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.62  E-value=1.4e-15  Score=128.75  Aligned_cols=146  Identities=16%  Similarity=0.098  Sum_probs=90.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++++.+........|.............++..               ..+.+||++|...... 
T Consensus         5 ~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~i~d~~g~~~~~~-   68 (167)
T d1z0ja1           5 LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNEL---------------HKFLIWDTAGLERFRA-   68 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEE---------------EEEEEEEECCSGGGGG-
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccccccccccc---------------cceeeeecCCchhhhH-
Confidence            689999999999999999999865443322322222222223333322               5688999999765433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                         +..   ..++.+|++++|+|....                                                     
T Consensus        69 ---~~~---~~~~~~~~~i~v~d~~~~-----------------------------------------------------   89 (167)
T d1z0ja1          69 ---LAP---MYYRGSAAAIIVYDITKE-----------------------------------------------------   89 (167)
T ss_dssp             ---GTH---HHHTTCSEEEEEEETTCH-----------------------------------------------------
T ss_pred             ---HHH---HHHhhccceEEEeeechh-----------------------------------------------------
Confidence               222   345889999999998421                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL  240 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~  240 (363)
                      +.++.++.++.                .+... .....|+++|+||.|.........++.++++.+.+.+++.+||+.
T Consensus        90 ~s~~~~~~~~~----------------~~~~~-~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~  150 (167)
T d1z0ja1          90 ETFSTLKNWVR----------------ELRQH-GPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKN  150 (167)
T ss_dssp             HHHHHHHHHHH----------------HHHHH-SCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTT
T ss_pred             hhhhhHHHhhh----------------hhhhc-cCCcceEEEecccchhccccchhHHHHHHHHHHcCCEEEEEecCC
Confidence            11111212111                00101 125679999999999642222344567777888889999999994

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.61  E-value=9.8e-16  Score=130.36  Aligned_cols=84  Identities=21%  Similarity=0.167  Sum_probs=50.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++++++........|..+...........+..              ...+.+|||||...... 
T Consensus         3 ~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~--------------~~~~~~~d~~g~~~~~~-   67 (175)
T d1ky3a_           3 LKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDK--------------VATMQVWDTAGQERFQS-   67 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSC--------------CEEEEEECCC--------
T ss_pred             EEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcc--------------cccceeeccCCchhhhh-
Confidence            689999999999999999999765433322322222222233333321              15689999999654333 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        68 ------~~~~~~~~~~~~ilv~d~~   86 (175)
T d1ky3a_          68 ------LGVAFYRGADCCVLVYDVT   86 (175)
T ss_dssp             ---------CCSTTCCEEEEEEETT
T ss_pred             ------HHHHHhhccceEEEEeecc
Confidence                  2234568899999999984

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=99.61  E-value=1e-15  Score=129.08  Aligned_cols=79  Identities=24%  Similarity=0.322  Sum_probs=59.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|++|||||||+++|++........|  |...+...+..++                 ..+.+||+||...... 
T Consensus         3 ~ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~--T~~~~~~~~~~~~-----------------~~~~i~D~~G~~~~~~-   62 (164)
T d1zd9a1           3 MELTLVGLQYSGKTTFVNVIASGQFNEDMIP--TVGFNMRKITKGN-----------------VTIKLWDIGGQPRFRS-   62 (164)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCCSCCC--CCSEEEEEEEETT-----------------EEEEEEEECCSHHHHT-
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCCCCCcccc--cceeeeeeeeeee-----------------EEEEEeeccccccccc-
Confidence            6999999999999999999988655433333  5556666677666                 7899999999543222 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....+..+|++++|+|+.
T Consensus        63 ------~~~~~~~~~~~~i~v~d~~   81 (164)
T d1zd9a1          63 ------MWERYCRGVSAIVYMVDAA   81 (164)
T ss_dssp             ------THHHHHTTCSEEEEEEETT
T ss_pred             ------cccccccccchhhcccccc
Confidence                  3334568899999999985

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.61  E-value=1e-15  Score=131.80  Aligned_cols=164  Identities=15%  Similarity=0.084  Sum_probs=97.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++++++........|..+.+.....+.+++...     ...........+.+|||||...... 
T Consensus         6 ~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~-----~~~~~~~~~~~~~i~dt~G~e~~~~-   79 (186)
T d2f7sa1           6 IKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGP-----NGSSGKAFKVHLQLWDTAGQERFRS-   79 (186)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC------------CCEEEEEEEEEEEESHHHHHH-
T ss_pred             EEEEEECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccc-----cccccccceEEeccccCCcchhhHH-
Confidence            6899999999999999999998654433333333333344444443210     0000111125789999999643211 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++++|++++|+|++..                                                     
T Consensus        80 ------~~~~~~~~~~~~i~v~d~~~~-----------------------------------------------------  100 (186)
T d2f7sa1          80 ------LTTAFFRDAMGFLLMFDLTSQ-----------------------------------------------------  100 (186)
T ss_dssp             ------HHHHHHTTCCEEEEEEETTCH-----------------------------------------------------
T ss_pred             ------HHHHHHhcCCEEEEEEecccc-----------------------------------------------------
Confidence                  222346889999999998431                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEE  242 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~  242 (363)
                      ..++.+..|+.+-..                .......|+++|+||.|.........+++++++.+.+.+++.+||+..+
T Consensus       101 ~s~~~~~~~~~~~~~----------------~~~~~~~~iilv~nK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~  164 (186)
T d2f7sa1         101 QSFLNVRNWMSQLQA----------------NAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQ  164 (186)
T ss_dssp             HHHHHHHHHHHTCCC----------------CCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTTTTB
T ss_pred             ccceeeeeccchhhh----------------hccCCCceEEEEeeeccchhhhcchHHHHHHHHHHcCCEEEEEeCCCCC
Confidence            122223333321100                1112456888999999964322223456677788888999999999655


Q ss_pred             HHhcC
Q psy2401         243 EISDL  247 (363)
Q Consensus       243 ~i~el  247 (363)
                      ++.++
T Consensus       165 ~i~e~  169 (186)
T d2f7sa1         165 NVEKA  169 (186)
T ss_dssp             THHHH
T ss_pred             CHHHH
Confidence            54443

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=99.60  E-value=1.7e-15  Score=135.05  Aligned_cols=96  Identities=11%  Similarity=0.086  Sum_probs=56.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccc-cccc--cccccceeEEEEeeecccCCC
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLN-NIVK--TKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~-~~~~--~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      .|+|+|++|+|||||+|+|++.........++|.+..........  ..... ....  +......++.++||||..++.
T Consensus         7 ~IaIiGh~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~   84 (227)
T d1g7sa4           7 IVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDV--IEGICGDFLKKFSIRETLPGLFFIDTPGHEAFT   84 (227)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHH--HHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCT
T ss_pred             EEEEEeCCCccHHHHHHHHHhhcchheecCceeeecccccccccc--ccccccccccceeecccccccccccccceeccc
Confidence            399999999999999999998633333333444333322222111  00000 0000  011223578999999976654


Q ss_pred             CcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      .       .....+..||++++||||.+
T Consensus        85 ~-------~~~~~~~~~D~~ilVvda~~  105 (227)
T d1g7sa4          85 T-------LRKRGGALADLAILIVDINE  105 (227)
T ss_dssp             T-------SBCSSSBSCSEEEEEEETTT
T ss_pred             c-------cchhcccccceEEEEEeccc
Confidence            4       33456788999999999954

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.59  E-value=2.1e-16  Score=134.55  Aligned_cols=155  Identities=12%  Similarity=0.015  Sum_probs=92.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecc--eeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEP--NIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~--~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      .||+++|.+|||||||++++++........|  |+..  ....+..++..               ..+.+|||+|.....
T Consensus         4 ~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~--Ti~~~~~~~~~~~~~~~---------------~~l~i~D~~g~~~~~   66 (170)
T d1i2ma_           4 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVA--TLGVEVHPLVFHTNRGP---------------IKFNVWDTAGQEKFG   66 (170)
T ss_dssp             EEEEEEECTTSSHHHHHHTTC-----CCEEE--ETTEEEEEEEECBTTCC---------------EEEEEEECTTHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCccccc--ceecccccccccccccc---------------ccccccccccccccc
Confidence            5899999999999999999987543322222  3322  22333344433               689999999976544


Q ss_pred             CcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHH
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIE  160 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~  160 (363)
                      ..       ....++.+|++++|+|+++...             +                                   
T Consensus        67 ~~-------~~~~~~~~~~~ilv~d~~~~~S-------------f-----------------------------------   91 (170)
T d1i2ma_          67 GL-------RDGYYIQAQCAIIMFDVTSRVT-------------Y-----------------------------------   91 (170)
T ss_dssp             SC-------GGGGTTTCCEEEEEEETTSGGG-------------G-----------------------------------
T ss_pred             ee-------cchhcccccchhhccccccccc-------------c-----------------------------------
Confidence            32       1245689999999999854210             0                                   


Q ss_pred             HHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHH
Q psy2401         161 LLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL  240 (363)
Q Consensus       161 ~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~  240 (363)
                           +.+..|+.                .+...  ....|+++|+||.|...  ....++...++..++.+++.+||+.
T Consensus        92 -----~~~~~~~~----------------~~~~~--~~~~piilvgnK~Dl~~--~~~~~~~~~~~~~~~~~~~e~Sak~  146 (170)
T d1i2ma_          92 -----KNVPNWHR----------------DLVRV--CENIPIVLCGNKVDIKD--RKVKAKSIVFHRKKNLQYYDISAKS  146 (170)
T ss_dssp             -----TTHHHHHH----------------HHHHH--HCSCCEEEEEECCCCSC--SCCTTTSHHHHSSCSSEEEEEBTTT
T ss_pred             -----chhHHHHH----------------HHhhc--cCCCceeeecchhhhhh--hhhhhHHHHHHHHcCCEEEEEeCCC
Confidence                 01111111                00001  14679999999999743  2222233456677788999999997


Q ss_pred             HHHHhcCCHHHHHH
Q psy2401         241 EEEISDLNNIDKKF  254 (363)
Q Consensus       241 e~~i~el~~~~~~~  254 (363)
                      ..++.++.....++
T Consensus       147 ~~~v~e~f~~l~~~  160 (170)
T d1i2ma_         147 NYNFEKPFLWLARK  160 (170)
T ss_dssp             TBTTTHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHH
Confidence            66655554443333

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=99.58  E-value=7.6e-15  Score=128.01  Aligned_cols=83  Identities=20%  Similarity=0.161  Sum_probs=62.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC----------------CccccCCCceeecceeEEEEeCCccccccccccccccccce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL----------------KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA   66 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~----------------~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~   66 (363)
                      .+||++|+.++|||||+++|++.                ........+.|++.....+.+.+                 .
T Consensus         4 ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~~~~-----------------~   66 (196)
T d1d2ea3           4 VNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAA-----------------R   66 (196)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSS-----------------C
T ss_pred             cEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEEece-----------------e
Confidence            68999999999999999999852                01111224667776666666666                 6


Q ss_pred             eEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccC
Q psy2401          67 IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKD  109 (363)
Q Consensus        67 ~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~  109 (363)
                      .++++||||..++       .....+.++.+|++++|||+.++
T Consensus        67 ~~~~iDtPGh~~f-------~~~~~~~~~~aD~allVVda~~G  102 (196)
T d1d2ea3          67 HYAHTDCPGHADY-------VKNMITGTAPLDGCILVVAANDG  102 (196)
T ss_dssp             EEEEEECSSHHHH-------HHHHHHTSSCCSEEEEEEETTTC
T ss_pred             eEEeecCcchHHH-------HHHHHHHHhhcCeEEEEEEcCCC
Confidence            7999999997653       34677888999999999999643

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.58  E-value=9.1e-15  Score=123.92  Aligned_cols=83  Identities=19%  Similarity=0.204  Sum_probs=54.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCc-eeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPF-CTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~-~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +||+++|.+|||||||++++++.......++. +..+.....+...+.+               ..+++|||||......
T Consensus         7 fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~e~~~~   71 (170)
T d2g6ba1           7 FKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVK---------------VKLQMWDTAGQERFRS   71 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEE---------------EEEEEEECCCC-----
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcE---------------EEEEEEECCCchhhHH
Confidence            68999999999999999999876543333222 2223333345565543               6899999999755433


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                             .....++.+|++++|+|..
T Consensus        72 -------~~~~~~~~~d~~i~v~d~~   90 (170)
T d2g6ba1          72 -------VTHAYYRDAHALLLLYDVT   90 (170)
T ss_dssp             ----------CCGGGCSEEEEEEETT
T ss_pred             -------HHHHhhcCCceeEEEecCC
Confidence                   1224568899999999984

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.58  E-value=2.5e-15  Score=127.62  Aligned_cols=146  Identities=22%  Similarity=0.140  Sum_probs=93.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||.++|.+|||||||++.+++........|. ..+.....+.+++..               ..+.+||++|...... 
T Consensus         5 ~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t-~~~~~~~~~~~~~~~---------------~~~~i~d~~g~~~~~~-   67 (169)
T d1x1ra1           5 YKLVVVGDGGVGKSALTIQFFQKIFVPDYDPT-IEDSYLKHTEIDNQW---------------AILDVLDTAGQEEFSA-   67 (169)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSSCCTTCCTT-CCEEEEEEEEETTEE---------------EEEEEEECCSCGGGCS-
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccCcc-eeecccccccccccc---------------cccccccccccccccc-
Confidence            69999999999999999999976443332232 111122334555543               7789999999765443 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++.+|++++|+|+++.                                                     
T Consensus        68 ------~~~~~~~~~~~~llv~d~~d~-----------------------------------------------------   88 (169)
T d1x1ra1          68 ------MREQYMRTGDGFLIVYSVTDK-----------------------------------------------------   88 (169)
T ss_dssp             ------SHHHHHHHCSEEEEEEETTCH-----------------------------------------------------
T ss_pred             ------chhhhhhhccEEEEecccccc-----------------------------------------------------
Confidence                  223456899999999998531                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL  240 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~  240 (363)
                      +.++.+..|+.+                +.........|+++++||.|.........+++++++.+++.+++.+||+.
T Consensus        89 ~Sf~~~~~~~~~----------------i~~~~~~~~~p~ilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~Sak~  150 (169)
T d1x1ra1          89 ASFEHVDRFHQL----------------ILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKD  150 (169)
T ss_dssp             HHHHTHHHHHHH----------------HHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSS
T ss_pred             hhhhccchhhHH----------------HHhhccccCccEEEEecccchhhhceeehhhHHHHHHHcCCEEEEEcCCC
Confidence            112222222220                11111225679999999999642112234667788888889999999984

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=99.58  E-value=9.7e-15  Score=126.90  Aligned_cols=99  Identities=23%  Similarity=0.199  Sum_probs=61.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc---cccCCCceeecceeEEEEeCCccc-ccc-cc----ccccccccceeEEEEee
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI---SAENYPFCTIEPNIGIIEVPDKRL-KHL-NN----IVKTKKIFPAIIKLVDI   73 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~---~~~~~p~~t~~~~~g~v~~~~~~~-~~l-~~----~~~~~~~~~~~i~lvDt   73 (363)
                      .+||++|+.++|||||+|+|++...   .....++.|.+.......+...+. ... ..    ...-.......+.++||
T Consensus         6 inIaiiGhvd~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDt   85 (195)
T d1kk1a3           6 VNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDA   85 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEEEEC
T ss_pred             EEEEEEeccCCcHHHHHHHHHhhhhhhhHHHHHcCcccccchhhhhhhccchhhhccceeeeeeeeeeecCceeEeeecc
Confidence            4789999999999999999998522   222334555554433333322110 000 00    00111122356899999


Q ss_pred             ecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          74 AGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        74 pGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ||..+       +.....+.++.+|.+++|||+.+
T Consensus        86 PGh~~-------f~~~~~~~~~~~d~~ilvvda~~  113 (195)
T d1kk1a3          86 PGHEA-------LMTTMLAGASLMDGAILVIAANE  113 (195)
T ss_dssp             SSHHH-------HHHHHHHCGGGCSEEEEEEETTS
T ss_pred             chhhh-------hhHHhhcccccccccccccchhh
Confidence            99643       34466777889999999999854

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.58  E-value=1.2e-14  Score=122.76  Aligned_cols=82  Identities=18%  Similarity=0.133  Sum_probs=57.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++.++..... ..++.+........+..++..               ..+.+||++|...... 
T Consensus         4 ~KivvvG~~~vGKTsli~r~~~~~f~-~~~~~t~~~~~~~~~~~~~~~---------------~~~~~~d~~g~~~~~~-   66 (167)
T d1c1ya_           4 YKLVVLGSGGVGKSALTVQFVQGIFV-EKYDPTIEDSYRKQVEVDCQQ---------------CMLEILDTAGTEQFTA-   66 (167)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCCCC-CSCCCCSEEEEEEEEESSSCE---------------EEEEEEEECSSCSSTT-
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCC-CccCCccccccceeEEeeeeE---------------EEeccccccCcccccc-
Confidence            68999999999999999999976433 223222222233334444432               6799999999765543 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|++
T Consensus        67 ------~~~~~~~~~~~~ilv~d~~   85 (167)
T d1c1ya_          67 ------MRDLYMKNGQGFALVYSIT   85 (167)
T ss_dssp             ------HHHHHHHHCSEEEEEEETT
T ss_pred             ------cccccccccceeEEeeecc
Confidence                  2234568899999999985

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.58  E-value=1.4e-14  Score=122.71  Aligned_cols=83  Identities=22%  Similarity=0.108  Sum_probs=56.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++.+++........|..............+..               ..+.+||++|...... 
T Consensus         7 ~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~~~d~~g~~~~~~-   70 (170)
T d1r2qa_           7 FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTT---------------VKFEIWDTAGQERYHS-   70 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEE---------------EEEEEEEECCSGGGGG-
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeeccceE---------------EEEEeccCCCchhhhh-
Confidence            589999999999999999999765443333332333333334444432               6789999999754322 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                         +   ....++.+|++++|+|..
T Consensus        71 ---~---~~~~~~~~~~~ilv~d~~   89 (170)
T d1r2qa_          71 ---L---APMYYRGAQAAIVVYDIT   89 (170)
T ss_dssp             ---G---HHHHHTTCSEEEEEEETT
T ss_pred             ---h---HHHHhhCcceEEEEeccc
Confidence               2   223458999999999984

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.57  E-value=1.1e-14  Score=125.08  Aligned_cols=83  Identities=24%  Similarity=0.252  Sum_probs=55.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++.+++........|....+.........+..               ..+.++|++|.......
T Consensus         3 ~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~~~d~~g~~~~~~~   67 (184)
T d1vg8a_           3 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRL---------------VTMQIWDTAGQERFQSL   67 (184)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCE---------------EEEEEEEECSSGGGSCS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCce---------------EEEEeeecCCccccccc
Confidence            699999999999999999999865433222321122222233444432               67899999997654432


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .       ...+..+|++++|+|..
T Consensus        68 ~-------~~~~~~~~~~i~~~d~~   85 (184)
T d1vg8a_          68 G-------VAFYRGADCCVLVFDVT   85 (184)
T ss_dssp             C-------CGGGTTCSEEEEEEETT
T ss_pred             c-------cccccCccEEEEeeccc
Confidence            2       24457899999999984

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=99.57  E-value=4.2e-15  Score=126.40  Aligned_cols=78  Identities=18%  Similarity=0.226  Sum_probs=56.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||.++|++|||||||++++++....   .+..|............                 ..+.+||+||.....  
T Consensus        13 ~kIvlvG~~~vGKTSli~rl~~~~~~---~~~~t~~~~~~~~~~~~-----------------~~~~i~D~~g~~~~~--   70 (173)
T d1e0sa_          13 MRILMLGLDAAGKTTILYKLKLGQSV---TTIPTVGFNVETVTYKN-----------------VKFNVWDVGGQDKIR--   70 (173)
T ss_dssp             EEEEEEEETTSSHHHHHHHTTCCCCE---EEEEETTEEEEEEEETT-----------------EEEEEEEESCCGGGH--
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCC---CccceeeeeEEEeeccc-----------------eeeEEecCCCcchhh--
Confidence            68999999999999999999875321   12224444444444443                 789999999965432  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           ......++.+|++++|+|++
T Consensus        71 -----~~~~~~~~~~~~ii~v~D~s   90 (173)
T d1e0sa_          71 -----PLWRHYYTGTQGLIFVVDCA   90 (173)
T ss_dssp             -----HHHGGGTTTCCEEEEEEETT
T ss_pred             -----hHHHhhhcccceEEEEEecc
Confidence                 24456778999999999985

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.57  E-value=8.7e-15  Score=128.43  Aligned_cols=83  Identities=23%  Similarity=0.228  Sum_probs=65.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC------Ccc-----ccC-CC-----ceeecceeEEEEeCCccccccccccccccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL------KIS-----AEN-YP-----FCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFP   65 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~------~~~-----~~~-~p-----~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~   65 (363)
                      ++||++|++++|||||+++|+..      ...     ..+ .|     +.|++.....+.+++                 
T Consensus         4 ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~-----------------   66 (204)
T d2c78a3           4 VNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAK-----------------   66 (204)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSS-----------------
T ss_pred             eEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCC-----------------
Confidence            68999999999999999999632      011     111 12     788888888888888                 


Q ss_pred             eeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccC
Q psy2401          66 AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKD  109 (363)
Q Consensus        66 ~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~  109 (363)
                      .+++++||||+.++.       ....+.++.||++|+||||.++
T Consensus        67 ~~i~iiDtPGh~df~-------~~~~~~~~~aD~avlVvda~~G  103 (204)
T d2c78a3          67 RHYSHVDCPGHADYI-------KNMITGAAQMDGAILVVSAADG  103 (204)
T ss_dssp             CEEEEEECCCSGGGH-------HHHHHHHTTCSSEEEEEETTTC
T ss_pred             eEEEEEeCCCchhhH-------HHHHHHHHHCCEEEEEEECCCC
Confidence            689999999976543       4778889999999999999643

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=99.57  E-value=6.3e-15  Score=125.26  Aligned_cols=78  Identities=28%  Similarity=0.319  Sum_probs=55.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCcc-ccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~-~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      .+||+++|++|||||||+|+|++.... +.+    +...+...+...+                 ..+.++|++|.... 
T Consensus        16 ~~kI~vvG~~~vGKSsLi~~l~~~~~~~~~~----~~~~~~~~i~~~~-----------------~~~~i~d~~g~~~~-   73 (176)
T d1fzqa_          16 EVRILLLGLDNAGKTTLLKQLASEDISHITP----TQGFNIKSVQSQG-----------------FKLNVWDIGGQRKI-   73 (176)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCCSCCEEEEE----ETTEEEEEEEETT-----------------EEEEEEECSSCGGG-
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcCCCCccee----eeeeeEEEeccCC-----------------eeEeEeeccccccc-
Confidence            378999999999999999999885432 111    2223334455555                 67999999986432 


Q ss_pred             CcccchhhHHHhhccccCEEEEEEecc
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .......++.+|++++|+|++
T Consensus        74 ------~~~~~~~~~~~~~ii~v~d~~   94 (176)
T d1fzqa_          74 ------RPYWRSYFENTDILIYVIDSA   94 (176)
T ss_dssp             ------HHHHHHHHTTCSEEEEEEETT
T ss_pred             ------hhHHHHHhhccceeEEeeccc
Confidence                  224456678999999999985

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=99.56  E-value=7e-15  Score=125.96  Aligned_cols=79  Identities=23%  Similarity=0.312  Sum_probs=54.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++.|++.... ...|  |.......+...+                 ..+.+||+||.......
T Consensus        18 ~KI~lvG~~~vGKTsLi~~l~~~~~~-~~~~--t~~~~~~~~~~~~-----------------~~~~i~D~~g~~~~~~~   77 (182)
T d1moza_          18 LRILILGLDGAGKTTILYRLQIGEVV-TTKP--TIGFNVETLSYKN-----------------LKLNVWDLGGQTSIRPY   77 (182)
T ss_dssp             EEEEEEEETTSSHHHHHHHTCCSEEE-EECS--STTCCEEEEEETT-----------------EEEEEEEEC----CCTT
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCC-cccc--ccceEEEEEeeCC-----------------EEEEEEecccccccchh
Confidence            69999999999999999999875332 1122  4444555556555                 78999999997655442


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                             ....++.+|++++|+|+++
T Consensus        78 -------~~~~~~~~~~ii~v~d~~d   96 (182)
T d1moza_          78 -------WRCYYADTAAVIFVVDSTD   96 (182)
T ss_dssp             -------GGGTTTTEEEEEEEEETTC
T ss_pred             -------HHhhhccceeEEEEeeecc
Confidence                   2245688999999999853

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.56  E-value=1.1e-14  Score=123.90  Aligned_cols=154  Identities=16%  Similarity=0.101  Sum_probs=93.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcccc-CCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAE-NYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~-~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .||.++|.+|||||||++.+++...... ..|.+..+.....+.+++..               ..+.+||+++..   +
T Consensus         4 ~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~~~~d~~~~~---g   65 (172)
T d2g3ya1           4 YRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGES---------------ATIILLDMWENK---G   65 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEE---------------EEEEEECCTTTT---H
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCce---------------eeeeeecccccc---c
Confidence            6899999999999999999998754433 33433444455667777644               678899987531   1


Q ss_pred             cccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHH
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIEL  161 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~  161 (363)
                      . +.+  .....++.+|++++|+|+++.                                                    
T Consensus        66 ~-e~~--~~~~~~~~~~~~ilvfd~t~~----------------------------------------------------   90 (172)
T d2g3ya1          66 E-NEW--LHDHCMQVGDAYLIVYSITDR----------------------------------------------------   90 (172)
T ss_dssp             H-HHH--HHHCCCCCCSEEEEEEETTCH----------------------------------------------------
T ss_pred             c-ccc--cccccccccceeeeeeccccc----------------------------------------------------
Confidence            0 101  112356899999999998531                                                    


Q ss_pred             HHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHH
Q psy2401         162 LKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLE  241 (363)
Q Consensus       162 ~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e  241 (363)
                       ..++.+..|..                .+.........|+++|+||+|++....-..+..++++..++.+++.+||+..
T Consensus        91 -~s~~~~~~~~~----------------~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sak~g  153 (172)
T d2g3ya1          91 -ASFEKASELRI----------------QLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQ  153 (172)
T ss_dssp             -HHHHHHHHHHH----------------HHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTT
T ss_pred             -chhhhhhhhhh----------------hhhhccccCCceEEEEeccccccccccccHHHHHHHHHHcCCeEEEEeCCCC
Confidence             11111222211                0111111246799999999996421112344556666777889999999954


Q ss_pred             HHHhc
Q psy2401         242 EEISD  246 (363)
Q Consensus       242 ~~i~e  246 (363)
                      .++.+
T Consensus       154 ~~i~~  158 (172)
T d2g3ya1         154 HNVKE  158 (172)
T ss_dssp             BSHHH
T ss_pred             cCHHH
Confidence            44433

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.56  E-value=7e-15  Score=125.11  Aligned_cols=82  Identities=21%  Similarity=0.150  Sum_probs=54.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCcee-ecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCT-IEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t-~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      +||+++|.+|||||||++.+++..... .++.++ ...........+..               ..+.+||++|..... 
T Consensus         7 ~KI~vvG~~~vGKSSli~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~---------------~~~~i~d~~g~~~~~-   69 (174)
T d1wmsa_           7 FKVILLGDGGVGKSSLMNRYVTNKFDT-QLFHTIGVEFLNKDLEVDGHF---------------VTMQIWDTAGQERFR-   69 (174)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCC-----CCSEEEEEEEEEETTEE---------------EEEEEEECCCCGGGH-
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCCCCC-ccccceeeeeeeeeeeecCce---------------eeEeeecccCcceeh-
Confidence            589999999999999999998754332 222222 22223334444433               678899999964322 


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            ......+..+|+++++.|..
T Consensus        70 ------~~~~~~~~~~~~~i~~~d~~   89 (174)
T d1wmsa_          70 ------SLRTPFYRGSDCCLLTFSVD   89 (174)
T ss_dssp             ------HHHGGGGTTCSEEEEEEETT
T ss_pred             ------hhhhhhhhccceEEEEEeee
Confidence                  23445678899999999984

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.55  E-value=1.7e-14  Score=122.15  Aligned_cols=147  Identities=17%  Similarity=0.151  Sum_probs=90.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecce-eEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPN-IGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~-~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      ..||+++|.+|||||||++++.+........|  |+... ...+..++..               ..+.+||++|.....
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~~~~~p--Ti~~~~~~~~~~~~~~---------------~~l~i~D~~g~~~~~   64 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFIWEYDP--TLESTYRHQATIDDEV---------------VSMEILDTAGQEDTI   64 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCCSCCCT--TCCEEEEEEEEETTEE---------------EEEEEEECCCCCCCH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCccCC--ceeccccccccccccc---------------eEEEEeecccccccc
Confidence            36999999999999999999998644322223  22221 2233344432               679999999964321


Q ss_pred             CcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHH
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIE  160 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~  160 (363)
                              .....++.+|++++|+|+.+..                                                  
T Consensus        65 --------~~~~~~~~~~~~ilv~d~~~~~--------------------------------------------------   86 (168)
T d2atva1          65 --------QREGHMRWGEGFVLVYDITDRG--------------------------------------------------   86 (168)
T ss_dssp             --------HHHHHHHHCSEEEEEEETTCHH--------------------------------------------------
T ss_pred             --------cchhhhcccccceeecccCCcc--------------------------------------------------
Confidence                    2234568899999999985311                                                  


Q ss_pred             HHHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHH
Q psy2401         161 LLKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL  240 (363)
Q Consensus       161 ~~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~  240 (363)
                         .++.+..+..                ...........|+++++||.|.+....-..+++++++.+.+.+++.+||+.
T Consensus        87 ---s~~~~~~~~~----------------~~~~~~~~~~~piilvgnK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~Sakt  147 (168)
T d2atva1          87 ---SFEEVLPLKN----------------ILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACT  147 (168)
T ss_dssp             ---HHHTHHHHHH----------------HHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTT
T ss_pred             ---chhhhhhhcc----------------cccccccccCcceeeeccchhhhhhccCcHHHHHHHHHHhCCeEEEEcccc
Confidence               0111111100                011111225679999999999742111234566777777788999999995


Q ss_pred             HH
Q psy2401         241 EE  242 (363)
Q Consensus       241 e~  242 (363)
                      ..
T Consensus       148 g~  149 (168)
T d2atva1         148 GE  149 (168)
T ss_dssp             CT
T ss_pred             CC
Confidence            43

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.54  E-value=1.5e-14  Score=124.52  Aligned_cols=82  Identities=21%  Similarity=0.234  Sum_probs=60.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||+++++..... ..+..|+.+.....+...+.+               ..+.+||++|...+.. 
T Consensus        10 ~Ki~lvG~~~vGKTsLi~r~~~~~f~-~~~~~Ti~~~~~~~~~~~~~~---------------~~l~i~D~~g~e~~~~-   72 (185)
T d2atxa1          10 LKCVVVGDGAVGKTCLLMSYANDAFP-EEYVPTVFDHYAVSVTVGGKQ---------------YLLGLYDTAGQEDYDR-   72 (185)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSSCC-CSCCCSSCCCEEEEEESSSCE---------------EEEEEECCCCSSSSTT-
T ss_pred             EEEEEECCCCCCHHHHHHHHhhCCCC-CcCCCceeeeeeEEEeeCCce---------------EEeecccccccchhhh-
Confidence            79999999999999999999875433 344444444445555555543               6789999999765433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        73 ------~~~~~~~~a~~~ilv~d~t   91 (185)
T d2atxa1          73 ------LRPLSYPMTDVFLICFSVV   91 (185)
T ss_dssp             ------TGGGGCTTCSEEEEEEETT
T ss_pred             ------hhhhcccccceeeeccccc
Confidence                  2234568899999999985

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.54  E-value=1.6e-14  Score=121.51  Aligned_cols=148  Identities=19%  Similarity=0.148  Sum_probs=91.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++.+++........|............+....               ..+.++|++|.......
T Consensus         3 ~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~~~~~~~~~~   67 (165)
T d1z06a1           3 FKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGER---------------IKIQLWDTAGQERFRKS   67 (165)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEE---------------EEEEEEECCCSHHHHTT
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccc---------------eEEEEEeccCchhhccc
Confidence            689999999999999999999765443333322222222334444432               67889999985432110


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHHH
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIELL  162 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~~  162 (363)
                            .....++++|++++|+|+.+.                                                     
T Consensus        68 ------~~~~~~~~~d~~ilv~d~~~~-----------------------------------------------------   88 (165)
T d1z06a1          68 ------MVQHYYRNVHAVVFVYDMTNM-----------------------------------------------------   88 (165)
T ss_dssp             ------THHHHHTTCCEEEEEEETTCH-----------------------------------------------------
T ss_pred             ------cceeeecCCCceEEEEEeehh-----------------------------------------------------
Confidence                  112346899999999998531                                                     


Q ss_pred             HHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHH
Q psy2401         163 KLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKL  240 (363)
Q Consensus       163 ~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~  240 (363)
                      +.++.+..|+.                .+.........|+++++||.|.........+++++++++++.+++.+||+.
T Consensus        89 ~s~~~~~~~~~----------------~i~~~~~~~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAkt  150 (165)
T d1z06a1          89 ASFHSLPAWIE----------------ECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKN  150 (165)
T ss_dssp             HHHHTHHHHHH----------------HHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSS
T ss_pred             hhhhhhhhhhH----------------HHHhhccCCCCeEEEEeccccchhccchhHHHHHHHHHHCCCEEEEEeccc
Confidence            11111112111                011111224679999999999642112345567788888899999999984

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.53  E-value=2.4e-14  Score=121.19  Aligned_cols=163  Identities=16%  Similarity=0.101  Sum_probs=102.2

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+||+++|.+|||||||++.+++........|....+...-.+...+..               ..+.+||++|......
T Consensus         3 ~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~---------------~~l~i~d~~g~~~~~~   67 (170)
T d1ek0a_           3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHT---------------VKFEIWDTAGQERFAS   67 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEE---------------EEEEEEEECCSGGGGG
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeecccccccccc---------------ccccccccCCchhHHH
Confidence            3799999999999999999999765433222322222233445555543               6899999999654322


Q ss_pred             cccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHhhhhhhhcccccCCchhHHH
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEKYIDKENKKFFLKNEHSIEL  161 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~~~~~i~k~~~~g~~~~~~~  161 (363)
                          +   ....++.+|++++|+|..+..                                                   
T Consensus        68 ----~---~~~~~~~~~~~ilv~d~~~~~---------------------------------------------------   89 (170)
T d1ek0a_          68 ----L---APMYYRNAQAALVVYDVTKPQ---------------------------------------------------   89 (170)
T ss_dssp             ----G---HHHHHTTCSEEEEEEETTCHH---------------------------------------------------
T ss_pred             ----H---HHHHHhccceEEEEEeCCccc---------------------------------------------------
Confidence                2   224568899999999985310                                                   


Q ss_pred             HHHHHHHHhhhcCCCcccccCCChHHHHHHhhhcccccccEEEeccccccCCC---chHHHHHHHHHHhcCCCcEEEeeH
Q psy2401         162 LKLLKRIIFNLNKSIPIRLMSLNNEELMSIKFLNLLTIKPIIFVANVKENGFK---NNLLLDQLKIYAHNQNIPIIIICA  238 (363)
Q Consensus       162 ~~~l~~i~~~L~~~~~~~~~~~~~~e~~~~~~~~~l~~kp~i~v~Nk~d~~~~---~~~~~~~i~~~~~~~~~~~i~~sa  238 (363)
                        .++.+..+..             +  ...  ......|.++++||.|....   .....++.++++++.+.+++.+||
T Consensus        90 --s~~~~~~~~~-------------~--~~~--~~~~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~~~~~~e~Sa  150 (170)
T d1ek0a_          90 --SFIKARHWVK-------------E--LHE--QASKDIIIALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFETSA  150 (170)
T ss_dssp             --HHHHHHHHHH-------------H--HHH--HSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCT
T ss_pred             --chhhhhhhhh-------------h--hcc--ccccccceeeeecccccccccchhhhhHHHHHHHHHHcCCEEEEecC
Confidence              1111111111             0  000  12256788889999996321   112345567777777889999999


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCCCchhHHHHHHHHHHhCC
Q psy2401         239 KLEEEISDLNNIDKKFFLDNLGLKETKLNDLIRASFSLLD  278 (363)
Q Consensus       239 ~~e~~i~el~~~~~~~~l~~~~l~~~~l~~l~~~~~~~l~  278 (363)
                      +                      +..|++++...+.+.+.
T Consensus       151 k----------------------~g~gV~e~F~~i~~~i~  168 (170)
T d1ek0a_         151 K----------------------TGENVNDVFLGIGEKIP  168 (170)
T ss_dssp             T----------------------TCTTHHHHHHHHHTTSC
T ss_pred             C----------------------CCcCHHHHHHHHHHHhc
Confidence            8                      46677777777666554

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.53  E-value=3.2e-14  Score=121.25  Aligned_cols=83  Identities=22%  Similarity=0.202  Sum_probs=56.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      -.||+++|.+|||||||++++++........| |..+........++..               ..+.+||++|......
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~-t~~~~~~~~~~~~~~~---------------~~l~i~D~~g~~~~~~   65 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVP-TVFENYVADIEVDGKQ---------------VELALWDTAGLEDYDR   65 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCC-CSEEEEEEEEEETTEE---------------EEEEEEEECCSGGGTT
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCCCcCC-ceeeeccccccccccc---------------eeeeccccCccchhcc
Confidence            36899999999999999999998654322222 1112222334444432               6799999999765443


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                             .....++.+|++++|+|.+
T Consensus        66 -------~~~~~~~~~~~~ilv~d~~   84 (177)
T d1kmqa_          66 -------LRPLSYPDTDVILMCFSID   84 (177)
T ss_dssp             -------TGGGGCTTCSEEEEEEETT
T ss_pred             -------cchhhcccchhhhhhcccc
Confidence                   2234568999999999985

>d1wxqa2 d.15.10.2 (A:320-395) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: TGS-like
family: G domain-linked domain
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.52  E-value=3.4e-15  Score=108.98  Aligned_cols=63  Identities=25%  Similarity=0.459  Sum_probs=52.3

Q ss_pred             EEEEeCCCCce-----------EEEeecCCCCHHHhhhhhhcchhcccEEEEEecccccccccChhhHhhcCceeecCCC
Q psy2401         280 RTYFTVGKKEI-----------RAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKK  348 (363)
Q Consensus       280 i~~ft~g~~e~-----------raw~~~~g~ta~~~A~~IHsD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~  348 (363)
                      |++|++ +||.           .+|++|+||||.|+|++||+||.++|++|.+|.               .| +++ |.+
T Consensus         1 i~vyPv-~d~~~~~~~~g~vl~D~~~Lp~GsTv~D~A~~IH~dlg~~~~~A~~~~---------------~g-~~v-~l~   62 (76)
T d1wxqa2           1 IPVYPV-HDENKLTDQFGNVLPHVFLMKKGSTPRDLAFKVHTDLGKGFLYAINAR---------------TK-RRV-GED   62 (76)
T ss_dssp             EEEEEE-SCC-----CCSCSSCCCEEEETTCCHHHHHHHHCHHHHHTEEEEEETT---------------TC-SBC-CTT
T ss_pred             CceECc-cCCCEEECCCCCCccccEEeCCCCcHHHHHHHHhHHHHhheEEEEECc---------------CC-EEC-CCC
Confidence            678887 3442           489999999999999999999999999998543               13 445 999


Q ss_pred             eeeeCCCEEEEE
Q psy2401         349 YLVEDGDILNFL  360 (363)
Q Consensus       349 y~v~dgdii~~~  360 (363)
                      |+++|||+|+|-
T Consensus        63 ~~L~dgDvVeIi   74 (76)
T d1wxqa2          63 YELQFNDIVKIV   74 (76)
T ss_dssp             CCCCTTEEEEEE
T ss_pred             cCccCCCEEEEE
Confidence            999999999984

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.51  E-value=2.7e-14  Score=121.31  Aligned_cols=87  Identities=30%  Similarity=0.309  Sum_probs=53.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeeccee-EEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNI-GIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~-g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .|+|+|+||||||||+|+|+++.....+++++|..+.. +......                 ..+..+|+||.......
T Consensus         7 ~I~iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~-----------------~~~~~~~~~~~~~~~~~   69 (179)
T d1egaa1           7 FIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGA-----------------YQAIYVDTPGLHMEEKR   69 (179)
T ss_dssp             EEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETT-----------------EEEEEESSSSCCHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeecCC-----------------ceeEeecCCCceecchh
Confidence            58899999999999999999987665555555555544 4444444                 56778899987532211


Q ss_pred             cc--chhhHHHhhccccCEEEEEEecc
Q psy2401          83 GE--GLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~--~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      ..  ............+|+++++.|+.
T Consensus        70 ~~~~~~~~~~~~~~~~~~~~l~~~d~~   96 (179)
T d1egaa1          70 AINRLMNKAASSSIGDVELVIFVVEGT   96 (179)
T ss_dssp             HHHHHHTCCTTSCCCCEEEEEEEEETT
T ss_pred             hhhhhhhhccccchhhcceeEEEEecC
Confidence            10  00001112234567777777763

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=99.48  E-value=3.6e-14  Score=117.66  Aligned_cols=78  Identities=22%  Similarity=0.281  Sum_probs=53.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|+||||||||+|+|++...... ++  +............                 ..+.++|+||....   
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~-~~--~~~~~~~~~~~~~-----------------~~~~~~d~~g~~~~---   57 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTT-IP--TIGFNVETVEYKN-----------------ISFTVWDVGGQDKI---   57 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCC-CC--CSSCCEEEEECSS-----------------CEEEEEECCCCGGG---
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcc-cc--ceeeEEEEEeeee-----------------EEEEEecCCCcccc---
Confidence            6999999999999999999987543211 11  1112222333333                 78999999996432   


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                          ........+.++++++++|..
T Consensus        58 ----~~~~~~~~~~~~~~i~~~d~~   78 (160)
T d1r8sa_          58 ----RPLWRHYFQNTQGLIFVVDSN   78 (160)
T ss_dssp             ----HHHHHHHTTTCSEEEEEEETT
T ss_pred             ----hhhhhhhhccceeEEEEEEec
Confidence                224456678899999999984

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.46  E-value=2.6e-13  Score=118.75  Aligned_cols=99  Identities=19%  Similarity=0.195  Sum_probs=53.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCC-CceeecceeEEE----EeCC--ccccc-ccc-----cccc-ccccceeE
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENY-PFCTIEPNIGII----EVPD--KRLKH-LNN-----IVKT-KKIFPAII   68 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~-p~~t~~~~~g~v----~~~~--~~~~~-l~~-----~~~~-~~~~~~~i   68 (363)
                      .+||++|+.++|||||+++|++........ .........+..    ....  ..... ...     .... .......+
T Consensus         9 ini~iiGhVd~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~   88 (205)
T d2qn6a3           9 VNIGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRI   88 (205)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHSCCC--------------CEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEEEE
T ss_pred             eEEEEEEccCCcHHHHHHHHHhhhchhhHHHHHhhcccccchhhhhhhhhhhhhhhheeeecccceeeeeeccccceEEE
Confidence            589999999999999999999752211110 000101111111    1110  00000 000     0000 01112468


Q ss_pred             EEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          69 KLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        69 ~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      +++|+||..++       .......++.||.+++|||+.+
T Consensus        89 ~iiD~PGH~df-------~~~~~~~~~~ad~ailvVda~~  121 (205)
T d2qn6a3          89 SFIDAPGHEVL-------MATMLSGAALMDGAILVVAANE  121 (205)
T ss_dssp             EEEECSCHHHH-------HHHHHHTSSCCSEEEEEEETTS
T ss_pred             EEeccchHHHH-------Hhhhhcceeccccccccccccc
Confidence            99999997653       3466788899999999999954

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.46  E-value=9.7e-14  Score=118.94  Aligned_cols=82  Identities=20%  Similarity=0.199  Sum_probs=57.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++++++..... .+..|..+.....+..++..               ..+.+||++|...... 
T Consensus         6 iKivviG~~~vGKTsli~~~~~~~f~~-~~~~ti~~~~~~~~~~~~~~---------------~~~~~~d~~g~~~~~~-   68 (183)
T d1mh1a_           6 IKCVVVGDGAVGKTCLLISYTTNAFPG-EYIPTVFDNYSANVMVDGKP---------------VNLGLWDTAGQEDYDR-   68 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSSCCS-SCCCCSCCEEEEEEEETTEE---------------EEEEEECCCCSGGGTT-
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCCCCc-ccccceeeceeeeeeccCcc---------------eEEEeecccccccchh-
Confidence            699999999999999999999765432 33333333333445555543               6789999998654433 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        69 ------~~~~~~~~~~~~ilv~d~~   87 (183)
T d1mh1a_          69 ------LRPLSYPQTDVSLICFSLV   87 (183)
T ss_dssp             ------TGGGGCTTCSEEEEEEETT
T ss_pred             ------hhhhcccccceeeeeeccc
Confidence                  2224568999999999985

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.46  E-value=1.2e-13  Score=118.02  Aligned_cols=76  Identities=18%  Similarity=0.159  Sum_probs=54.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++++.+....  .++.++.......+.+++..               ..+.+|||+|...    
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~~f~--~~~~t~~~~~~~~i~v~~~~---------------~~l~i~Dt~g~~~----   64 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTGSYQ--VLEKTESEQYKKEMLVDGQT---------------HLVLIREEAGAPD----   64 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHSCCC--CCCCSSCEEEEEEEEETTEE---------------EEEEEEECSSCCC----
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCCCC--CcCCccceeEEEEeecCceE---------------EEEEEeecccccc----
Confidence            79999999999999999999986543  22222222233445666643               7799999999542    


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                           .   ..++.+|++++|+|+.
T Consensus        65 -----~---~~~~~ad~~ilVfd~~   81 (175)
T d2bmja1          65 -----A---KFSGWADAVIFVFSLE   81 (175)
T ss_dssp             -----H---HHHHHCSEEEEEEETT
T ss_pred             -----c---ccccccceeEEEeecc
Confidence                 1   2457899999999985

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=5.3e-13  Score=115.07  Aligned_cols=82  Identities=20%  Similarity=0.249  Sum_probs=57.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+++|.+|||||||++++.+........| |............+..               ..+.+||++|..++.. 
T Consensus         4 iKvvllG~~~vGKTSli~r~~~~~f~~~~~~-t~~~~~~~~~~~~~~~---------------~~l~i~D~~g~~~~~~-   66 (191)
T d2ngra_           4 IKCVVVGDGAVGKTCLLISYTTNKFPSEYVP-TVFDNYAVTVMIGGEP---------------YTLGLFDTAGQEDYDR-   66 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCCSSCCC-CSEEEEEEEEEETTEE---------------EEEEEEEECCSGGGTT-
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCCCCCCcCC-ceeeecceeEeeCCce---------------eeeeccccccchhhhh-
Confidence            7999999999999999999997654333223 2222233344455433               6799999999765443 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            .....++.+|++++|+|+.
T Consensus        67 ------~~~~~~~~~~~~ilv~d~~   85 (191)
T d2ngra_          67 ------LRPLSYPQTDVFLVCFSVV   85 (191)
T ss_dssp             ------TGGGGCTTCSEEEEEEETT
T ss_pred             ------hhhhcccccceeecccccc
Confidence                  2224568999999999985

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=99.45  E-value=4.4e-13  Score=113.34  Aligned_cols=79  Identities=25%  Similarity=0.319  Sum_probs=52.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCcc-ccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~-~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      .+||+++|.||||||||+++|.+.... ..+    +...........+                 .++.++|++|.....
T Consensus        15 ~~kI~vvG~~~~GKSsLi~rl~~~~~~~~~~----~~~~~~~~~~~~~-----------------~~~~~~d~~~~~~~~   73 (177)
T d1zj6a1          15 EHKVIIVGLDNAGKTTILYQFSMNEVVHTSP----TIGSNVEEIVINN-----------------TRFLMWDIGGQESLR   73 (177)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTTSCEEEEC----CSCSSCEEEEETT-----------------EEEEEEECCC----C
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCcccc----ccceeEEEEeecc-----------------eEEEEeccccccccc
Confidence            479999999999999999999986432 111    1122233344444                 678899998864433


Q ss_pred             CcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          81 SKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        81 ~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      .       ........++++++|+|+++
T Consensus        74 ~-------~~~~~~~~~~~~i~v~d~~d   94 (177)
T d1zj6a1          74 S-------SWNTYYTNTEFVIVVVDSTD   94 (177)
T ss_dssp             G-------GGHHHHTTCCEEEEEEETTC
T ss_pred             c-------chhhhhccceeeeeeccccc
Confidence            2       33455678999999999853

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=99.43  E-value=3.5e-13  Score=122.14  Aligned_cols=89  Identities=18%  Similarity=0.193  Sum_probs=69.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCC-ccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLK-ISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~-~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      +++|+|+|.||||||||+|+|+|.. +.+++.+++|.++..+...+.+                 .++.++||||+.+..
T Consensus        32 ~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~~~T~~~~~~~~~~~g-----------------~~i~viDTPGl~~~~   94 (257)
T d1h65a_          32 SLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAG-----------------FTLNIIDTPGLIEGG   94 (257)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETT-----------------EEEEEEECCCSEETT
T ss_pred             CcEEEEECCCCCcHHHHHHHHhCCCceeecCCCCcceeEEEEEEEecc-----------------EEEEEEeeecccCCc
Confidence            3789999999999999999999984 6678889999999999988888                 679999999998654


Q ss_pred             CcccchhhHHH--hhccccCEEEEEEecc
Q psy2401          81 SKGEGLGNKFL--AHIRETNIVIHVIRCF  107 (363)
Q Consensus        81 ~~~~~l~~~~l--~~~~~aD~il~Vvda~  107 (363)
                      ...+.......  ......|++++|+++.
T Consensus        95 ~~~~~~~~~i~~~~~~~~~~~il~v~~~~  123 (257)
T d1h65a_          95 YINDMALNIIKSFLLDKTIDVLLYVDRLD  123 (257)
T ss_dssp             EECHHHHHHHHHHTTTCEECEEEEEEESS
T ss_pred             chHHHHHHHHHHHHhcCCCCeEEEEEECC
Confidence            44333322222  2234678999998874

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.42  E-value=3.1e-13  Score=117.42  Aligned_cols=82  Identities=18%  Similarity=0.202  Sum_probs=62.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+|+|+||||||||+|+|++...    .|++|.....+.+..++                 ..+.++|+||...... 
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~~~----~~~tt~~~~~~~~~~~~-----------------~~~~l~D~~g~~~~~~-   61 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTDSV----RPTVVSQEPLSAADYDG-----------------SGVTLVDFPGHVKLRY-   61 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSSC----CCBCCCSSCEEETTGGG-----------------SSCEEEECCCCGGGTH-
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC----CCeEEecceEEEEEeCC-----------------eEEEEEecccccchhh-
Confidence            5899999999999999999998643    36677777777766666                 6789999999764332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEeccc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                        .....+......++.+++++|+..
T Consensus        62 --~~~~~~~~~~~~~~~~i~~vd~~~   85 (209)
T d1nrjb_          62 --KLSDYLKTRAKFVKGLIFMVDSTV   85 (209)
T ss_dssp             --HHHHHHHHHGGGEEEEEEEEETTS
T ss_pred             --HHHHHHHHHhhhccccceEEEEec
Confidence              223345556677899999999853

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.40  E-value=7.4e-13  Score=113.17  Aligned_cols=83  Identities=18%  Similarity=0.183  Sum_probs=57.2

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+||+++|.+|||||||+++++...... .+..+........+.+++..               ..+.+||++|......
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~-~~~~t~~~~~~~~~~~~~~~---------------~~~~i~D~~g~~~~~~   65 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPE-NYVPTVFENYTASFEIDTQR---------------IELSLWDTSGSPYYDN   65 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCS-SCCCCSEEEEEEEEECSSCE---------------EEEEEEEECCSGGGTT
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCC-ccCCceeecccccccccceE---------------Eeeccccccccccccc
Confidence            4689999999999999999998765432 22222222333344454433               6789999999755433


Q ss_pred             cccchhhHHHhhccccCEEEEEEecc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                      .       ....++.+|++++|+|+.
T Consensus        66 ~-------~~~~~~~~~~~ilv~d~~   84 (179)
T d1m7ba_          66 V-------RPLSYPDSDAVLICFDIS   84 (179)
T ss_dssp             T-------GGGGCTTCSEEEEEEETT
T ss_pred             c-------ccchhhhhhhhheeeecc
Confidence            1       124568999999999984

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.39  E-value=1.1e-12  Score=126.08  Aligned_cols=83  Identities=19%  Similarity=0.243  Sum_probs=54.2

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCc-----cccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKI-----SAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGL   76 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~-----~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl   76 (363)
                      +++|+++|.||||||||+|+|+|...     .....++||.++...  ..++.                ..+.+|||||+
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~~--~~~~~----------------~~~~l~DtPG~  117 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPY--KHPNI----------------PNVVFWDLPGI  117 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEE--ECSSC----------------TTEEEEECCCG
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeeee--eccCC----------------CeEEEEeCCCc
Confidence            47899999999999999999998532     223345567666543  23332                45889999999


Q ss_pred             cCCCCcccchhhHHHh--hccccCEEEEEEec
Q psy2401          77 VSGASKGEGLGNKFLA--HIRETNIVIHVIRC  106 (363)
Q Consensus        77 ~~~~~~~~~l~~~~l~--~~~~aD~il~Vvda  106 (363)
                      .......+    .++.  .+..+|.+++++|.
T Consensus       118 ~~~~~~~~----~~~~~~~~~~~d~~l~~~~~  145 (400)
T d1tq4a_         118 GSTNFPPD----TYLEKMKFYEYDFFIIISAT  145 (400)
T ss_dssp             GGSSCCHH----HHHHHTTGGGCSEEEEEESS
T ss_pred             ccccccHH----HHHHHhhhhcceEEEEecCC
Confidence            76544332    3332  35678988888764

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=99.38  E-value=6.3e-13  Score=117.82  Aligned_cols=36  Identities=8%  Similarity=0.069  Sum_probs=30.0

Q ss_pred             eeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          66 AIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        66 ~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                      ..+.++|+||..++       .....+.+..+|++++|||+.+
T Consensus        89 ~~~~iiD~PGH~df-------v~~~~~g~~~aD~ailVvda~~  124 (222)
T d1zunb3          89 RKFIIADTPGHEQY-------TRNMATGASTCDLAIILVDARY  124 (222)
T ss_dssp             EEEEEEECCCSGGG-------HHHHHHHHTTCSEEEEEEETTT
T ss_pred             eEEEEEeccchhhh-------hhhhccccccCceEEEEecccc
Confidence            67999999998654       3477788899999999999954

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=99.36  E-value=5.1e-12  Score=105.00  Aligned_cols=78  Identities=23%  Similarity=0.338  Sum_probs=54.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      +||+|+|.||||||||+|++++.... ..+|  |...........+                 ..+.++|.+|...... 
T Consensus         6 ~kI~ivG~~~vGKSSLi~~~~~~~~~-~~~~--~~~~~~~~~~~~~-----------------~~~~~~~~~~~~~~~~-   64 (169)
T d1upta_           6 MRILILGLDGAGKTTILYRLQVGEVV-TTIP--TIGFNVETVTYKN-----------------LKFQVWDLGGLTSIRP-   64 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSSCC-CCCC--CSSEEEEEEEETT-----------------EEEEEEEECCCGGGGG-
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCCc-ceec--ccceeeeeeccCc-----------------eEEEEeeccccccccc-
Confidence            78999999999999999999986432 1222  3333333444444                 6788999988654332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            ......+.++.+++++|..
T Consensus        65 ------~~~~~~~~~~~~~~~~~~~   83 (169)
T d1upta_          65 ------YWRCYYSNTDAVIYVVDSC   83 (169)
T ss_dssp             ------GGGGGCTTCSEEEEEEETT
T ss_pred             ------cchhhhhhhhhhhhhhhhh
Confidence                  3335567889999999975

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.35  E-value=5.8e-12  Score=106.34  Aligned_cols=78  Identities=21%  Similarity=0.410  Sum_probs=53.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||+|+|++|||||||+++|++.... ..+|  |...+...+.+++                 ..+.++|+++...... 
T Consensus        14 ~kI~lvG~~~vGKTsLl~~l~~~~~~-~~~~--~~~~~~~~~~~~~-----------------~~~~~~~~~~~~~~~~-   72 (186)
T d1f6ba_          14 GKLVFLGLDNAGKTTLLHMLKDDRLG-QHVP--TLHPTSEELTIAG-----------------MTFTTFDLGGHIQARR-   72 (186)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSCC-------C--CCCCSCEEEEETT-----------------EEEEEEEECC----CC-
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCc-ceec--ccccceeEEEecc-----------------cccccccccchhhhhh-
Confidence            68999999999999999999986432 2233  4445555667766                 6788999988655443 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            ......+..+.+++++|..
T Consensus        73 ------~~~~~~~~~~~~~~~~d~~   91 (186)
T d1f6ba_          73 ------VWKNYLPAINGIVFLVDCA   91 (186)
T ss_dssp             ------GGGGGGGGCSEEEEEEETT
T ss_pred             ------HHhhhhcccceeeeeeecc
Confidence                  3345668899999999984

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=99.32  E-value=8.6e-13  Score=117.06  Aligned_cols=83  Identities=22%  Similarity=0.191  Sum_probs=55.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc-------------------------------cccCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI-------------------------------SAENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~-------------------------------~~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      .+||++|+-++|||||+.+|+....                               ......+.|+......+.+++   
T Consensus         4 iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~~---   80 (224)
T d1jnya3           4 LNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETKK---   80 (224)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEECSS---
T ss_pred             cEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhcCCccccceEEEEecCC---
Confidence            5899999999999999999952100                               011123455555555566665   


Q ss_pred             cccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccC
Q psy2401          52 KHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKD  109 (363)
Q Consensus        52 ~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~  109 (363)
                                    ..++++||||..++.       ....+.++.+|++|+|||+.++
T Consensus        81 --------------~~i~iiDtPGH~df~-------~~~~~g~~~~D~allVVda~~G  117 (224)
T d1jnya3          81 --------------YFFTIIDAPGHRDFV-------KNMITGASQADAAILVVSAKKG  117 (224)
T ss_dssp             --------------CEEEECCCSSSTTHH-------HHHHHTSSCCSEEEEEEECSTT
T ss_pred             --------------ceeEEeeCCCcHHHH-------HHHHHHHHhhceEEEEEecccC
Confidence                          689999999986544       4778888999999999999643

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.31  E-value=1.3e-11  Score=101.74  Aligned_cols=76  Identities=20%  Similarity=0.322  Sum_probs=54.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCcc-ccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~-~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      ||+++|+||||||||+|+|++.... ..    .|...+.......+                 ....++|++|...... 
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~~~~----~t~~~~~~~~~~~~-----------------~~~~~~~~~~~~~~~~-   59 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLATLQ----PTWHPTSEELAIGN-----------------IKFTTFDLGGHIQARR-   59 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCCC----CCCSCEEEEECCTT-----------------CCEEEEECCCSGGGGG-
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCeee----ceeeEeEEEeccCC-----------------eeEEEEeeccchhhhh-
Confidence            8999999999999999999986432 22    24444445555555                 6788999998654332 


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                            ......+.++++++++|.+
T Consensus        60 ------~~~~~~~~~~~~~~~~d~~   78 (166)
T d2qtvb1          60 ------LWKDYFPEVNGIVFLVDAA   78 (166)
T ss_dssp             ------GGGGGCTTCSEEEEEEETT
T ss_pred             ------hHhhhhhheeeeeeecccc
Confidence                  3335567899999999985

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.31  E-value=5.5e-12  Score=109.72  Aligned_cols=82  Identities=21%  Similarity=0.213  Sum_probs=58.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .+|+|+|+||||||||+|+|++..... .+|  |..++.+.+.+.+...              ..+.+||+||.....  
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~~~~-~~~--t~~~~~~~~~~~~~~~--------------~~~~~~d~~g~~~~~--   61 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQYRD-TQT--SITDSSAIYKVNNNRG--------------NSLTLIDLPGHESLR--   61 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCCCC-BCC--CCSCEEEEEECSSTTC--------------CEEEEEECCCCHHHH--
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCc-ccC--CeeEEEEEEEEeeeee--------------eeeeeeecccccccc--
Confidence            479999999999999999999865432 234  5556667776654221              678999999954211  


Q ss_pred             ccchhhHHHhhccccCEEEEEEecc
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCF  107 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~  107 (363)
                          .......++.+|.+++|+|++
T Consensus        62 ----~~~~~~~~~~~~~~i~v~D~~   82 (207)
T d2fh5b1          62 ----FQLLDRFKSSARAVVFVVDSA   82 (207)
T ss_dssp             ----HHHHHHHGGGEEEEEEEEETT
T ss_pred             ----chhhhhhhhhccccceEEEcc
Confidence                122334568899999999984

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.30  E-value=9.2e-13  Score=118.52  Aligned_cols=82  Identities=22%  Similarity=0.206  Sum_probs=46.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHH---cCCc----------------------------cccCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALT---KLKI----------------------------SAENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt---~~~~----------------------------~~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      ++|+++|+.++|||||+.+|+   |...                            ......+.|++.......+++   
T Consensus        25 iNi~iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~~---  101 (245)
T d1r5ba3          25 VNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETEH---  101 (245)
T ss_dssp             EEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECSS---
T ss_pred             eEEEEEeeCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCccchhhhhhhccccccccCcccccccccccccc---
Confidence            469999999999999999994   2100                            011112334443334444444   


Q ss_pred             cccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          52 KHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        52 ~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                                    ..+.++||||..++..       ...+.++.+|.+++|||+.+
T Consensus       102 --------------~~i~~iDtPGH~df~~-------~~~~g~~~aD~ailVVda~~  137 (245)
T d1r5ba3         102 --------------RRFSLLDAPGHKGYVT-------NMINGASQADIGVLVISARR  137 (245)
T ss_dssp             --------------EEEEECCCCC------------------TTSCSEEEEEEECST
T ss_pred             --------------ceeeeecccccccchh-------hhhhhhhhhcceeeEEEcCC
Confidence                          6799999999876554       66677889999999999964

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.29  E-value=1.4e-12  Score=116.82  Aligned_cols=82  Identities=20%  Similarity=0.152  Sum_probs=64.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHH---cCCc----------------cc------------cCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALT---KLKI----------------SA------------ENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt---~~~~----------------~~------------~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      ++|+++|+.++|||||..+|+   |.-.                ..            .-..+.|++.....+.+++   
T Consensus         7 iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~---   83 (239)
T d1f60a3           7 INVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK---   83 (239)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSS---
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEeccCC---
Confidence            589999999999999999995   2100                00            0114778888888888887   


Q ss_pred             cccccccccccccceeEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEeccc
Q psy2401          52 KHLNNIVKTKKIFPAIIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        52 ~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                                    .+++++||||..++.       ....+.++.+|++|+||||.+
T Consensus        84 --------------~~i~iiDtPGH~df~-------~~~~~g~~~~D~ailvvda~~  119 (239)
T d1f60a3          84 --------------YQVTVIDAPGHRDFI-------KNMITGTSQADCAILIIAGGV  119 (239)
T ss_dssp             --------------EEEEEEECCCCTTHH-------HHHHHSSSCCSEEEEEEECSH
T ss_pred             --------------EEEEEEECCCcHHHH-------HHHHHHHHHhCEEEEEEECCC
Confidence                          789999999986543       477888999999999999953

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=99.24  E-value=1.1e-11  Score=104.95  Aligned_cols=26  Identities=35%  Similarity=0.489  Sum_probs=22.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKIS   28 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~   28 (363)
                      .+|+|+|+||||||||+|+|++.+..
T Consensus        17 ~~I~lvG~~NvGKSSL~n~L~~~~~~   42 (188)
T d1puia_          17 IEVAFAGRSNAGKSSALNTLTNQKSL   42 (188)
T ss_dssp             EEEEEEECTTSSHHHHHTTTCCC---
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCce
Confidence            68999999999999999999997543

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.00  E-value=1.1e-09  Score=92.86  Aligned_cols=76  Identities=18%  Similarity=0.230  Sum_probs=55.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+||+++|..|||||||++.+...     .+|  |.....-.+...+                 ..+++|||+|......
T Consensus         2 e~KivllG~~~vGKTsl~~r~~~~-----~~~--t~~~~~~~~~~~~-----------------~~~~i~D~~Gq~~~~~   57 (195)
T d1svsa1           2 EVKLLLLGAGESGKSTIVKQMKII-----HEA--GTGIVETHFTFKD-----------------LHFKMFDVGGQRSERK   57 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHH-----HSC--CCSEEEEEEEETT-----------------EEEEEEEECCSGGGGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhC-----CCC--CccEEEEEEEeee-----------------eeeeeecccccccccc
Confidence            369999999999999999999753     222  2223333455554                 7899999999765443


Q ss_pred             cccchhhHHHhhccccCEEEEEEeccc
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFK  108 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~  108 (363)
                             ......+.++++++|+|...
T Consensus        58 -------~~~~~~~~~~~~i~v~d~~~   77 (195)
T d1svsa1          58 -------KWIHCFEGVTAIIFCVALSD   77 (195)
T ss_dssp             -------GGGGGCTTCSEEEEEEEGGG
T ss_pred             -------chhhcccCCceeeeEEeecc
Confidence                   33366799999999999864

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.97  E-value=1.5e-10  Score=108.26  Aligned_cols=126  Identities=21%  Similarity=0.105  Sum_probs=78.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccc----------------cCCCceeecceeEEEEeCCccccccccccccccccce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISA----------------ENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPA   66 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~----------------~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~   66 (363)
                      ++|+++|+.++|||||+.+|......+                .-..+.|+......+.+..... ...........-..
T Consensus        18 RNI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~~~~~~-~~~~~~~~~~~~~~   96 (341)
T d1n0ua2          18 RNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDE-DVKEIKQKTDGNSF   96 (341)
T ss_dssp             EEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHH-HHHHCSSCCCSSEE
T ss_pred             cEEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEeCCEEEEEeccCcc-cccchhccccccce
Confidence            469999999999999999996210000                0112445555544444432100 00000000011125


Q ss_pred             eEEEEeeecccCCCCcccchhhHHHhhccccCEEEEEEecccCCceeeecCccCcccchhhhHHHHhHhhHHHHHh-hhh
Q psy2401          67 IIKLVDIAGLVSGASKGEGLGNKFLAHIRETNIVIHVIRCFKDDKITHISGEINPIHDAEVIQTELILSDLAILEK-YID  145 (363)
Q Consensus        67 ~i~lvDtpGl~~~~~~~~~l~~~~l~~~~~aD~il~Vvda~~~~~~~~v~~~~dp~~d~~~i~~el~~~~~~~~~~-~~~  145 (363)
                      .++++||||..++..       +....++.+|++++|||+.++.                ..+++..|+.+..... ++.
T Consensus        97 ~inliDtPGh~dF~~-------ev~~al~~~D~allVVda~eGv----------------~~qT~~~~~~a~~~~~p~i~  153 (341)
T d1n0ua2          97 LINLIDSPGHVDFSS-------EVTAALRVTDGALVVVDTIEGV----------------CVQTETVLRQALGERIKPVV  153 (341)
T ss_dssp             EEEEECCCCCCSSCH-------HHHHHHHTCSEEEEEEETTTBS----------------CHHHHHHHHHHHHTTCEEEE
T ss_pred             EEEEEcCCCcHHHHH-------HHHHHHhhcCceEEEEecccCc----------------chhHHHHHHHHHHcCCCeEE
Confidence            699999999988765       7788889999999999997654                3345666666655555 467


Q ss_pred             hhhcccc
Q psy2401         146 KENKKFF  152 (363)
Q Consensus       146 ~i~k~~~  152 (363)
                      .+||+++
T Consensus       154 viNKiDr  160 (341)
T d1n0ua2         154 VINKVDR  160 (341)
T ss_dssp             EEECHHH
T ss_pred             EEECccc
Confidence            8999854

>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=98.97  E-value=5.5e-09  Score=88.84  Aligned_cols=80  Identities=21%  Similarity=0.292  Sum_probs=57.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGAS   81 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~   81 (363)
                      .+||.++|..|||||||++.+......  ..|  |+..+.-.+....                 ..+++||++|......
T Consensus         2 e~Kiv~lG~~~vGKTsll~r~~~~~~~--~~p--TiG~~~~~~~~~~-----------------~~~~~~d~~g~~~~~~   60 (200)
T d2bcjq2           2 ELKLLLLGTGESGKSTFIKQMRIIHGS--GVP--TTGIIEYPFDLQS-----------------VIFRMVDVGGQRSERR   60 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHTSS--CCC--CCSCEEEEEECSS-----------------CEEEEEECCCSTTGGG
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCCC--CCc--eeeEEEEEEeccc-----------------eeeeeccccccccccc
Confidence            369999999999999999999765432  223  4444444444444                 6799999999755443


Q ss_pred             cccchhhHHHhhccccCEEEEEEecccC
Q psy2401          82 KGEGLGNKFLAHIRETNIVIHVIRCFKD  109 (363)
Q Consensus        82 ~~~~l~~~~l~~~~~aD~il~Vvda~~~  109 (363)
                             ......+.++++++|+|..+.
T Consensus        61 -------~~~~~~~~~~~~i~~~~~~~~   81 (200)
T d2bcjq2          61 -------KWIHCFENVTSIMFLVALSEY   81 (200)
T ss_dssp             -------GGGGGCSSCSEEEEEEEGGGG
T ss_pred             -------cccccccccceeeEeeeccch
Confidence                   333556899999999998653

>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=98.96  E-value=3e-09  Score=90.87  Aligned_cols=78  Identities=19%  Similarity=0.225  Sum_probs=52.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||.++|.+|||||||++.+..   .....|  |+..+...+.+.+                 ..+.+||++|.......
T Consensus         3 iKivllG~~~vGKTsll~r~~f---~~~~~p--TiG~~~~~~~~~~-----------------~~~~~~D~~gq~~~~~~   60 (200)
T d1zcba2           3 VKILLLGAGESGKSTFLKQMRI---IHGQDP--TKGIHEYDFEIKN-----------------VPFKMVDVGGQRSERKR   60 (200)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH---HHSCCC--CSSEEEEEEEETT-----------------EEEEEEEECC-------
T ss_pred             EEEEEECCCCCCHHHHHHHHhc---CCCCCC--eeeeEEEEEeeee-----------------eeeeeecccceeeeccc
Confidence            6899999999999999999942   111223  4444455566655                 78999999998655443


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccC
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKD  109 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~  109 (363)
                      +       ....+.++++++|+|.++.
T Consensus        61 ~-------~~~~~~~~~~~~~~~~~~~   80 (200)
T d1zcba2          61 W-------FECFDSVTSILFLVSSSEF   80 (200)
T ss_dssp             C-------TTSCTTCCEEEEEEETTCT
T ss_pred             c-------cccccccceeEEEEEcCCc
Confidence            2       2556889999999998653

>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=98.89  E-value=5.7e-10  Score=101.42  Aligned_cols=60  Identities=32%  Similarity=0.448  Sum_probs=38.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcC-CccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCC
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKL-KISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGA   80 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~-~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~   80 (363)
                      +.+++++|.||||||||+|+|.+. .+.+++.||+|.+.+.  +...                  ..+.++||||+..+.
T Consensus       112 ~~~v~vvG~PNvGKSsliN~L~~~~~~~~~~~pG~Tr~~~~--i~~~------------------~~~~l~DTPGi~~p~  171 (273)
T d1puja_         112 AIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQQW--VKVG------------------KELELLDTPGILWPK  171 (273)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSCCC------------CC--EEET------------------TTEEEEECCCCCCSC
T ss_pred             ceEEEEEecCccchhhhhhhhhccceEEECCcccccccceE--EECC------------------CCeEEecCCCccccC
Confidence            368999999999999999999998 5679999999987653  2222                  358999999997654


Q ss_pred             C
Q psy2401          81 S   81 (363)
Q Consensus        81 ~   81 (363)
                      .
T Consensus       172 ~  172 (273)
T d1puja_         172 F  172 (273)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=98.83  E-value=1e-08  Score=89.88  Aligned_cols=77  Identities=18%  Similarity=0.201  Sum_probs=57.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      .||.++|.+|||||||++.+.....    .|  |+....-.+.+++                 ..+++||++|.......
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~~~----~p--TiG~~~~~~~~~~-----------------~~~~~~D~~Gq~~~r~~   63 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRILHV----VL--TSGIFETKFQVDK-----------------VNFHMFDVGGQRDERRK   63 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHC----CC--CCSCEEEEEEETT-----------------EEEEEEECCCSTTTTTG
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCc----CC--CCCeEEEEEEECc-----------------EEEEEEecCccceeccc
Confidence            5899999999999999999964211    12  4455555566666                 78999999997665543


Q ss_pred             ccchhhHHHhhccccCEEEEEEecccC
Q psy2401          83 GEGLGNKFLAHIRETNIVIHVIRCFKD  109 (363)
Q Consensus        83 ~~~l~~~~l~~~~~aD~il~Vvda~~~  109 (363)
                      +       ....+.++++++|+|.+..
T Consensus        64 w-------~~~~~~~~~ii~v~d~s~~   83 (221)
T d1azta2          64 W-------IQCFNDVTAIIFVVASSSY   83 (221)
T ss_dssp             G-------GGGCTTCSEEEEEEETTGG
T ss_pred             h-------hhhcccccceEEEEEcccc
Confidence            3       3556889999999998653

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=98.62  E-value=7e-08  Score=84.49  Aligned_cols=21  Identities=24%  Similarity=0.387  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -|+++|++|||||||+++|+.
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~   22 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGR   22 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHH
Confidence            479999999999999999974

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.51  E-value=4.6e-07  Score=82.30  Aligned_cols=38  Identities=16%  Similarity=0.231  Sum_probs=29.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc-cccCCCceeeccee
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI-SAENYPFCTIEPNI   41 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~-~~~~~p~~t~~~~~   41 (363)
                      .+|+++|.-++|||||+|+|+|... +++.-| ||..|..
T Consensus        27 P~ivvvG~~SsGKSsliNaLlg~~~lP~~~~~-~T~~~~~   65 (299)
T d2akab1          27 PQIAVVGGQSAGKSSVLENFVGRDFLPRGSGI-VTRRPLV   65 (299)
T ss_dssp             CEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSC-SCSSCEE
T ss_pred             CeEEEEcCCCCCHHHHHHHHhCCCcCCCCCCc-cccCCEE
Confidence            4699999999999999999999875 444443 5555543

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=98.43  E-value=5.6e-07  Score=82.12  Aligned_cols=37  Identities=16%  Similarity=0.225  Sum_probs=24.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCc-cccCCCceeecce
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKI-SAENYPFCTIEPN   40 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~-~~~~~p~~t~~~~   40 (363)
                      .+|+++|..++|||||+|+|+|... +++.- .||..|.
T Consensus        25 P~ivVvG~~ssGKSSliNaLlG~~~lP~~~~-~~T~~~~   62 (306)
T d1jwyb_          25 PQIVVVGSQSSGKSSVLENIVGRDFLPRGSG-IVTRRPL   62 (306)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHTSCCCCC---------CE
T ss_pred             CeEEEEeCCCCCHHHHHHHHhCCCCCCCCCC-ccccCCE
Confidence            4799999999999999999999865 34443 3444444

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=98.40  E-value=5.5e-07  Score=83.25  Aligned_cols=22  Identities=41%  Similarity=0.723  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .+|||.|+||||||||+++|+.
T Consensus        55 ~~IgitG~pGaGKSTLi~~l~~   76 (327)
T d2p67a1          55 LRLGVTGTPGAGKSTFLEAFGM   76 (327)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEeeCCCCCCHHHHHHHHHH
Confidence            5799999999999999999973

>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=98.27  E-value=2.5e-07  Score=80.82  Aligned_cols=23  Identities=39%  Similarity=0.517  Sum_probs=21.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ...+++|++|||||||+|+|.+.
T Consensus        96 kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          96 KISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             CeEEEECCCCCCHHHHHHhhcch
Confidence            56899999999999999999875

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.12  E-value=1.1e-06  Score=77.01  Aligned_cols=41  Identities=22%  Similarity=0.259  Sum_probs=35.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHL   54 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l   54 (363)
                      --++|+|++|||||||++.|+|           ...|+.|.+.++|..+..+
T Consensus        27 ei~~liGpsGsGKSTLl~~i~G-----------l~~p~sG~I~i~g~~i~~~   67 (232)
T d2awna2          27 EFVVFVGPSGCGKSTLLRMIAG-----------LETITSGDLFIGEKRMNDT   67 (232)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT-----------SSCCSEEEEEESSSCCTTS
T ss_pred             CEEEEECCCCChHHHHHHHHhc-----------CCCCCCCEEEECCEECCCC
Confidence            3589999999999999999999           6789999999999765443

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=98.11  E-value=3.6e-06  Score=77.48  Aligned_cols=22  Identities=45%  Similarity=0.847  Sum_probs=20.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .+|||.|+||||||||+++|..
T Consensus        52 ~~igitG~pGaGKSTli~~l~~   73 (323)
T d2qm8a1          52 IRVGITGVPGVGKSTTIDALGS   73 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEeeeCCCCCCHHHHHHHHHH
Confidence            5799999999999999999984

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=98.05  E-value=1.6e-06  Score=74.54  Aligned_cols=38  Identities=21%  Similarity=0.318  Sum_probs=34.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      -.+||+|+||||||||+++|+|           ...|..|.+.++|..+
T Consensus        28 ei~~l~G~NGsGKSTLl~~i~g-----------l~~p~~G~I~~~g~~i   65 (200)
T d1sgwa_          28 NVVNFHGPNGIGKTTLLKTIST-----------YLKPLKGEIIYNGVPI   65 (200)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTT-----------SSCCSEEEEEETTEEG
T ss_pred             CEEEEECCCCChHHHHHHHHhc-----------ccccCCCEEEECCEeh
Confidence            3589999999999999999999           7789999999998644

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=97.99  E-value=2.6e-06  Score=74.98  Aligned_cols=40  Identities=25%  Similarity=0.278  Sum_probs=35.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKH   53 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~   53 (363)
                      --++|+|++|||||||++.|+|           ...|+.|.+.++|.++..
T Consensus        33 e~~~liGpsGaGKSTLl~~i~G-----------l~~p~sG~I~i~g~~i~~   72 (239)
T d1v43a3          33 EFLVLLGPSGCGKTTTLRMIAG-----------LEEPTEGRIYFGDRDVTY   72 (239)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT-----------SSCCSEEEEEETTEECTT
T ss_pred             CEEEEECCCCChHHHHHHHHHc-----------CCCCCCCEEEEcceeccc
Confidence            3589999999999999999999           678999999999976543

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=97.97  E-value=3.2e-06  Score=74.35  Aligned_cols=38  Identities=21%  Similarity=0.505  Sum_probs=33.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcccc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLK   52 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~   52 (363)
                      -++|+|++|||||||++.|+|           ...|+.|.+.++|..+.
T Consensus        26 ~~~liGpnGaGKSTll~~i~G-----------l~~p~~G~I~~~G~~i~   63 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAG-----------IVKPDRGEVRLNGADIT   63 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT-----------SSCCSEEEEEETTEECT
T ss_pred             EEEEECCCCChHHHHHHHHHc-----------CCCCCceEEEECCEECC
Confidence            478999999999999999999           77899999999996543

>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=97.96  E-value=1.6e-06  Score=75.84  Aligned_cols=23  Identities=35%  Similarity=0.453  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ...+++|++|||||||+|+|.+.
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-
T ss_pred             ceEEEECCCCccHHHHHHhhccH
Confidence            46789999999999999999985

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=97.96  E-value=2.5e-06  Score=75.28  Aligned_cols=37  Identities=24%  Similarity=0.323  Sum_probs=33.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      --+||+|+||||||||+++|+|           ...|..|.+.++|..
T Consensus        33 ei~~liGpnGaGKSTl~~~i~G-----------l~~p~~G~I~~~G~~   69 (240)
T d1ji0a_          33 QIVTLIGANGAGKTTTLSAIAG-----------LVRAQKGKIIFNGQD   69 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT-----------SSCCSEEEEEETTEE
T ss_pred             CEEEEECCCCCcHHHHHHHHhC-----------CCCCCccEEEecccc
Confidence            3589999999999999999999           677999999999954

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=97.92  E-value=3.2e-06  Score=73.99  Aligned_cols=37  Identities=22%  Similarity=0.325  Sum_probs=33.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      --+||+|++|||||||+++|+|           ...|+.|.+.++|.+
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~g-----------l~~p~sG~I~~~g~~   68 (230)
T d1l2ta_          32 EFVSIMGPSGSGKSTMLNIIGC-----------LDKPTEGEVYIDNIK   68 (230)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT-----------SSCCSEEEEEETTEE
T ss_pred             CEEEEECCCCCCcchhhHhccC-----------CCCCCcceeEECCEE
Confidence            3589999999999999999999           677999999999853

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=97.88  E-value=4.6e-06  Score=73.53  Aligned_cols=37  Identities=24%  Similarity=0.365  Sum_probs=33.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -++||+|++|||||||++.|+|           ...|+.|.+.++|..
T Consensus        30 e~vaIvG~sGsGKSTLl~ll~g-----------l~~p~~G~I~i~g~~   66 (241)
T d2pmka1          30 EVIGIVGRSGSGKSTLTKLIQR-----------FYIPENGQVLIDGHD   66 (241)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT-----------SSCCSEEEEEETTEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHh-----------cCCCCCCEEEECCEE
Confidence            5799999999999999999999           677899999999954

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.87  E-value=5.4e-06  Score=73.58  Aligned_cols=38  Identities=29%  Similarity=0.337  Sum_probs=34.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      -.+||+|++|||||||++.|+|           ...|+.|.+.++|..+
T Consensus        41 e~vaivG~sGsGKSTLl~li~g-----------l~~p~~G~I~i~g~~i   78 (251)
T d1jj7a_          41 EVTALVGPNGSGKSTVAALLQN-----------LYQPTGGQLLLDGKPL   78 (251)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT-----------SSCCSEEEEEETTEEG
T ss_pred             CEEEEECCCCCcHHHHHHHHhc-----------ccCCCcCEEEECCEec
Confidence            5799999999999999999999           7789999999999543

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=97.87  E-value=4.2e-06  Score=73.67  Aligned_cols=36  Identities=36%  Similarity=0.541  Sum_probs=32.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDK   49 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~   49 (363)
                      --+||+|+||||||||+++|+|           -..|+.|.+.+.|.
T Consensus        29 ei~glvG~nGaGKSTLl~~l~G-----------~~~p~~G~i~i~G~   64 (238)
T d1vpla_          29 EIFGLIGPNGAGKTTTLRIIST-----------LIKPSSGIVTVFGK   64 (238)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT-----------SSCCSEEEEEETTE
T ss_pred             CEEEEECCCCCCHHHHHHHHhc-----------CCCCCCCEEEECcE
Confidence            3589999999999999999999           67799999999885

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=97.87  E-value=3.8e-06  Score=73.44  Aligned_cols=36  Identities=19%  Similarity=0.293  Sum_probs=32.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -++|+|++|||||||+++|+|           ...|..|.+.++|..
T Consensus        28 ~~~liGpsGaGKSTll~~l~G-----------l~~p~sG~I~~~G~~   63 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAG-----------FHVPDSGRILLDGKD   63 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHT-----------SSCCSEEEEEETTEE
T ss_pred             EEEEECCCCCcHHHHHHHHhc-----------CcCCCCCEEEEccEe
Confidence            589999999999999999999           678999999999854

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=97.86  E-value=4.4e-06  Score=73.50  Aligned_cols=37  Identities=30%  Similarity=0.421  Sum_probs=33.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      --+||+|++|||||||+++|.|           ...|+.|.+.++|..
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~G-----------l~~p~sG~I~~~g~~   68 (240)
T d3dhwc1          32 QIYGVIGASGAGKSTLIRCVNL-----------LERPTEGSVLVDGQE   68 (240)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTT-----------SSCCSEEEEEETTEE
T ss_pred             CEEEEECCCCCCHHHHHHHHcC-----------CccccCCceEEcCeE
Confidence            3589999999999999999999           677899999999853

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=97.86  E-value=4.4e-06  Score=74.31  Aligned_cols=36  Identities=31%  Similarity=0.386  Sum_probs=32.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -+||+|+||||||||+++|+|           ...|..|.+.++|..
T Consensus        32 i~~liG~nGaGKSTLl~~i~G-----------l~~p~~G~I~~~g~~   67 (254)
T d1g6ha_          32 VTLIIGPNGSGKSTLINVITG-----------FLKADEGRVYFENKD   67 (254)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT-----------SSCCSEEEEEETTEE
T ss_pred             EEEEECCCCCcHHHHHHHHHC-----------CCcCCCcEEEECCEe
Confidence            489999999999999999999           677899999999953

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=97.86  E-value=5.4e-06  Score=73.63  Aligned_cols=37  Identities=24%  Similarity=0.327  Sum_probs=33.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -.+||+|++|||||||++.|+|           ...|+.|.+.++|..
T Consensus        42 e~iaivG~sGsGKSTLl~ll~g-----------l~~p~~G~I~i~g~~   78 (253)
T d3b60a1          42 KTVALVGRSGSGKSTIASLITR-----------FYDIDEGHILMDGHD   78 (253)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTT-----------TTCCSEEEEEETTEE
T ss_pred             CEEEEECCCCChHHHHHHHHhc-----------ccCCCccEEEECCcc
Confidence            4799999999999999999999           677899999999954

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.86  E-value=3.3e-06  Score=69.82  Aligned_cols=22  Identities=36%  Similarity=0.608  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |||+|+|+||||||||+++|++
T Consensus         1 ~ki~I~G~~G~GKSTLl~~i~~   22 (178)
T d1ye8a1           1 MKIIITGEPGVGKTTLVKKIVE   22 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCcHHHHHHHHHHh
Confidence            6999999999999999999998

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=97.86  E-value=5.3e-06  Score=72.97  Aligned_cols=37  Identities=30%  Similarity=0.323  Sum_probs=33.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -.+||+|++|||||||+++|+|           ...|+.|.+.++|..
T Consensus        30 e~~~liG~sGaGKSTll~~i~g-----------l~~p~sG~I~~~g~~   66 (240)
T d1g2912          30 EFMILLGPSGCGKTTTLRMIAG-----------LEEPSRGQIYIGDKL   66 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT-----------SSCCSEEEEEETTEE
T ss_pred             CEEEEECCCCChHHHHHHHHhc-----------CCCCCCCEEEECCEE
Confidence            3589999999999999999999           677999999999953

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=97.84  E-value=3.7e-06  Score=74.25  Aligned_cols=38  Identities=26%  Similarity=0.427  Sum_probs=34.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      -.+||+|++|||||||++.|+|           ...|..|.+.++|..+
T Consensus        29 e~vaivG~sGsGKSTLl~ll~g-----------l~~p~~G~I~i~g~~i   66 (242)
T d1mv5a_          29 SIIAFAGPSGGGKSTIFSLLER-----------FYQPTAGEITIDGQPI   66 (242)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTT-----------SSCCSBSCEEETTEES
T ss_pred             CEEEEECCCCCCHHHHHHHHHH-----------hhCCCCCEEEECCEEe
Confidence            4799999999999999999999           6778999999999654

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=97.73  E-value=1.3e-05  Score=70.55  Aligned_cols=37  Identities=22%  Similarity=0.408  Sum_probs=33.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -.+||+|++|||||||+++|.|           ...|+.|.+.++|..
T Consensus        32 e~~~iiG~sGsGKSTll~~i~g-----------l~~p~~G~I~~~g~~   68 (242)
T d1oxxk2          32 ERFGILGPSGAGKTTFMRIIAG-----------LDVPSTGELYFDDRL   68 (242)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHT-----------SSCCSEEEEEETTEE
T ss_pred             CEEEEECCCCCcHHHHHHHHHc-----------CcCCCCceEEECCEE
Confidence            4689999999999999999999           677999999999954

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.71  E-value=1.3e-05  Score=72.26  Aligned_cols=35  Identities=23%  Similarity=0.343  Sum_probs=32.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPD   48 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~   48 (363)
                      -.+||+|++|||||||+++|+|           ...|+.|.+.+++
T Consensus        63 e~vaivG~nGsGKSTLl~~i~G-----------l~~p~~G~I~~~g   97 (281)
T d1r0wa_          63 EMLAITGSTGSGKTSLLMLILG-----------ELEASEGIIKHSG   97 (281)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHT-----------SSCCSEEEEECCS
T ss_pred             CEEEEECCCCChHHHHHHHHhC-----------CCcCCCcEEEECC
Confidence            4799999999999999999999           6778999999887

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=97.70  E-value=1.2e-05  Score=71.56  Aligned_cols=37  Identities=27%  Similarity=0.348  Sum_probs=32.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      -.+||+|++|||||||+++|+|           ...|..|.+.++|..
T Consensus        29 Ei~~iiG~sGsGKSTLl~~i~G-----------l~~p~~G~I~~~G~~   65 (258)
T d1b0ua_          29 DVISIIGSSGSGKSTFLRCINF-----------LEKPSEGAIIVNGQN   65 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT-----------SSCCSEEEEEETTEE
T ss_pred             CEEEEECCCCCcHHHHHHHHHc-----------CccCCCCCEEECCEE
Confidence            3589999999999999999999           567889999999953

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=97.67  E-value=1e-05  Score=71.86  Aligned_cols=38  Identities=24%  Similarity=0.407  Sum_probs=34.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRL   51 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~   51 (363)
                      -++||+|++|||||||++.|+|           ...|..|.+.++|..+
T Consensus        45 e~vaivG~sGsGKSTLl~ll~g-----------l~~p~~G~I~i~g~~i   82 (255)
T d2hyda1          45 ETVAFVGMSGGGKSTLINLIPR-----------FYDVTSGQILIDGHNI   82 (255)
T ss_dssp             CEEEEECSTTSSHHHHHTTTTT-----------SSCCSEEEEEETTEEG
T ss_pred             CEEEEECCCCCcHHHHHHHHHh-----------cCCccccccccCCEEc
Confidence            5799999999999999999999           7779999999998543

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=97.52  E-value=2.1e-05  Score=68.74  Aligned_cols=36  Identities=25%  Similarity=0.354  Sum_probs=29.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCcc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKR   50 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~   50 (363)
                      --+||+|+||||||||+++|+|-            .|..|.+.+.|..
T Consensus        26 ei~~iiG~nGaGKSTLl~~l~Gl------------~~~~G~I~~~g~~   61 (231)
T d1l7vc_          26 EILHLVGPNGAGKSTLLARMAGM------------TSGKGSIQFAGQP   61 (231)
T ss_dssp             CEEECBCCTTSSHHHHHHHHHTS------------CCCSSEEEESSSB
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC------------CCCceEEEECCEE
Confidence            35899999999999999999982            1356888888854

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.38  E-value=3.7e-05  Score=63.01  Aligned_cols=24  Identities=29%  Similarity=0.427  Sum_probs=22.2

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |+.+|+|+|+||||||||.++|+.
T Consensus         6 ~~K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           6 FAKTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             TCEEEEEECCTTSHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999999986

>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=97.06  E-value=0.00033  Score=59.99  Aligned_cols=21  Identities=29%  Similarity=0.346  Sum_probs=14.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -|.++|++||||||.+-.|+.
T Consensus        14 vi~lvGptGvGKTTTiAKLA~   34 (211)
T d1j8yf2          14 VIMLVGVQGTGKATTAGKLAY   34 (211)
T ss_dssp             EEEEECSCCC----HHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478899999999999988874

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.03  E-value=0.00017  Score=58.27  Aligned_cols=24  Identities=25%  Similarity=0.292  Sum_probs=21.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |-.-++|+|++|||||||++.|..
T Consensus         1 m~Pvi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           1 MIPLLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHH
Confidence            445689999999999999999985

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.01  E-value=0.00014  Score=58.86  Aligned_cols=22  Identities=41%  Similarity=0.474  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++|+|+|+|||||||+.+.|..
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999975

>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=97.00  E-value=0.00027  Score=60.65  Aligned_cols=22  Identities=27%  Similarity=0.413  Sum_probs=19.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-|+++|++||||||.+-.|+.
T Consensus        12 ~vi~lvGptGvGKTTTiAKLAa   33 (213)
T d1vmaa2          12 FVIMVVGVNGTGKTTSCGKLAK   33 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999888874

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=96.97  E-value=0.0002  Score=58.23  Aligned_cols=23  Identities=17%  Similarity=0.443  Sum_probs=21.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +++|+|.|+|||||||+.+.|..
T Consensus         5 ~~~I~i~G~~GsGKTT~~~~La~   27 (174)
T d1y63a_           5 GINILITGTPGTGKTSMAEMIAA   27 (174)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHH
Confidence            48999999999999999999986

>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=96.95  E-value=0.00028  Score=60.23  Aligned_cols=22  Identities=27%  Similarity=0.400  Sum_probs=19.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-++++|++||||||.+-.|+.
T Consensus         7 ~vi~lvGptGvGKTTTiaKLA~   28 (207)
T d1okkd2           7 RVVLVVGVNGVGKTTTIAKLGR   28 (207)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4579999999999999988864

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.86  E-value=0.00029  Score=58.62  Aligned_cols=43  Identities=26%  Similarity=0.237  Sum_probs=29.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHcCCc--cccCCCceeecceeEE
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTKLKI--SAENYPFCTIEPNIGI   43 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~~~~--~~~~~p~~t~~~~~g~   43 (363)
                      |..-|+|+||+|||||||++.|.....  -....+.||..|..+.
T Consensus         2 m~k~ivl~Gpsg~GK~tl~~~L~~~~~~~~~~~v~~TTR~~R~~E   46 (178)
T d1kgda_           2 MRKTLVLLGAHGVGRRHIKNTLITKHPDRFAYPIPHTTRPPKKDE   46 (178)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHCTTTEECCCCEECSCC---C
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHhCCcCeeeccccccCCCCCcc
Confidence            667799999999999999999985421  1234566677666554

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=96.84  E-value=0.00026  Score=58.97  Aligned_cols=23  Identities=30%  Similarity=0.414  Sum_probs=21.6

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ||+|.|+|+|||||||+.+.|+.
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~   25 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKT   25 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            68999999999999999999975

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.84  E-value=0.00027  Score=58.06  Aligned_cols=22  Identities=32%  Similarity=0.542  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |+|.|+|+|||||||+.+.|+.
T Consensus         1 m~I~i~G~pGSGKsT~a~~La~   22 (182)
T d1zina1           1 MNLVLMGLPGAGKGTQAEKIVA   22 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999976

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=96.80  E-value=0.00027  Score=56.90  Aligned_cols=24  Identities=33%  Similarity=0.325  Sum_probs=21.7

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |..-|.|.|+|||||||+.+.|..
T Consensus         1 M~klI~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           1 MKKLYIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            666689999999999999999986

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=96.75  E-value=0.0016  Score=57.56  Aligned_cols=47  Identities=21%  Similarity=0.219  Sum_probs=35.4

Q ss_pred             ccccEEEeccccccCCCchHHHHHHHHHHhcCCCcEEEeeHHHHHHHhc
Q psy2401         198 TIKPIIFVANVKENGFKNNLLLDQLKIYAHNQNIPIIIICAKLEEEISD  246 (363)
Q Consensus       198 ~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~e~~i~e  246 (363)
                      ..||.|+|+||+|..  +.+..+...+++.+.+..++++|+.......+
T Consensus        41 ~~Kp~IlVlNK~DLv--~~~~~~~w~~~f~~~~~~~i~isa~~~~~~~~   87 (273)
T d1puja_          41 KNKPRIMLLNKADKA--DAAVTQQWKEHFENQGIRSLSINSVNGQGLNQ   87 (273)
T ss_dssp             SSSCEEEEEECGGGS--CHHHHHHHHHHHHTTTCCEEECCTTTCTTGGG
T ss_pred             cCCCeEEEEECccCC--chHHHHHHHHHHHhcCCccceeecccCCCccc
Confidence            589999999999963  55666667777777778899999876444433

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=96.73  E-value=0.0004  Score=55.18  Aligned_cols=24  Identities=33%  Similarity=0.321  Sum_probs=20.5

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |..=|.+.|+||||||||.+.|..
T Consensus         1 MkklIii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           1 MKKIILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            555578899999999999999864

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=96.72  E-value=0.00038  Score=57.53  Aligned_cols=22  Identities=32%  Similarity=0.588  Sum_probs=20.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |+|.|+|+|||||||+.+.|+.
T Consensus         1 M~I~i~G~pGSGKsT~a~~La~   22 (182)
T d1s3ga1           1 MNIVLMGLPGAGKGTQADRIVE   22 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999986

>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=96.70  E-value=0.00097  Score=56.78  Aligned_cols=20  Identities=35%  Similarity=0.379  Sum_probs=18.1

Q ss_pred             EEEEeCCCCcHHHHHHHHHc
Q psy2401           5 CGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.++|++||||||.+-.|+.
T Consensus        13 i~lvGp~GvGKTTTiaKLA~   32 (207)
T d1ls1a2          13 WFLVGLQGSGKTTTAAKLAL   32 (207)
T ss_dssp             EEEECCTTTTHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            68899999999999999974

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=96.69  E-value=0.00041  Score=56.12  Aligned_cols=24  Identities=25%  Similarity=0.400  Sum_probs=20.4

Q ss_pred             CCcEEEEE-eCCCCcHHHHHHHHHc
Q psy2401           1 MNLKCGLI-GLPNVGKSTLFNALTK   24 (363)
Q Consensus         1 m~~~i~lv-G~~g~GKSTL~n~Lt~   24 (363)
                      |+.||.++ |+|||||||+.++|..
T Consensus         1 M~~kiI~l~G~~GsGKsTva~~L~~   25 (178)
T d1qhxa_           1 MTTRMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            66665555 9999999999999986

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.69  E-value=0.00039  Score=58.23  Aligned_cols=23  Identities=30%  Similarity=0.466  Sum_probs=20.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |.-|.++|+|||||||+.++|+.
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            34589999999999999999985

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.68  E-value=0.0028  Score=56.24  Aligned_cols=23  Identities=39%  Similarity=0.525  Sum_probs=20.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCC
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLK   26 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~   26 (363)
                      -|+++|+.++|||||+|.|.+..
T Consensus        34 vvsi~G~~~sGKS~llN~l~~~~   56 (277)
T d1f5na2          34 VVAIVGLYRTGKSYLMNKLAGKK   56 (277)
T ss_dssp             EEEEEEBTTSSHHHHHHHHTTCS
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            37899999999999999999863

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.68  E-value=0.00036  Score=57.81  Aligned_cols=41  Identities=27%  Similarity=0.198  Sum_probs=28.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCcc-ccCCCceeecceeE
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKIS-AENYPFCTIEPNIG   42 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~-~~~~p~~t~~~~~g   42 (363)
                      |.=|+|+||+|||||||.+.|...... ....+.||..|..+
T Consensus         2 G~iivl~GpsG~GK~tl~~~L~~~~~~~~~~~~~tTR~~r~~   43 (182)
T d1znwa1           2 GRVVVLSGPSAVGKSTVVRCLRERIPNLHFSVSATTRAPRPG   43 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHSTTCEECCCEESSCCCTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhCCCCeEEEEeeccCCCcc
Confidence            455889999999999999999764211 22345666666544

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.63  E-value=0.00049  Score=56.57  Aligned_cols=22  Identities=27%  Similarity=0.428  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |+|.|+|+|||||||..+.|+.
T Consensus         1 m~I~i~G~pGSGKsT~~~~La~   22 (179)
T d1e4va1           1 MRIILLGAPVAGKGTQAQFIME   22 (179)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            6999999999999999999975

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.62  E-value=0.00052  Score=56.66  Aligned_cols=23  Identities=35%  Similarity=0.514  Sum_probs=21.6

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +|+|.|+|+|||||||+.+.|+.
T Consensus         2 ~mrIvl~G~pGSGKtT~a~~La~   24 (180)
T d1akya1           2 SIRMVLIGPPGAGKGTQAPNLQE   24 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            58999999999999999999986

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=96.61  E-value=0.00052  Score=57.01  Aligned_cols=23  Identities=35%  Similarity=0.531  Sum_probs=21.4

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +++|+|+|+|||||||+.+.|+.
T Consensus         3 ~~riil~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           3 GVRAVLLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHH
Confidence            58999999999999999999985

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.61  E-value=0.00051  Score=56.57  Aligned_cols=22  Identities=32%  Similarity=0.490  Sum_probs=20.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |+|.|+|+|||||||+.+.|+.
T Consensus         1 m~I~i~G~pGsGKsT~a~~La~   22 (181)
T d2cdna1           1 MRVLLLGPPGAGKGTQAVKLAE   22 (181)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            6999999999999999999986

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.59  E-value=0.00057  Score=55.51  Aligned_cols=21  Identities=24%  Similarity=0.417  Sum_probs=18.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -++|+|++|||||||++.|..
T Consensus         3 ii~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           3 VWQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            358999999999999999975

>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=96.54  E-value=0.00055  Score=58.53  Aligned_cols=21  Identities=29%  Similarity=0.490  Sum_probs=18.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -|+++|++||||||.+-.|+.
T Consensus        11 vi~lvGptGvGKTTTiAKLA~   31 (211)
T d2qy9a2          11 VILMVGVNGVGKTTTIGKLAR   31 (211)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999974

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.54  E-value=0.00059  Score=55.77  Aligned_cols=24  Identities=21%  Similarity=0.270  Sum_probs=22.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |...|.|+|+|||||||+-+.|+.
T Consensus         1 M~~~Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           1 MTEPIFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             CCCCEEEESCTTSSHHHHHHHHHH
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHH
Confidence            778899999999999999999975

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=96.49  E-value=0.00067  Score=56.72  Aligned_cols=22  Identities=36%  Similarity=0.696  Sum_probs=21.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |+|+|+|+|||||||+...|+.
T Consensus         7 mrIiliG~PGSGKtT~a~~La~   28 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRITK   28 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eeEEEECCCCCCHHHHHHHHHH
Confidence            8999999999999999999986

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.39  E-value=0.00056  Score=57.20  Aligned_cols=39  Identities=31%  Similarity=0.290  Sum_probs=28.6

Q ss_pred             EEEEeCCCCcHHHHHHHHHcCC--ccccCCCceeecceeEE
Q psy2401           5 CGLIGLPNVGKSTLFNALTKLK--ISAENYPFCTIEPNIGI   43 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt~~~--~~~~~~p~~t~~~~~g~   43 (363)
                      |+|+||+|||||||.+.|....  ......+.||..|..+.
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~~~~~~~~~~~~TTR~~r~~E   43 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQEHSSIFGFSVSHTTRNPRPGE   43 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTTTEEECCCEECSCCCTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCceeEEEEEeccCCCCCC
Confidence            7899999999999999997642  12345566776666553

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.37  E-value=0.00052  Score=57.16  Aligned_cols=39  Identities=26%  Similarity=0.175  Sum_probs=27.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcCCc--cccCCCceeecceeE
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKLKI--SAENYPFCTIEPNIG   42 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~~~--~~~~~p~~t~~~~~g   42 (363)
                      -|+|+||+|||||||.+.|.....  .....+.||..|..|
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~~~~~~~~~~~~TTR~~r~~   43 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAEYPDSFGFSVSSTTRTPRAG   43 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHCTTTEEECCEEECSCCCTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCcceeEEEeeccCCCCCC
Confidence            389999999999999999976422  122334556655544

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.37  E-value=0.00081  Score=54.45  Aligned_cols=22  Identities=36%  Similarity=0.507  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.|.|.|+||+|||||+..+..
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~   23 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHH
Confidence            5689999999999999999985

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=96.35  E-value=0.00084  Score=53.18  Aligned_cols=22  Identities=32%  Similarity=0.306  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..|.|+|+|||||||+-+.|..
T Consensus         3 k~I~l~G~~GsGKSTvak~La~   24 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQ   24 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999986

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.34  E-value=0.00066  Score=60.18  Aligned_cols=76  Identities=22%  Similarity=0.230  Sum_probs=45.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      -++.|||+||||||+++..|...-. ..+.|...          .+                 ..+.-+|+..+..+..-
T Consensus        40 ~n~lLVG~~GvGKTalv~~la~ri~-~~~vp~~l----------~~-----------------~~i~~l~~~~liag~~~   91 (268)
T d1r6bx2          40 NNPLLVGESGVGKTAIAEGLAWRIV-QGDVPEVM----------AD-----------------CTIYSLDIGSLLAGTKY   91 (268)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHH-HTCSCGGG----------TT-----------------CEEEECCCC---CCCCC
T ss_pred             CCcEEECCCCCcHHHHHHHHHHHHH-hCCccccc----------cc-----------------ceeEEeeechHhccCcc
Confidence            3689999999999999999986311 11111111          11                 34566677777655433


Q ss_pred             ---ccchhhHHHhhccccCEEEEEEec
Q psy2401          83 ---GEGLGNKFLAHIRETNIVIHVIRC  106 (363)
Q Consensus        83 ---~~~l~~~~l~~~~~aD~il~Vvda  106 (363)
                         ++......+..+...+.+++++|-
T Consensus        92 ~g~~e~r~~~i~~~~~~~~~iIlfiDe  118 (268)
T d1r6bx2          92 RGDFEKRFKALLKQLEQDTNSILFIDE  118 (268)
T ss_dssp             SSCHHHHHHHHHHHHSSSSCEEEEETT
T ss_pred             chhHHHHHHHHHHHhhccCCceEEecc
Confidence               233334556666777878888885

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.32  E-value=0.00092  Score=55.50  Aligned_cols=23  Identities=26%  Similarity=0.356  Sum_probs=21.3

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |+.|.|+|+|||||||..+.|+.
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            57899999999999999999986

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=96.32  E-value=0.0012  Score=53.25  Aligned_cols=25  Identities=40%  Similarity=0.472  Sum_probs=20.7

Q ss_pred             CCcE-EEEEeCCCCcHHHHHHHHHcC
Q psy2401           1 MNLK-CGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         1 m~~~-i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      |+-+ |.|.|+|||||||+.+.|...
T Consensus         2 ~~g~iI~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           2 LGGNILLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             CTTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4444 678899999999999999863

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.31  E-value=0.00078  Score=57.21  Aligned_cols=42  Identities=24%  Similarity=0.202  Sum_probs=30.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCc--c-ccCCCceeecceeEE
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKI--S-AENYPFCTIEPNIGI   43 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~--~-~~~~p~~t~~~~~g~   43 (363)
                      |+=+.|+||+|||||||.+.|.....  . ....+.||..|..|.
T Consensus         2 G~livi~GPSG~GK~tl~~~L~~~~p~~~~~~~is~TTR~~R~~E   46 (205)
T d1s96a_           2 GTLYIVSAPSGAGKSSLIQALLKTQPLYDTQVSVSHTTRQPRPGE   46 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSCTTTEEECCCEECSCCCTTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhCCccCceEEEEEeccCCCccc
Confidence            45588999999999999999986422  1 234567787776654

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=96.18  E-value=0.0012  Score=54.72  Aligned_cols=22  Identities=23%  Similarity=0.291  Sum_probs=20.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..|.|+|+|||||||+.+.|+.
T Consensus         7 ~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           7 NVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999986

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.17  E-value=0.0014  Score=53.22  Aligned_cols=22  Identities=23%  Similarity=0.273  Sum_probs=19.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-|+|.|+|||||||+.+.|..
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~   23 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMD   23 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4588999999999999999974

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=96.16  E-value=0.0014  Score=53.51  Aligned_cols=22  Identities=41%  Similarity=0.821  Sum_probs=18.6

Q ss_pred             cEEE-EEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCG-LIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~-lvG~~g~GKSTL~n~Lt~   24 (363)
                      |||. |.|.|||||||+.+.|..
T Consensus         1 mkiivi~G~~GsGKTT~~~~La~   23 (194)
T d1nksa_           1 MKIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            4664 569999999999999974

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.16  E-value=0.0013  Score=53.10  Aligned_cols=23  Identities=30%  Similarity=0.335  Sum_probs=20.4

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |+-|.|+|+|||||||+-++|..
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45688999999999999999985

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.15  E-value=0.00064  Score=57.30  Aligned_cols=76  Identities=26%  Similarity=0.282  Sum_probs=44.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecceeEEEEeCCccccccccccccccccceeEEEEeeecccCCCCc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPNIGIIEVPDKRLKHLNNIVKTKKIFPAIIKLVDIAGLVSGASK   82 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~~g~v~~~~~~~~~l~~~~~~~~~~~~~i~lvDtpGl~~~~~~   82 (363)
                      -++.|||+||+|||+++..|...-.. ...|..          ..+                 ..+.-+|+..+..+..-
T Consensus        44 ~n~lLvG~pGVGKTalv~~LA~ri~~-~~vp~~----------L~~-----------------~~i~~ld~~~LiAg~~~   95 (195)
T d1jbka_          44 NNPVLIGEPGVGKTAIVEGLAQRIIN-GEVPEG----------LKG-----------------RRVLALDMGALVAGAKY   95 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHH-TCSCGG----------GTT-----------------CEEEEECHHHHHTTTCS
T ss_pred             CCeEEEecCCcccHHHHHHHHHHHHh-CCCCHH----------HcC-----------------ceEEEeeHHHHhccCCc
Confidence            36899999999999999999862110 111111          111                 45777888888776553


Q ss_pred             ---ccchhhHHHhhcccc-CEEEEEEec
Q psy2401          83 ---GEGLGNKFLAHIRET-NIVIHVIRC  106 (363)
Q Consensus        83 ---~~~l~~~~l~~~~~a-D~il~Vvda  106 (363)
                         ++......+..+... .-+|+++|-
T Consensus        96 rG~~E~rl~~il~e~~~~~~~iILfIDe  123 (195)
T d1jbka_          96 RGEFEERLKGVLNDLAKQEGNVILFIDE  123 (195)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTTEEEEEET
T ss_pred             cHHHHHHHHHHHHHHhcCCCcEEEEcch
Confidence               222233445555433 245566664

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=96.11  E-value=0.0013  Score=53.23  Aligned_cols=22  Identities=45%  Similarity=0.495  Sum_probs=20.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .+|.|+|+|||||||+-+.|+.
T Consensus         1 k~I~liG~~GsGKsTi~k~La~   22 (161)
T d1viaa_           1 KNIVFIGFMGSGKSTLARALAK   22 (161)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999999986

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.07  E-value=0.0013  Score=53.29  Aligned_cols=22  Identities=50%  Similarity=0.643  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .+|.|+|+|||||||+-+.|+.
T Consensus         2 p~IvliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999985

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.03  E-value=0.00094  Score=54.99  Aligned_cols=23  Identities=35%  Similarity=0.407  Sum_probs=20.6

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|.|+|+|||||||+-+.|..
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            56788999999999999999975

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=95.95  E-value=0.0019  Score=53.04  Aligned_cols=22  Identities=45%  Similarity=0.649  Sum_probs=19.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +-|||-|++|||||||.+.|..
T Consensus        23 ~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          23 LVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999999974

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.79  E-value=0.0025  Score=51.16  Aligned_cols=21  Identities=24%  Similarity=0.395  Sum_probs=19.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -+.|+|+|||||||+.+.|..
T Consensus         8 iivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           8 IYVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999986

>d1tkea1 d.15.10.1 (A:1-62) Threonyl-tRNA synthetase (ThrRS), N-terminal 'additional' domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: TGS-like
family: TGS domain
domain: Threonyl-tRNA synthetase (ThrRS), N-terminal 'additional' domain
species: Escherichia coli [TaxId: 562]

Probab=95.63  E-value=0.0033  Score=42.60  Aligned_cols=49  Identities=14%  Similarity=0.170  Sum_probs=41.4

Q ss_pred             EeecCCCCHHHhhhhhhcchhcccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEEEEE
Q psy2401         293 WTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNFL  360 (363)
Q Consensus       293 w~~~~g~ta~~~A~~IHsD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~~~  360 (363)
                      -.++.|+|+.|+|..||+++.+..+.|+|                 .|++  ...+|.+++|+.|+|-
T Consensus        12 ~~~~~g~T~~diA~~I~~~l~k~avaa~v-----------------ng~l--~dL~~~l~~d~~veii   60 (62)
T d1tkea1          12 RHYDHAVSPMDVALDIGPGLAKACIAGRV-----------------NGEL--VDACDLIENDAQLSII   60 (62)
T ss_dssp             EECSSCBCHHHHHHHHCHHHHHHCCEEEE-----------------TTEE--EETTCCBCSCEEEEEE
T ss_pred             EEcCCCCCHHHHHHHHCchhhheEEEEEE-----------------CCEE--eCCCcCcCCCCEEEEE
Confidence            34899999999999999999999999983                 2543  3689999999999874

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.58  E-value=0.0027  Score=52.06  Aligned_cols=22  Identities=27%  Similarity=0.366  Sum_probs=19.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .=|.++|+|||||||+.+.+..
T Consensus        15 ~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          15 EVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTG
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4588999999999999999865

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.53  E-value=0.003  Score=52.35  Aligned_cols=21  Identities=33%  Similarity=0.396  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -|.|+|+|||||||+...|+.
T Consensus        10 iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_          10 VIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999986

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=95.43  E-value=0.0043  Score=51.39  Aligned_cols=22  Identities=23%  Similarity=0.285  Sum_probs=19.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-|.|+|+|||||||+.+.|+.
T Consensus         9 ~iI~l~G~pGSGKsT~a~~La~   30 (194)
T d3adka_           9 KIIFVVGGPGSGKGTQCEKIVQ   30 (194)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3478999999999999999986

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.42  E-value=0.0037  Score=52.53  Aligned_cols=23  Identities=22%  Similarity=0.343  Sum_probs=20.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |+-|||-|++|||||||.+.|..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~   24 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQ   24 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            56799999999999999999975

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=95.40  E-value=0.0043  Score=56.25  Aligned_cols=22  Identities=18%  Similarity=0.255  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .+|.+.|++|||||||+|+|.+
T Consensus       167 ~nili~G~tgSGKTT~l~al~~  188 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIME  188 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGG
T ss_pred             CCEEEEeeccccchHHHHHHhh
Confidence            4689999999999999999997

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=95.36  E-value=0.005  Score=51.65  Aligned_cols=25  Identities=40%  Similarity=0.502  Sum_probs=22.5

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      |.+-|||.|.+||||||+.+.|...
T Consensus         1 M~~iIgITG~igSGKStv~~~l~~~   25 (205)
T d1jjva_           1 MTYIVGLTGGIGSGKTTIANLFTDL   25 (205)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHTT
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHC
Confidence            8889999999999999999988743

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=95.33  E-value=0.0034  Score=54.32  Aligned_cols=21  Identities=33%  Similarity=0.392  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -|.|.|+||||||||.++|++
T Consensus        34 ~ilL~GpPGtGKT~la~~la~   54 (273)
T d1gvnb_          34 AFLLGGQPGSGKTSLRSAIFE   54 (273)
T ss_dssp             EEEEECCTTSCTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999987

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=95.16  E-value=0.0051  Score=50.67  Aligned_cols=23  Identities=30%  Similarity=0.354  Sum_probs=20.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ||-|||.|.+||||||+.+.|..
T Consensus         3 p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            57899999999999999999865

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=95.15  E-value=0.0057  Score=51.40  Aligned_cols=22  Identities=27%  Similarity=0.422  Sum_probs=20.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.|+|-|||||||||+...|+.
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5788889999999999999986

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=95.15  E-value=0.0015  Score=53.45  Aligned_cols=18  Identities=39%  Similarity=0.405  Sum_probs=16.5

Q ss_pred             EEEeCCCCcHHHHHHHHH
Q psy2401           6 GLIGLPNVGKSTLFNALT   23 (363)
Q Consensus         6 ~lvG~~g~GKSTL~n~Lt   23 (363)
                      +|+|+|||||||++.||.
T Consensus        28 vi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          28 TLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHSCCSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            468999999999999996

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=95.10  E-value=0.0062  Score=50.89  Aligned_cols=24  Identities=25%  Similarity=0.333  Sum_probs=21.2

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |..-|+|.|||||||||+-..|..
T Consensus         2 ~~piI~I~GppGSGKgT~ak~La~   25 (225)
T d1ckea_           2 IAPVITIDGPSGAGKGTLCKAMAE   25 (225)
T ss_dssp             CSCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            456688999999999999999986

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=94.91  E-value=0.0035  Score=54.93  Aligned_cols=22  Identities=27%  Similarity=0.422  Sum_probs=20.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..+.|.||||+|||++.++|+.
T Consensus        46 ~~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          46 KGVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEeeCCCCCCccHHHHHHHH
Confidence            4588999999999999999986

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=94.86  E-value=0.0035  Score=58.28  Aligned_cols=21  Identities=38%  Similarity=0.634  Sum_probs=18.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++.|||+||||||+++..|..
T Consensus        45 n~llvG~~GvGKtaiv~~la~   65 (387)
T d1qvra2          45 NPVLIGEPGVGKTAIVEGLAQ   65 (387)
T ss_dssp             CCEEEECTTSCHHHHHHHHHH
T ss_pred             CCeEECCCCCCHHHHHHHHHH
Confidence            478999999999999988875

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=94.83  E-value=0.0065  Score=51.84  Aligned_cols=22  Identities=32%  Similarity=0.483  Sum_probs=20.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..+.|.||||+||||+.+++++
T Consensus        36 ~~~Ll~GPpG~GKTtla~~la~   57 (239)
T d1ixsb2          36 EHLLLFGPPGLGKTTLAHVIAH   57 (239)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3578999999999999999986

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=94.79  E-value=0.0044  Score=54.86  Aligned_cols=20  Identities=25%  Similarity=0.484  Sum_probs=17.8

Q ss_pred             EEEEeCCCCcHHHHHHHHHc
Q psy2401           5 CGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .+|+|+|||||||++.||.-
T Consensus        27 nvlvG~NgsGKS~iL~Ai~~   46 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAIKW   46 (308)
T ss_dssp             EEEECCTTTCSTHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            47999999999999999953

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=94.69  E-value=0.0085  Score=50.34  Aligned_cols=25  Identities=36%  Similarity=0.417  Sum_probs=21.4

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           1 MNLKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         1 m~~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      |.+-|||.|.+||||||+.+.|...
T Consensus         2 mk~iIgitG~igSGKStv~~~l~~~   26 (208)
T d1vhta_           2 LRYIVALTGGIGSGKSTVANAFADL   26 (208)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CCEEEEEECCCcCCHHHHHHHHHHC
Confidence            5456899999999999999998754

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=94.65  E-value=0.0085  Score=56.61  Aligned_cols=35  Identities=31%  Similarity=0.458  Sum_probs=28.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHcCCccccCCCceeecce
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTKLKISAENYPFCTIEPN   40 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~~~~~~~~~p~~t~~~~   40 (363)
                      +.+|.+|||||||||-|.++|++    ..+.||...+.+
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk----~l~VPFv~~daT   83 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAK----LANAPFIKVEAT   83 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH----HTTCCEEEEEGG
T ss_pred             cccEEEECCCCCCHHHHHHHHHH----HhCCCEEEeecc
Confidence            45799999999999999999987    346677665544

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=94.51  E-value=0.004  Score=54.23  Aligned_cols=22  Identities=36%  Similarity=0.484  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-+.+.||||+|||+|.++|.+
T Consensus        43 ~giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_          43 KGVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHH
Confidence            4588999999999999999997

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=94.29  E-value=0.01  Score=53.22  Aligned_cols=22  Identities=32%  Similarity=0.416  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..+.|+||||||||+|.++|++
T Consensus        50 ~~iLl~GPpG~GKT~lAkalA~   71 (309)
T d1ofha_          50 KNILMIGPTGVGKTEIARRLAK   71 (309)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHhh
Confidence            4588999999999999999997

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=94.26  E-value=0.0095  Score=50.68  Aligned_cols=21  Identities=33%  Similarity=0.523  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .+.|.||||+||||+.++|..
T Consensus        37 ~~L~~GPpGtGKT~lA~~la~   57 (238)
T d1in4a2          37 HVLLAGPPGLGKTTLAHIIAS   57 (238)
T ss_dssp             CEEEESSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHh
Confidence            478999999999999999986

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.09  E-value=0.013  Score=50.07  Aligned_cols=23  Identities=26%  Similarity=0.356  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ..+.|.||||+||||+..+|++.
T Consensus        53 ~~lll~GPpG~GKTt~a~~la~~   75 (253)
T d1sxja2          53 RAAMLYGPPGIGKTTAAHLVAQE   75 (253)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            35889999999999999999973

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=94.05  E-value=0.0093  Score=49.08  Aligned_cols=23  Identities=26%  Similarity=0.309  Sum_probs=20.7

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++-|+|-|..||||||+++.|..
T Consensus         9 p~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           9 PFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             CEEEEEECSTTSCHHHHHHTTGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35699999999999999999986

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=93.96  E-value=0.015  Score=49.64  Aligned_cols=22  Identities=27%  Similarity=0.495  Sum_probs=20.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..+.|.|+||+||||+.+++..
T Consensus        44 ~~lll~GppGtGKT~l~~~l~~   65 (276)
T d1fnna2          44 PRATLLGRPGTGKTVTLRKLWE   65 (276)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHH
Confidence            4688999999999999999986

>d1nyra2 d.15.10.1 (A:4-62) Threonyl-tRNA synthetase (ThrRS), N-terminal 'additional' domain {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: TGS-like
family: TGS domain
domain: Threonyl-tRNA synthetase (ThrRS), N-terminal 'additional' domain
species: Staphylococcus aureus [TaxId: 1280]

Probab=93.91  E-value=0.0087  Score=39.98  Aligned_cols=48  Identities=17%  Similarity=0.191  Sum_probs=39.7

Q ss_pred             EeecCCCCHHHhhhhhhcchhcccEEEEEecccccccccChhhHhhcCceeecCCCeeeeCCCEEEE
Q psy2401         293 WTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFLLYKGEQGCKNAGKIRSEGKKYLVEDGDILNF  359 (363)
Q Consensus       293 w~~~~g~ta~~~A~~IHsD~~~gfi~A~v~~~~d~~~~~~~~~~k~~g~~r~~gk~y~v~dgdii~~  359 (363)
                      -.+++|+|+.|+|..||+.+.+..+.|+|                 .|+  +..-+|.+++|+-|+|
T Consensus        11 ~~~~~g~T~~diA~~I~~~l~k~avaa~v-----------------Ng~--~~dL~~~l~~d~~vei   58 (59)
T d1nyra2          11 KAFDKGTTTEDIAQSISPGLRKKAVAGKF-----------------NGQ--LVDLTKPLETDGSIEI   58 (59)
T ss_dssp             CBCCTTCCHHHHHHTTCHHHHHHCCEEEE-----------------TTE--EECTTSCCCSCBCCCE
T ss_pred             EEcCCCCCHHHHHHHHChhhhheEEEEEE-----------------CCE--EccCCcCcCCCCEEEE
Confidence            35789999999999999999999999994                 244  2368889999987765

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=93.82  E-value=0.014  Score=50.59  Aligned_cols=21  Identities=29%  Similarity=0.423  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .|.|.||||+|||++.++|++
T Consensus        42 ~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_          42 SVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHhh
Confidence            488999999999999999986

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.80  E-value=0.013  Score=53.84  Aligned_cols=19  Identities=32%  Similarity=0.620  Sum_probs=17.3

Q ss_pred             EEEEeCCCCcHHHHHHHHH
Q psy2401           5 CGLIGLPNVGKSTLFNALT   23 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt   23 (363)
                      .+|+|+|||||||++.||+
T Consensus        28 ~~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          28 TSIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            4799999999999999995

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=93.45  E-value=0.021  Score=47.22  Aligned_cols=22  Identities=27%  Similarity=0.448  Sum_probs=19.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |-|+|-|..||||||+++.|..
T Consensus         1 mlI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           1 MLIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999975

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=93.44  E-value=0.017  Score=48.83  Aligned_cols=21  Identities=38%  Similarity=0.455  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .+.|.||||+||||+.+++..
T Consensus        47 ~lll~Gp~G~GKTtla~~iak   67 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALALAR   67 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            578999999999999999986

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=93.44  E-value=0.02  Score=48.14  Aligned_cols=22  Identities=45%  Similarity=0.465  Sum_probs=19.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +-|-|.|.||||||||.+.|..
T Consensus        25 ~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          25 LTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4588999999999999999974

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.99  E-value=0.025  Score=49.06  Aligned_cols=22  Identities=27%  Similarity=0.353  Sum_probs=20.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-+-|.||||+|||+|.+++++
T Consensus        39 ~giLL~GppGtGKT~l~~ala~   60 (258)
T d1e32a2          39 RGILLYGPPGTGKTLIARAVAN   60 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceeEEecCCCCCchHHHHHHHH
Confidence            4588999999999999999997

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=92.92  E-value=0.026  Score=50.54  Aligned_cols=23  Identities=30%  Similarity=0.277  Sum_probs=20.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++-|||.|++||||||+.+.|..
T Consensus        80 P~iIGIaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          80 PYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEEeCCCCCCCcHHHHHHHH
Confidence            35699999999999999988864

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=92.86  E-value=0.026  Score=48.15  Aligned_cols=22  Identities=23%  Similarity=0.280  Sum_probs=19.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-+.|.|++|+|||||++.++.
T Consensus        30 ~~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          30 PITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEEcCCCCcHHHHHHHHHH
Confidence            3577899999999999999875

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=92.81  E-value=0.015  Score=50.08  Aligned_cols=20  Identities=40%  Similarity=0.473  Sum_probs=17.2

Q ss_pred             EEEeCCCCcHHHHHHHHHcC
Q psy2401           6 GLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         6 ~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      .+.|+||+||||+++++...
T Consensus        50 ~l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          50 GSIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             ECTTCCSSSHHHHHHHHHHH
T ss_pred             EeECCCCCCHHHHHHHHHHH
Confidence            34599999999999999863

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.61  E-value=0.026  Score=47.47  Aligned_cols=21  Identities=38%  Similarity=0.485  Sum_probs=19.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .+.|.||||+||||+.++++.
T Consensus        35 ~lll~Gp~G~GKTtl~~~i~~   55 (237)
T d1sxjd2          35 HMLFYGPPGTGKTSTILALTK   55 (237)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCChHHHHHHHHH
Confidence            478999999999999999986

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.45  E-value=0.033  Score=49.23  Aligned_cols=23  Identities=22%  Similarity=0.026  Sum_probs=19.6

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++=|||-|.+|||||||...|..
T Consensus        27 P~iIGi~G~qGSGKSTl~~~l~~   49 (286)
T d1odfa_          27 PLFIFFSGPQGSGKSFTSIQIYN   49 (286)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEeECCCCCCHHHHHHHHHH
Confidence            35689999999999999988753

>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=92.30  E-value=0.13  Score=43.65  Aligned_cols=50  Identities=10%  Similarity=0.040  Sum_probs=33.9

Q ss_pred             ccccEEEeccccccCCCchHHHHHHH---HHHhcCCCcEEEeeHHHHHHHhcCC
Q psy2401         198 TIKPIIFVANVKENGFKNNLLLDQLK---IYAHNQNIPIIIICAKLEEEISDLN  248 (363)
Q Consensus       198 ~~kp~i~v~Nk~d~~~~~~~~~~~i~---~~~~~~~~~~i~~sa~~e~~i~el~  248 (363)
                      ...|.++++||+|+. .+.+..+.++   +.....|++++.+|++....+.+|.
T Consensus        40 ~~i~pvIvlnK~DL~-~~~~~~~~~~~~~~~y~~~g~~v~~~Sa~~~~gl~~L~   92 (231)
T d1t9ha2          40 NDIQPIICITKMDLI-EDQDTEDTIQAYAEDYRNIGYDVYLTSSKDQDSLADII   92 (231)
T ss_dssp             TTCEEEEEEECGGGC-CCHHHHHHHHHHHHHHHHHTCCEEECCHHHHTTCTTTG
T ss_pred             cCCCEEEEEeccccc-ccHHHHHHHHHHHHHHhhccccceeeecCChhHHHHHH
Confidence            456778899999973 2333333343   3334458999999999888777764

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.26  E-value=0.032  Score=48.61  Aligned_cols=22  Identities=27%  Similarity=0.381  Sum_probs=20.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ..|-|.|+||+|||+|.+++++
T Consensus        42 ~giLL~Gp~GtGKT~l~~ala~   63 (265)
T d1r7ra3          42 KGVLFYGPPGCGKTLLAKAIAN   63 (265)
T ss_dssp             CEEEEBCCTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCcchhHHHHHHH
Confidence            4588999999999999999997

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.89  E-value=0.025  Score=47.69  Aligned_cols=22  Identities=36%  Similarity=0.403  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.|+|-|+.||||||+++.|..
T Consensus         3 k~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           3 KKISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGG
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999999986

>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=91.87  E-value=0.79  Score=38.44  Aligned_cols=71  Identities=21%  Similarity=0.199  Sum_probs=42.1

Q ss_pred             ccccEEEeccccccCCCchHHHHHHHHHHh--cCCCcEEEeeHHHHHHHhcCCHHHHHHHHhh-----cCCCchhHHHHH
Q psy2401         198 TIKPIIFVANVKENGFKNNLLLDQLKIYAH--NQNIPIIIICAKLEEEISDLNNIDKKFFLDN-----LGLKETKLNDLI  270 (363)
Q Consensus       198 ~~kp~i~v~Nk~d~~~~~~~~~~~i~~~~~--~~~~~~i~~sa~~e~~i~el~~~~~~~~l~~-----~~l~~~~l~~l~  270 (363)
                      ...|.++++||+|+.  .++..+.+.++..  ..+++++.+|++.++.+.+|     .++|++     .|.++-|--.++
T Consensus        40 ~~i~pvIvlnK~DL~--~~~~~~~~~~~~~~~~~~~~v~~vSa~~~~g~~~L-----~~~l~~kt~~~~G~SGVGKSTLi  112 (225)
T d1u0la2          40 NELETVMVINKMDLY--DEDDLRKVRELEEIYSGLYPIVKTSAKTGMGIEEL-----KEYLKGKISTMAGLSGVGKSSLL  112 (225)
T ss_dssp             TTCEEEEEECCGGGC--CHHHHHHHHHHHHHHTTTSCEEECCTTTCTTHHHH-----HHHHSSSEEEEECSTTSSHHHHH
T ss_pred             cCCCEEEEEeCcccC--CHHHHHHHHHhhcccccceeEEEeccccchhHhhH-----HHHhcCCeEEEECCCCCCHHHHH
Confidence            466778899999963  3344444444433  33578999999866554333     344442     233455556667


Q ss_pred             HHHHH
Q psy2401         271 RASFS  275 (363)
Q Consensus       271 ~~~~~  275 (363)
                      +++.-
T Consensus       113 N~L~~  117 (225)
T d1u0la2         113 NAINP  117 (225)
T ss_dssp             HHHST
T ss_pred             Hhhcc
Confidence            76653

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.77  E-value=0.042  Score=46.10  Aligned_cols=21  Identities=29%  Similarity=0.562  Sum_probs=18.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .+.|.||||+||||+.+.+..
T Consensus        38 ~~ll~Gp~G~GKTt~a~~la~   58 (224)
T d1sxjb2          38 HMIISGMPGIGKTTSVHCLAH   58 (224)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCchhhHHHHHH
Confidence            477899999999999999875

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.72  E-value=0.035  Score=47.13  Aligned_cols=21  Identities=33%  Similarity=0.245  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .+.|.|+||+||||+..+++.
T Consensus        35 ~lll~Gp~G~GKTt~~~~la~   55 (252)
T d1sxje2          35 HLLLYGPNGTGKKTRCMALLE   55 (252)
T ss_dssp             CEEEECSTTSSHHHHHHTHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999986

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.49  E-value=0.042  Score=46.02  Aligned_cols=21  Identities=29%  Similarity=0.450  Sum_probs=19.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .+-|.|+||+||||+..+++.
T Consensus        37 ~lLl~Gp~G~GKttl~~~la~   57 (227)
T d1sxjc2          37 HLLFYGPPGTGKTSTIVALAR   57 (227)
T ss_dssp             CEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHH
Confidence            477899999999999999986

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=91.45  E-value=0.059  Score=44.67  Aligned_cols=23  Identities=26%  Similarity=0.281  Sum_probs=19.7

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |.=|+|-|..||||||+.+.|..
T Consensus         2 gkfIviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           2 SKYIVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            34588889999999999999875

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=91.18  E-value=0.054  Score=45.78  Aligned_cols=22  Identities=23%  Similarity=0.157  Sum_probs=19.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .-|||.|..||||||+.+.|..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999999965

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=91.08  E-value=0.047  Score=49.87  Aligned_cols=21  Identities=33%  Similarity=0.268  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -+.+.||||+||||+.++|++
T Consensus       156 ~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         156 YWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999986

>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=91.04  E-value=0.046  Score=46.24  Aligned_cols=21  Identities=29%  Similarity=0.384  Sum_probs=18.4

Q ss_pred             EEEEeCCCCcHHHHHHHHHcC
Q psy2401           5 CGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      +.|-|+-|||||||+|.|...
T Consensus         6 ~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           6 TLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEESSSSSCHHHHHHHHHS
T ss_pred             EEEeeCCCCCHHHHHHHHHhc
Confidence            567799999999999999864

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.96  E-value=0.058  Score=43.69  Aligned_cols=22  Identities=18%  Similarity=0.265  Sum_probs=18.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      -+.|.|+||+|||||...++..
T Consensus        25 v~~i~G~~GsGKT~l~l~la~~   46 (242)
T d1n0wa_          25 ITEMFGEFRTGKTQICHTLAVT   46 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            4678999999999999888753

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.64  E-value=0.065  Score=44.75  Aligned_cols=22  Identities=32%  Similarity=0.258  Sum_probs=18.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +=|+|-|+.||||||+.+.|..
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~   25 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVE   25 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3478889999999999888865

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=90.03  E-value=0.069  Score=44.81  Aligned_cols=20  Identities=25%  Similarity=0.293  Sum_probs=18.7

Q ss_pred             EEEEeCCCCcHHHHHHHHHc
Q psy2401           5 CGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +-|.|++|+|||.|+++++.
T Consensus        39 l~l~G~~G~GKTHLl~A~~~   58 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGN   58 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            67899999999999999987

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=89.72  E-value=0.04  Score=48.65  Aligned_cols=21  Identities=19%  Similarity=0.303  Sum_probs=16.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -|||.|.+||||||+.++|..
T Consensus         6 IIgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            489999999999999998864

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=89.60  E-value=0.059  Score=44.94  Aligned_cols=21  Identities=24%  Similarity=0.153  Sum_probs=19.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -+.+.|||++|||++.++|..
T Consensus        55 ~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          55 CLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             EEEEESCGGGCHHHHHHHHHH
T ss_pred             EEEEECCCCccHHHHHHHHHH
Confidence            378999999999999999986

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.60  E-value=0.096  Score=44.02  Aligned_cols=23  Identities=39%  Similarity=0.416  Sum_probs=20.2

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |.-|+|=|.-||||||+++.|..
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHH
Confidence            34588899999999999999985

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=89.41  E-value=0.043  Score=49.09  Aligned_cols=21  Identities=33%  Similarity=0.314  Sum_probs=19.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .+.|+|+||+|||||.+++.+
T Consensus        30 ~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_          30 GVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CEEEECCGGGCTTHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHH
Confidence            478999999999999999974

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=88.10  E-value=0.12  Score=47.72  Aligned_cols=21  Identities=29%  Similarity=0.140  Sum_probs=19.0

Q ss_pred             EEEEeCCCCcHHHHHHHHHcC
Q psy2401           5 CGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      |.+.|++||||||++.++...
T Consensus       161 iLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         161 ILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             EEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEcCCCCCccHHHHHHhhh
Confidence            778899999999999999873

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.10  E-value=0.12  Score=42.92  Aligned_cols=22  Identities=32%  Similarity=0.312  Sum_probs=18.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      -+.|.|+||+|||||...++..
T Consensus        36 ~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          36 ITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4678899999999999888753

>d2hj1a1 d.15.3.4 (A:11-87) Hypothetical protein HI0395 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: HI0395-like
domain: Hypothetical protein HI0395
species: Haemophilus influenzae [TaxId: 727]

Probab=87.74  E-value=0.5  Score=32.73  Aligned_cols=54  Identities=15%  Similarity=0.212  Sum_probs=32.2

Q ss_pred             eEEEeecCCCCHHHhhhhhhcchhcccEEEEEecccccc--cccChhhHhhcCceeecCCCeeeeCCCEEEE
Q psy2401         290 IRAWTIPNGTTAEQAAGIIHTDIKRGFIRALTISYKDFL--LYKGEQGCKNAGKIRSEGKKYLVEDGDILNF  359 (363)
Q Consensus       290 ~raw~~~~g~ta~~~A~~IHsD~~~gfi~A~v~~~~d~~--~~~~~~~~k~~g~~r~~gk~y~v~dgdii~~  359 (363)
                      ...+.++.|+|+.||...  |-+..-|-..      |+-  ..|=+      ||.  ...+|+++|||.|+|
T Consensus        17 ~~~l~v~~GtTv~~Ai~~--Sgi~~~fpei------dl~~~~vGIf------Gk~--v~~~~~L~~gDRVEI   72 (77)
T d2hj1a1          17 LKSFQVDEGITVQTAITQ--SGILSQFPEI------DLSTNKIGIF------SRP--IKLTDVLKEGDRIEI   72 (77)
T ss_dssp             EEEEEEETTCBHHHHHHH--HTHHHHCTTC------CTTTSEEEEE------ECS--CCTTCBCCTTCEEEE
T ss_pred             EEEEECCCCCcHHHHHHH--cCcHhhCccc------ccccccEeEE------CcC--cCCCCcCCCCCEEEE
Confidence            468899999999987542  3333333110      000  01111      332  247999999999987

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=87.67  E-value=0.15  Score=41.49  Aligned_cols=23  Identities=30%  Similarity=0.235  Sum_probs=19.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      .=|.|.|++|+||||+.-.|...
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            34789999999999999888764

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=87.57  E-value=0.13  Score=45.63  Aligned_cols=21  Identities=29%  Similarity=0.341  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .+.++||+|||||.|.++|+.
T Consensus        54 ~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          54 SFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCcchhHHHHHHHHh
Confidence            478999999999999999986

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=87.21  E-value=0.18  Score=40.97  Aligned_cols=22  Identities=27%  Similarity=0.200  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      =+.|.|++|+|||||.-.|...
T Consensus        17 gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          17 GVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHc
Confidence            4788999999999999988864

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=87.11  E-value=0.14  Score=44.52  Aligned_cols=22  Identities=23%  Similarity=0.072  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      -|+|.|..|+|||||...+.+.
T Consensus        46 ~v~I~GmgGiGKTtLA~~v~~~   67 (277)
T d2a5yb3          46 FLFLHGRAGSGKSVIASQALSK   67 (277)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            5789999999999999998753

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=87.06  E-value=0.15  Score=45.57  Aligned_cols=20  Identities=35%  Similarity=0.449  Sum_probs=17.6

Q ss_pred             EEE-EeCCCCcHHHHHHHHHc
Q psy2401           5 CGL-IGLPNVGKSTLFNALTK   24 (363)
Q Consensus         5 i~l-vG~~g~GKSTL~n~Lt~   24 (363)
                      +.| .|+||+|||.|.++|.+
T Consensus       125 ~~l~~G~pG~GKT~la~ala~  145 (321)
T d1w44a_         125 MVIVTGKGNSGKTPLVHALGE  145 (321)
T ss_dssp             EEEEECSSSSCHHHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHH
Confidence            444 69999999999999987

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=86.83  E-value=0.17  Score=42.26  Aligned_cols=21  Identities=19%  Similarity=0.226  Sum_probs=18.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -+.|.|+||+|||+|...++.
T Consensus        28 l~li~G~pGsGKT~l~~qia~   48 (242)
T d1tf7a2          28 IILATGATGTGKTLLVSRFVE   48 (242)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            467889999999999988875

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=86.51  E-value=0.17  Score=43.89  Aligned_cols=21  Identities=24%  Similarity=0.393  Sum_probs=19.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -+.+.|++++|||+|+++|..
T Consensus       106 ~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         106 TIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            367889999999999999986

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=86.29  E-value=0.16  Score=45.59  Aligned_cols=22  Identities=27%  Similarity=0.309  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      ++|+|=|.-||||||+++.|..
T Consensus         5 lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           5 LRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEECSCTTSSHHHHHHHHTC
T ss_pred             eEEEEECCcCCCHHHHHHHHHH
Confidence            6799999999999999999975

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=85.96  E-value=0.24  Score=41.19  Aligned_cols=23  Identities=35%  Similarity=0.302  Sum_probs=20.0

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      |+=|++=|.-||||||+.+.|..
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~   25 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYK   25 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCcHHHHHHHHHH
Confidence            34588999999999999999975

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=85.95  E-value=0.21  Score=40.21  Aligned_cols=23  Identities=26%  Similarity=0.215  Sum_probs=19.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      .=|.|.|++|+||||+.-.|...
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            45789999999999999888764

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=85.82  E-value=0.12  Score=46.34  Aligned_cols=23  Identities=26%  Similarity=0.265  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ++|.|=|.-||||||+++.|...
T Consensus         6 lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           6 LRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEESSSSCTTHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57888899999999999999864

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=85.63  E-value=0.21  Score=41.71  Aligned_cols=21  Identities=24%  Similarity=0.264  Sum_probs=17.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -+.|.|+||+|||||.-.++.
T Consensus        38 ~~li~G~pGsGKT~~~lq~~~   58 (254)
T d1pzna2          38 ITEVFGEFGSGKTQLAHTLAV   58 (254)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            467889999999999887764

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=85.31  E-value=0.21  Score=42.76  Aligned_cols=21  Identities=19%  Similarity=0.112  Sum_probs=17.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -+.|.|+||+|||||...+.-
T Consensus        37 l~vi~G~~G~GKT~~~~~la~   57 (277)
T d1cr2a_          37 VIMVTSGSGMGKSTFVRQQAL   57 (277)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            367889999999999888763

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=84.93  E-value=0.24  Score=40.90  Aligned_cols=21  Identities=14%  Similarity=0.234  Sum_probs=18.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -+.|.|+||+|||+|...++.
T Consensus        36 l~~i~G~~G~GKT~~~l~~a~   56 (258)
T d2i1qa2          36 VTEFAGVFGSGKTQIMHQSCV   56 (258)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            367889999999999988875

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=84.62  E-value=0.23  Score=45.44  Aligned_cols=22  Identities=27%  Similarity=0.277  Sum_probs=19.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .++.++|.+|+|||++++.+..
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~   72 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAY   72 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEeCCCCcHHHHHHHHHH
Confidence            4689999999999999987764

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=84.42  E-value=0.32  Score=38.70  Aligned_cols=22  Identities=27%  Similarity=0.178  Sum_probs=19.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHcC
Q psy2401           4 KCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      -|.|-|.=|||||||.+.+...
T Consensus        35 ii~L~G~LGaGKTtfvr~~~~~   56 (158)
T d1htwa_          35 MVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEecCCCccHHHHHHHHHhh
Confidence            3788999999999999999865

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=84.39  E-value=0.26  Score=44.63  Aligned_cols=22  Identities=32%  Similarity=0.374  Sum_probs=19.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHc
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      .++-++||+|||||-|.++|+.
T Consensus        69 ~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          69 SNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             cceeeeCCCCccHHHHHHHHHh
Confidence            4589999999999999999985

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=84.30  E-value=0.29  Score=41.75  Aligned_cols=21  Identities=33%  Similarity=0.417  Sum_probs=18.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHH
Q psy2401           3 LKCGLIGLPNVGKSTLFNALT   23 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt   23 (363)
                      .+|++.|.-|+||||+.-.|.
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA   22 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLT   22 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHH
T ss_pred             CEEEEECCCcCCHHHHHHHHH
Confidence            689999999999999987765

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=83.80  E-value=0.29  Score=40.43  Aligned_cols=20  Identities=30%  Similarity=0.526  Sum_probs=18.5

Q ss_pred             EEEEeCCCCcHHHHHHHHHc
Q psy2401           5 CGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.+.|++|+||||+...++.
T Consensus        27 lLl~Gp~G~GKtt~a~~~a~   46 (207)
T d1a5ta2          27 LLIQALPGMGDDALIYALSR   46 (207)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            78899999999999998876

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=83.76  E-value=0.35  Score=42.37  Aligned_cols=23  Identities=17%  Similarity=0.432  Sum_probs=20.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHc
Q psy2401           2 NLKCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         2 ~~~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +-|++|+|.+|+|||||+..++.
T Consensus        43 GQr~~I~g~~g~GKT~l~~~i~~   65 (289)
T d1xpua3          43 GQRGLIVAPPKAGKTMLLQNIAQ   65 (289)
T ss_dssp             TCEEEEEECSSSSHHHHHHHHHH
T ss_pred             CCeeeEeCCCCCCHHHHHHHHHH
Confidence            45899999999999999998886

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=83.29  E-value=0.3  Score=41.52  Aligned_cols=20  Identities=30%  Similarity=0.280  Sum_probs=17.2

Q ss_pred             EEEEeCCCCcHHHHHHHHHc
Q psy2401           5 CGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.|.|+||+|||||.-.|+.
T Consensus        32 ~~i~G~~G~GKS~l~l~la~   51 (274)
T d1nlfa_          32 GALVSPGGAGKSMLALQLAA   51 (274)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            56889999999999988764

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=83.26  E-value=0.3  Score=41.09  Aligned_cols=20  Identities=30%  Similarity=0.396  Sum_probs=17.9

Q ss_pred             EEEEeCCCCcHHHHHHHHHc
Q psy2401           5 CGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      +.|.|+||+||||+.+++..
T Consensus        37 ~Ll~Gp~G~GKtt~a~~~~~   56 (239)
T d1njfa_          37 YLFSGTRGVGKTSIARLLAK   56 (239)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            67789999999999999875

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.00  E-value=0.32  Score=40.39  Aligned_cols=21  Identities=24%  Similarity=0.205  Sum_probs=18.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHc
Q psy2401           4 KCGLIGLPNVGKSTLFNALTK   24 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~n~Lt~   24 (363)
                      -+.|.|+||+|||+|.-.++.
T Consensus        39 ~~~i~G~~GsGKT~lalq~~~   59 (258)
T d1v5wa_          39 ITEAFGEFRTGKTQLSHTLCV   59 (258)
T ss_dssp             EEEEECCTTCTHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            477899999999999888874

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=82.89  E-value=0.33  Score=43.46  Aligned_cols=23  Identities=26%  Similarity=0.278  Sum_probs=21.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHcC
Q psy2401           3 LKCGLIGLPNVGKSTLFNALTKL   25 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt~~   25 (363)
                      ++|.|=|.-||||||+++.|...
T Consensus         7 ~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           7 VRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHSG
T ss_pred             EEEEEECCccCCHHHHHHHHHHH
Confidence            68999999999999999999873

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=82.77  E-value=0.4  Score=39.24  Aligned_cols=21  Identities=14%  Similarity=0.097  Sum_probs=17.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHH
Q psy2401           3 LKCGLIGLPNVGKSTLFNALT   23 (363)
Q Consensus         3 ~~i~lvG~~g~GKSTL~n~Lt   23 (363)
                      .-+.|.|+||+|||+|.-.++
T Consensus        27 ~~~~I~G~~G~GKT~la~~~~   47 (242)
T d1tf7a1          27 RSTLVSGTSGTGKTLFSIQFL   47 (242)
T ss_dssp             SEEEEEESTTSSHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHH
Confidence            346788999999999986654

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=82.70  E-value=0.21  Score=43.04  Aligned_cols=16  Identities=19%  Similarity=0.434  Sum_probs=13.2

Q ss_pred             EEEEEeCCCCcHHHHH
Q psy2401           4 KCGLIGLPNVGKSTLF   19 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~   19 (363)
                      .+.|+|+||+||||.+
T Consensus        16 ~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          16 PCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEEECCCTTSCHHHHH
T ss_pred             CEEEEeeCCccHHHHH
Confidence            4678899999999754

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=81.89  E-value=0.3  Score=42.54  Aligned_cols=16  Identities=13%  Similarity=0.200  Sum_probs=13.4

Q ss_pred             EEEEEeCCCCcHHHHH
Q psy2401           4 KCGLIGLPNVGKSTLF   19 (363)
Q Consensus         4 ~i~lvG~~g~GKSTL~   19 (363)
                      .+.|.|+|||||||.+
T Consensus        26 ~~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVL   41 (318)
T ss_dssp             CEEEEECTTSCHHHHH
T ss_pred             CEEEEecCCccHHHHH
Confidence            4678899999999754

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=81.59  E-value=0.39  Score=40.63  Aligned_cols=19  Identities=26%  Similarity=0.170  Sum_probs=17.2

Q ss_pred             EEEEeCCCCcHHHHHHHHH
Q psy2401           5 CGLIGLPNVGKSTLFNALT   23 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt   23 (363)
                      +.|-|+|.+||||+++++.
T Consensus        44 ~iiTGpN~~GKSt~lk~i~   62 (234)
T d1wb9a2          44 LIITGPNMGGKSTYMRQTA   62 (234)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEeccCchhhHHHHHHHH
Confidence            5778999999999999985

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=80.01  E-value=0.46  Score=39.89  Aligned_cols=19  Identities=26%  Similarity=0.300  Sum_probs=17.1

Q ss_pred             EEEEeCCCCcHHHHHHHHH
Q psy2401           5 CGLIGLPNVGKSTLFNALT   23 (363)
Q Consensus         5 i~lvG~~g~GKSTL~n~Lt   23 (363)
                      +.|-|+|.+||||+++++.
T Consensus        38 ~iiTGpN~~GKSt~lk~i~   56 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTA   56 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHH
T ss_pred             EEEECCCccccchhhhhhH
Confidence            5788999999999999885